Thu Dec 19 08:39:09 UTC 2024 I: starting to build r-base/unstable/arm64 on jenkins on '2024-12-19 08:39' Thu Dec 19 08:39:09 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_13/52507/console.log Thu Dec 19 08:39:09 UTC 2024 I: Downloading source for unstable/r-base=4.4.2-1 --2024-12-19 08:39:09-- http://deb.debian.org/debian/pool/main/r/r-base/r-base_4.4.2-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2906 (2.8K) [text/prs.lines.tag] Saving to: ‘r-base_4.4.2-1.dsc’ 0K .. 100% 167M=0s 2024-12-19 08:39:09 (167 MB/s) - ‘r-base_4.4.2-1.dsc’ saved [2906/2906] Thu Dec 19 08:39:09 UTC 2024 I: r-base_4.4.2-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: r-base Binary: r-base, r-base-core, r-base-dev, r-mathlib, r-base-html, r-doc-pdf, r-doc-html, r-doc-info, r-recommended Architecture: any all Version: 4.4.2-1 Maintainer: Dirk Eddelbuettel Homepage: http://www.r-project.org/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/edd/r-base Vcs-Git: https://salsa.debian.org/edd/r-base.git Build-Depends: gcc (>= 4:4.9.2-2), g++ (>= 4:4.9.2-2), gfortran (>= 4:4.9.2-2), libblas-dev, liblapack-dev, tcl8.6-dev, tk8.6-dev, bison, groff-base, libncurses-dev, libreadline-dev, debhelper-compat (= 13), texinfo, libbz2-dev, liblzma-dev, libpcre2-dev, libcurl4-openssl-dev | libcurl4-dev, xdg-utils, zlib1g-dev, libpng-dev, libjpeg-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-plain-generic, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, default-jdk [!arm !hppa !kfreebsd-any !hurd-any] | openjdk-10-jdk [!arm !hppa !kfreebsd-any !hurd-any], mpack, bash-completion, libtirpc-dev Package-List: r-base deb gnu-r optional arch=all r-base-core deb gnu-r optional arch=any r-base-dev deb gnu-r optional arch=all r-base-html deb doc optional arch=all r-doc-html deb doc optional arch=all r-doc-info deb doc optional arch=all r-doc-pdf deb doc optional arch=all r-mathlib deb gnu-r optional arch=any r-recommended deb gnu-r optional arch=all Checksums-Sha1: 19a5ad3b86c02e12833f35fb1275e9aa1ae1e50f 37582785 r-base_4.4.2.orig.tar.gz 6d7695496c7bf391f9dd3b59967def210b8238db 100592 r-base_4.4.2-1.debian.tar.xz Checksums-Sha256: 1578cd603e8d866b58743e49d8bf99c569e81079b6a60cf33cdf7bdffeb817ec 37582785 r-base_4.4.2.orig.tar.gz c17da84e76400bc6f38a489c867c4a5e112fa8f685f01bb7f60ce42caf604d36 100592 r-base_4.4.2-1.debian.tar.xz Files: 543fe0323713f3f8844fff7c97d2b1c9 37582785 r-base_4.4.2.orig.tar.gz e0168720f712832ad0aed6ec421aedd5 100592 r-base_4.4.2-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIVAwUBZyN7w6FIn+KrmaIaAQjNHg/8D713l3Bm1e6Q+PzCVW3leeGlpYRFGyhm b3oKjplQgkKIdUQJqxovl1A0NDiFSiUxPFMsgfYVxyKNUB/y6WTSFsSA8bMNa55s zjMNhB/drUAGrMIfJIHWMxZHFwPv9CrmqxirxfWlFaFYs8IR6gGFHcZnnNPBIg1S 7tovWWt45wuyNgrtv6UTdTjK/mYmKsY5BCFgr6GVQCDogHRtbqTicXeovajI3DnM qMtXKEh7v1CaffzxdDKhgGKldZeYeAREZli6xfQvVby4stG+ty2uVKpDIilEYsuV hqydkcd5hxOvkEbrive2kfFpRzqMmoz5ha9Bq3XxRFBQVwmg0s0dRX2X+/Iu1QdD Hn0Xl776sWOtFZz1HFmaYfCYSk7Olc7c9vl3u/Hv7AszROh0/L9t+wy4MB6G2YAr ygWC1B0M4JdJHOL34cXJlrohTiaWXZFvtqfz+zqVvOpCrHlVCcDA6sXUxvUmOqkQ OJEEGgsEfPb+F+XvTpaNM8SLwCZ6BEA2bRycyJtjnAgiBF7YoCrdDcWRLVsCsQ8R TSA8u++3yxWzerRDwbi5od4J3LC0MIqm29SCSJo298MFQWei/aqfZJrc3sThKb38 NIVK7HHGnFl9KI0cJN8mkkRzXxW68RygGBW0+o0y8TQhU8SfYX/oTY90JP5N/5mu dwF+V3YIi7c= =WQUI -----END PGP SIGNATURE----- Thu Dec 19 08:39:09 UTC 2024 I: Checking whether the package is not for us Thu Dec 19 08:39:09 UTC 2024 I: Starting 1st build on remote node codethink01-arm64.debian.net. Thu Dec 19 08:39:09 UTC 2024 I: Preparing to do remote build '1' on codethink01-arm64.debian.net. Thu Dec 19 09:03:31 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Jan 21 03:02:12 -12 2026 I: pbuilder-time-stamp: 1769007732 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [r-base_4.4.2-1.dsc] I: copying [./r-base_4.4.2.orig.tar.gz] I: copying [./r-base_4.4.2-1.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Oct 31 12:44:51 2024 gpgv: using RSA key A1489FE2AB99A21A gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./r-base_4.4.2-1.dsc: no acceptable signature found dpkg-source: info: extracting r-base in r-base-4.4.2 dpkg-source: info: unpacking r-base_4.4.2.orig.tar.gz dpkg-source: info: unpacking r-base_4.4.2-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying set_R_LIBS_USER_and_SITE_in_Renviron.patch dpkg-source: info: applying r_4_4_x_tar_archive_symlink I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3058229/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='c96b02f247b4456da6938a7092a7bfef' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='3058229' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.pha4H7eF/pbuilderrc_j3gW --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.pha4H7eF/b1 --logfile b1/build.log r-base_4.4.2-1.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink01-arm64 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3058229/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: gcc (>= 4:4.9.2-2), g++ (>= 4:4.9.2-2), gfortran (>= 4:4.9.2-2), libblas-dev, liblapack-dev, tcl8.6-dev, tk8.6-dev, bison, groff-base, libncurses-dev, libreadline-dev, debhelper-compat (= 13), texinfo, libbz2-dev, liblzma-dev, libpcre2-dev, libcurl4-openssl-dev | libcurl4-dev, xdg-utils, zlib1g-dev, libpng-dev, libjpeg-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-plain-generic, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, default-jdk | openjdk-10-jdk, mpack, bash-completion, libtirpc-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20085 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on gfortran (>= 4:4.9.2-2); however: Package gfortran is not installed. pbuilder-satisfydepends-dummy depends on libblas-dev; however: Package libblas-dev is not installed. pbuilder-satisfydepends-dummy depends on liblapack-dev; however: Package liblapack-dev is not installed. pbuilder-satisfydepends-dummy depends on tcl8.6-dev; however: Package tcl8.6-dev is not installed. pbuilder-satisfydepends-dummy depends on tk8.6-dev; however: Package tk8.6-dev is not installed. pbuilder-satisfydepends-dummy depends on bison; however: Package bison is not installed. pbuilder-satisfydepends-dummy depends on groff-base; however: Package groff-base is not installed. pbuilder-satisfydepends-dummy depends on libncurses-dev; however: Package libncurses-dev is not installed. pbuilder-satisfydepends-dummy depends on libreadline-dev; however: Package libreadline-dev is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on texinfo; however: Package texinfo is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on liblzma-dev; however: Package liblzma-dev is not installed. pbuilder-satisfydepends-dummy depends on libpcre2-dev; however: Package libpcre2-dev is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-openssl-dev | libcurl4-dev; however: Package libcurl4-openssl-dev is not installed. Package libcurl4-dev is not installed. pbuilder-satisfydepends-dummy depends on xdg-utils; however: Package xdg-utils is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libpng-dev; however: Package libpng-dev is not installed. pbuilder-satisfydepends-dummy depends on libjpeg-dev; however: Package libjpeg-dev is not installed. pbuilder-satisfydepends-dummy depends on libx11-dev; however: Package libx11-dev is not installed. pbuilder-satisfydepends-dummy depends on libxt-dev; however: Package libxt-dev is not installed. pbuilder-satisfydepends-dummy depends on x11proto-core-dev; however: Package x11proto-core-dev is not installed. pbuilder-satisfydepends-dummy depends on libpango1.0-dev; however: Package libpango1.0-dev is not installed. pbuilder-satisfydepends-dummy depends on libcairo2-dev; however: Package libcairo2-dev is not installed. pbuilder-satisfydepends-dummy depends on libtiff-dev; however: Package libtiff-dev is not installed. pbuilder-satisfydepends-dummy depends on xvfb; however: Package xvfb is not installed. pbuilder-satisfydepends-dummy depends on xauth; however: Package xauth is not installed. pbuilder-satisfydepends-dummy depends on xfonts-base; however: Package xfonts-base is not installed. pbuilder-satisfydepends-dummy depends on texlive-base; however: Package texlive-base is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-base; however: Package texlive-latex-base is not installed. pbuilder-satisfydepends-dummy depends on texlive-plain-generic; however: Package texlive-plain-generic is not installed. pbuilder-satisfydepends-dummy depends on texlive-fonts-recommended; however: Package texlive-fonts-recommended is not installed. pbuilder-satisfydepends-dummy depends on texlive-fonts-extra; however: Package texlive-fonts-extra is not installed. pbuilder-satisfydepends-dummy depends on texlive-extra-utils; however: Package texlive-extra-utils is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-recommended; however: Package texlive-latex-recommended is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-extra; however: Package texlive-latex-extra is not installed. pbuilder-satisfydepends-dummy depends on default-jdk | openjdk-10-jdk; however: Package default-jdk is not installed. Package openjdk-10-jdk is not installed. pbuilder-satisfydepends-dummy depends on mpack; however: Package mpack is not installed. pbuilder-satisfydepends-dummy depends on bash-completion; however: Package bash-completion is not installed. pbuilder-satisfydepends-dummy depends on libtirpc-dev; however: Package libtirpc-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bash-completion{a} bison{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} comerr-dev{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-lmodern{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-aarch64-linux-gnu{a} gfortran-aarch64-linux-gnu{a} gir1.2-freedesktop{a} gir1.2-freedesktop-dev{a} gir1.2-glib-2.0{a} gir1.2-glib-2.0-dev{a} gir1.2-harfbuzz-0.0{a} gir1.2-pango-1.0{a} girepository-tools{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} icu-devtools{a} intltool-debian{a} java-common{a} krb5-multidev{a} libapache-pom-java{a} libapparmor1{a} libarchive-zip-perl{a} libasound2-data{a} libasound2t64{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libblas-dev{a} libblas3{a} libblkid-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo-gobject2{a} libcairo-script-interpreter2{a} libcairo2{a} libcairo2-dev{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcommons-logging-java{a} libcommons-parent-java{a} libcups2t64{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdatrie-dev{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libelf1t64{a} libepoxy0{a} libevent-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libffi-dev{a} libfile-homedir-perl{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontbox-java{a} libfontconfig-dev{a} libfontconfig1{a} libfontconfig1-dev{a} libfontenc1{a} libfreetype-dev{a} libfreetype6{a} libfribidi-dev{a} libfribidi0{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgfortran-14-dev{a} libgfortran5{a} libgif7{a} libgio-2.0-dev{a} libgio-2.0-dev-bin{a} libgirepository-2.0-0{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0t64{a} libglib2.0-bin{a} libglib2.0-data{a} libglib2.0-dev{a} libglib2.0-dev-bin{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgraphite2-3{a} libgraphite2-dev{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtk-3-0t64{a} libgtk-3-common{a} libharfbuzz-cairo0{a} libharfbuzz-dev{a} libharfbuzz-gobject0{a} libharfbuzz-icu0{a} libharfbuzz-subset0{a} libharfbuzz0b{a} libice-dev{a} libice6{a} libicu-dev{a} libicu72{a} libidn2-dev{a} libjbig-dev{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-jquery{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkpathsea6{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} liblcms2-2{a} libldap-2.5-0{a} libldap-dev{a} liblerc-dev{a} liblerc4{a} libllvm19{a} liblzma-dev{a} liblzo2-2{a} libmagic-mgc{a} libmagic1t64{a} libmime-charset-perl{a} libmount-dev{a} libmpfi0{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp2-dev{a} libnsl2{a} libnspr4{a} libnss3{a} libp11-kit-dev{a} libpam-systemd{a} libpango-1.0-0{a} libpango1.0-dev{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpangoxft-1.0-0{a} libpaper-utils{a} libpaper1{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpcsclite1{a} libpdfbox-java{a} libpipeline1{a} libpixman-1-0{a} libpixman-1-dev{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libpotrace0{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libptexenc1{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline-dev{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libselinux1-dev{a} libsensors-config{a} libsensors5{a} libsepol-dev{a} libsharpyuv-dev{a} libsharpyuv0{a} libsm-dev{a} libsm6{a} libsombok3{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsynctex2{a} libsysprof-capture-4-dev{a} libsystemd-shared{a} libtasn1-6-dev{a} libtcl8.6{a} libteckit0{a} libtexlua53-5{a} libtext-unidecode-perl{a} libthai-data{a} libthai-dev{a} libthai0{a} libtiff-dev{a} libtiff6{a} libtiffxx6{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libuchardet0{a} libunbound8{a} libunicode-linebreak-perl{a} libunwind8{a} libvulkan1{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp-dev{a} libwebp7{a} libwebpdecoder3{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxaw7{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-render0-dev{a} libxcb-shm0{a} libxcb-shm0-dev{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcb1-dev{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxfixes3{a} libxfont2{a} libxft-dev{a} libxft2{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxkbfile1{a} libxml-libxml-perl{a} libxml-namespacesupport-perl{a} libxml-sax-base-perl{a} libxml-sax-perl{a} libxml2{a} libxmu6{a} libxmuu1{a} libxpm4{a} libxrandr2{a} libxrender-dev{a} libxrender1{a} libxshmfence1{a} libxss-dev{a} libxss1{a} libxt-dev{a} libxt6t64{a} libxtst6{a} libxxf86vm1{a} libyaml-tiny-perl{a} libz3-4{a} libzstd-dev{a} libzzip-0-13t64{a} lmodern{a} m4{a} man-db{a} media-types{a} mesa-libgallium{a} mpack{a} native-architecture{a} netbase{a} nettle-dev{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} pango1.0-tools{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} preview-latex-style{a} procps{a} python3{a} python3-minimal{a} python3-packaging{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} shared-mime-info{a} systemd{a} systemd-sysv{a} t1utils{a} tcl8.6{a} tcl8.6-dev{a} tex-common{a} texinfo{a} texinfo-lib{a} texlive-base{a} texlive-binaries{a} texlive-extra-utils{a} texlive-fonts-extra{a} texlive-fonts-recommended{a} texlive-latex-base{a} texlive-latex-extra{a} texlive-latex-recommended{a} texlive-luatex{a} texlive-pictures{a} texlive-plain-generic{a} tk8.6{a} tk8.6-dev{a} tzdata{a} ucf{a} uuid-dev{a} x11-common{a} x11-xkb-utils{a} x11proto-core-dev{a} x11proto-dev{a} xauth{a} xdg-utils{a} xfonts-base{a} xfonts-encodings{a} xfonts-utils{a} xkb-data{a} xorg-sgml-doctools{a} xserver-common{a} xtrans-dev{a} xvfb{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf at-spi2-core bzip2-doc chrony cm-super curl dvisvgm fonts-adf-accanthis fonts-adf-berenis fonts-adf-gillius fonts-adf-universalis fonts-cabin fonts-cantarell fonts-clear-sans fonts-comfortaa fonts-comic-neue fonts-croscore fonts-crosextra-caladea fonts-crosextra-carlito fonts-dejavu-extra fonts-ebgaramond-extra fonts-font-awesome fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-go fonts-inter fonts-lato fonts-linuxlibertine fonts-lobstertwo fonts-noto-color-emoji fonts-noto-core fonts-noto-mono fonts-oflb-asana-math fonts-open-sans fonts-paratype fonts-roboto-slab fonts-roboto-unhinted fonts-sil-andika fonts-sil-charis fonts-sil-gentium fonts-sil-gentium-basic fonts-sil-gentiumplus fonts-sil-gentiumplus-compact fonts-stix ghostscript javascript-common krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libfile-mimeinfo-perl libgdk-pixbuf2.0-bin libgpm2 libgtk-3-bin libkmod2 libldap-common liblog-log4perl-perl libltdl-dev libmail-sendmail-perl libnet-dbus-perl libnss-systemd libpng-tools librsvg2-common libsasl2-modules libspreadsheet-parseexcel-perl libtasn1-doc libwww-perl libx11-protocol-perl libxml-sax-expat-perl linux-sysctl-defaults lynx mesa-vulkan-drivers ntpsec openntpd psmisc publicsuffix ruby systemd-cryptsetup systemd-timesyncd tex-gyre texlive-fonts-extra-links tipa tk wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 396 newly installed, 0 to remove and 0 not upgraded. Need to get 1157 MB of archives. After unpacking 3377 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libapparmor1 arm64 3.1.7-1+b3 [41.8 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libsystemd-shared arm64 257-2 [1905 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 systemd arm64 257-2 [3370 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 systemd-sysv arm64 257-2 [59.5 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 libdbus-1-3 arm64 1.16.0-1 [168 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 dbus-bin arm64 1.16.0-1 [77.7 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 dbus-session-bus-common all 1.16.0-1 [51.1 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 dbus-daemon arm64 1.16.0-1 [150 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 dbus-system-bus-common all 1.16.0-1 [52.2 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 dbus arm64 1.16.0-1 [69.4 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 libpython3.12-minimal arm64 3.12.8-3 [810 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 python3.12-minimal arm64 3.12.8-3 [1941 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.12.7-1 [26.8 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 tzdata all 2024b-4 [256 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2~rc1-2 [23.7 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3+b1 [78.7 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 libnsl2 arm64 1.3.0-3+b3 [37.9 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 libpython3.12-stdlib arm64 3.12.8-3 [1906 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 python3.12 arm64 3.12.8-3 [677 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.12.7-1 [9708 B] Get: 32 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.12.7-1 [27.8 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-6 [62.3 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-6 [872 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 bash-completion all 1:2.14.0-2 [310 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.3.2-2 [1347 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20240203 [158 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-3 [198 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-6 [1130 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 libpam-systemd arm64 257-2 [270 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.2-12 [91.4 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 ucf all 3.0045 [45.2 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [311 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.82.4-1 [1411 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-5+b1 [9239 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 shared-mime-info arm64 2.4-5+b1 [755 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-3+b1 [173 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.44-3 [273 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.22-1 [42.2 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.4.0-0.1+b1 [112 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.4.0-0.1+b1 [268 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf-2.0-0 arm64 2.42.12+dfsg-1+b1 [131 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 gtk-update-icon-cache arm64 4.16.7+ds-1 [49.8 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 hicolor-icon-theme all 0.18-1 [12.0 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 adwaita-icon-theme all 47.0-2 [463 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 at-spi2-common all 2.54.0-1 [170 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-3 [723 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 bison arm64 2:3.8.2+dfsg-1+b2 [1149 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 ca-certificates-java all 20240118 [11.6 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 comerr-dev arm64 2.1-1.47.2~rc1-2 [55.7 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 dbus-user-session arm64 1.16.0-1 [51.0 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libdconf1 arm64 0.40.0-4+b3 [40.4 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 dconf-service arm64 0.40.0-4+b3 [31.1 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 dconf-gsettings-backend arm64 0.40.0-4+b3 [27.4 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.22 [90.5 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-8 [517 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 86 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-3 [1532 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.22 [919 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 java-common all 0.76 [6776 B] Get: 93 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 libnspr4 arm64 2:4.36-1 [102 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 libnss3 arm64 2:3.106-1 [1292 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 libpcsclite1 arm64 2.3.0-3 [55.1 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 openjdk-21-jre-headless arm64 21.0.5+11-1 [40.6 MB] Get: 98 http://deb.debian.org/debian unstable/main arm64 default-jre-headless arm64 2:1.21-76 [3192 B] Get: 99 http://deb.debian.org/debian unstable/main arm64 libatk1.0-0t64 arm64 2.54.0-1 [49.7 kB] Get: 100 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 103 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.10-2 [337 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.10-2 [789 kB] Get: 105 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b2 [49.3 kB] Get: 106 http://deb.debian.org/debian unstable/main arm64 libxi6 arm64 2:1.8.2-1 [77.8 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 libatspi2.0-0t64 arm64 2.54.0-1 [72.9 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 libatk-bridge2.0-0t64 arm64 2.54.0-1 [64.4 kB] Get: 109 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b6 [297 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-1.1+b1 [318 kB] Get: 114 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-1.1+b1 [387 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.44.0-3 [168 kB] Get: 116 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Get: 117 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.10-1.1+b3 [27.2 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.2-2 [483 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 libcairo-gobject2 arm64 1.18.2-2 [130 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 libcloudproviders0 arm64 0.3.6-1+b1 [27.7 kB] Get: 122 http://deb.debian.org/debian unstable/main arm64 libcolord2 arm64 1.4.7-1+b2 [130 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 libavahi-common-data arm64 0.8-15 [112 kB] Get: 124 http://deb.debian.org/debian unstable/main arm64 libavahi-common3 arm64 0.8-15 [43.3 kB] Get: 125 http://deb.debian.org/debian unstable/main arm64 libavahi-client3 arm64 0.8-15 [46.8 kB] Get: 126 http://deb.debian.org/debian unstable/main arm64 libcups2t64 arm64 2.4.10-2 [235 kB] Get: 127 http://deb.debian.org/debian unstable/main arm64 libepoxy0 arm64 1.5.10-2 [200 kB] Get: 128 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB] Get: 129 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB] Get: 130 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 10.1.0-1 [442 kB] Get: 131 http://deb.debian.org/debian unstable/main arm64 fontconfig arm64 2.15.0-1.1+b1 [463 kB] Get: 132 http://deb.debian.org/debian unstable/main arm64 libthai-data all 0.1.29-2 [168 kB] Get: 133 http://deb.debian.org/debian unstable/main arm64 libdatrie1 arm64 0.2.13-3+b1 [37.6 kB] Get: 134 http://deb.debian.org/debian unstable/main arm64 libthai0 arm64 0.1.29-2+b1 [48.4 kB] Get: 135 http://deb.debian.org/debian unstable/main arm64 libpango-1.0-0 arm64 1.55.0+ds-3 [212 kB] Get: 136 http://deb.debian.org/debian unstable/main arm64 libpangoft2-1.0-0 arm64 1.55.0+ds-3 [52.1 kB] Get: 137 http://deb.debian.org/debian unstable/main arm64 libpangocairo-1.0-0 arm64 1.55.0+ds-3 [33.4 kB] Get: 138 http://deb.debian.org/debian unstable/main arm64 libwayland-client0 arm64 1.23.0-1+b1 [26.0 kB] Get: 139 http://deb.debian.org/debian unstable/main arm64 libwayland-cursor0 arm64 1.23.0-1+b1 [11.5 kB] Get: 140 http://deb.debian.org/debian unstable/main arm64 libwayland-egl1 arm64 1.23.0-1+b1 [5768 B] Get: 141 http://deb.debian.org/debian unstable/main arm64 libxcomposite1 arm64 1:0.4.6-1 [16.4 kB] Get: 142 http://deb.debian.org/debian unstable/main arm64 libxfixes3 arm64 1:6.0.0-2+b3 [20.4 kB] Get: 143 http://deb.debian.org/debian unstable/main arm64 libxcursor1 arm64 1:1.2.2-1+b1 [37.1 kB] Get: 144 http://deb.debian.org/debian unstable/main arm64 libxdamage1 arm64 1:1.1.6-1+b2 [15.6 kB] Get: 145 http://deb.debian.org/debian unstable/main arm64 libxinerama1 arm64 2:1.1.4-3+b3 [16.1 kB] Get: 146 http://deb.debian.org/debian unstable/main arm64 xkb-data all 2.42-1 [790 kB] Get: 147 http://deb.debian.org/debian unstable/main arm64 libxkbcommon0 arm64 1.7.0-2 [106 kB] Get: 148 http://deb.debian.org/debian unstable/main arm64 libxrandr2 arm64 2:1.5.4-1+b2 [36.0 kB] Get: 149 http://deb.debian.org/debian unstable/main arm64 libgtk-3-common all 3.24.43-4 [4657 kB] Get: 150 http://deb.debian.org/debian unstable/main arm64 libgtk-3-0t64 arm64 3.24.43-4 [2546 kB] Get: 151 http://deb.debian.org/debian unstable/main arm64 libglvnd0 arm64 1.7.0-1+b2 [41.6 kB] Get: 152 http://deb.debian.org/debian unstable/main arm64 libdrm-common all 2.4.123-1 [8084 B] Get: 153 http://deb.debian.org/debian unstable/main arm64 libdrm2 arm64 2.4.123-1 [38.0 kB] Get: 154 http://deb.debian.org/debian unstable/main arm64 libglapi-mesa arm64 24.2.8-1 [48.2 kB] Get: 155 http://deb.debian.org/debian unstable/main arm64 libx11-xcb1 arm64 2:1.8.10-2 [241 kB] Get: 156 http://deb.debian.org/debian unstable/main arm64 libxcb-dri2-0 arm64 1.17.0-2+b1 [107 kB] Get: 157 http://deb.debian.org/debian unstable/main arm64 libxcb-dri3-0 arm64 1.17.0-2+b1 [107 kB] Get: 158 http://deb.debian.org/debian unstable/main arm64 libxcb-glx0 arm64 1.17.0-2+b1 [123 kB] Get: 159 http://deb.debian.org/debian unstable/main arm64 libxcb-present0 arm64 1.17.0-2+b1 [106 kB] Get: 160 http://deb.debian.org/debian unstable/main arm64 libxcb-randr0 arm64 1.17.0-2+b1 [117 kB] Get: 161 http://deb.debian.org/debian unstable/main arm64 libxcb-sync1 arm64 1.17.0-2+b1 [109 kB] Get: 162 http://deb.debian.org/debian unstable/main arm64 libxcb-xfixes0 arm64 1.17.0-2+b1 [110 kB] Get: 163 http://deb.debian.org/debian unstable/main arm64 libxshmfence1 arm64 1.3-1+b2 [9076 B] Get: 164 http://deb.debian.org/debian unstable/main arm64 libxxf86vm1 arm64 1:1.1.4-1+b3 [19.2 kB] Get: 165 http://deb.debian.org/debian unstable/main arm64 libdrm-amdgpu1 arm64 2.4.123-1 [21.6 kB] Get: 166 http://deb.debian.org/debian unstable/main arm64 libdrm-radeon1 arm64 2.4.123-1 [21.3 kB] Get: 167 http://deb.debian.org/debian unstable/main arm64 libedit2 arm64 3.1-20240808-1 [89.2 kB] Get: 168 http://deb.debian.org/debian unstable/main arm64 libz3-4 arm64 4.13.3-1 [7507 kB] Get: 169 http://deb.debian.org/debian unstable/main arm64 libllvm19 arm64 1:19.1.5-1 [23.3 MB] Get: 170 http://deb.debian.org/debian unstable/main arm64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get: 171 http://deb.debian.org/debian unstable/main arm64 libsensors5 arm64 1:3.6.0-10+b1 [34.3 kB] Get: 172 http://deb.debian.org/debian unstable/main arm64 mesa-libgallium arm64 24.2.8-1 [7689 kB] Get: 173 http://deb.debian.org/debian unstable/main arm64 libvulkan1 arm64 1.3.296.0-1 [123 kB] Get: 174 http://deb.debian.org/debian unstable/main arm64 libwayland-server0 arm64 1.23.0-1+b1 [33.4 kB] Get: 175 http://deb.debian.org/debian unstable/main arm64 libgbm1 arm64 24.2.8-1 [42.0 kB] Get: 176 http://deb.debian.org/debian unstable/main arm64 libgl1-mesa-dri arm64 24.2.8-1 [43.6 kB] Get: 177 http://deb.debian.org/debian unstable/main arm64 libglx-mesa0 arm64 24.2.8-1 [152 kB] Get: 178 http://deb.debian.org/debian unstable/main arm64 libglx0 arm64 1.7.0-1+b2 [31.1 kB] Get: 179 http://deb.debian.org/debian unstable/main arm64 libgl1 arm64 1.7.0-1+b2 [90.9 kB] Get: 180 http://deb.debian.org/debian unstable/main arm64 libasound2-data all 1.2.12-1 [21.0 kB] Get: 181 http://deb.debian.org/debian unstable/main arm64 libasound2t64 arm64 1.2.12-1+b1 [336 kB] Get: 182 http://deb.debian.org/debian unstable/main arm64 libgif7 arm64 5.2.2-1+b1 [44.2 kB] Get: 183 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+23.1 [216 kB] Get: 184 http://deb.debian.org/debian unstable/main arm64 libxtst6 arm64 2:1.2.3-1.1+b3 [26.0 kB] Get: 185 http://deb.debian.org/debian unstable/main arm64 openjdk-21-jre arm64 21.0.5+11-1 [193 kB] Get: 186 http://deb.debian.org/debian unstable/main arm64 default-jre arm64 2:1.21-76 [1068 B] Get: 187 http://deb.debian.org/debian unstable/main arm64 openjdk-21-jdk-headless arm64 21.0.5+11-1 [81.9 MB] Get: 188 http://deb.debian.org/debian unstable/main arm64 default-jdk-headless arm64 2:1.21-76 [1124 B] Get: 189 http://deb.debian.org/debian unstable/main arm64 openjdk-21-jdk arm64 21.0.5+11-1 [3422 kB] Get: 190 http://deb.debian.org/debian unstable/main arm64 default-jdk arm64 2:1.21-76 [1076 B] Get: 191 http://deb.debian.org/debian unstable/main arm64 fonts-lmodern all 2.005-1 [4540 kB] Get: 192 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14.2.0-11 [361 kB] Get: 193 http://deb.debian.org/debian unstable/main arm64 libgfortran-14-dev arm64 14.2.0-11 [427 kB] Get: 194 http://deb.debian.org/debian unstable/main arm64 gfortran-14-aarch64-linux-gnu arm64 14.2.0-11 [9789 kB] Get: 195 http://deb.debian.org/debian unstable/main arm64 gfortran-14 arm64 14.2.0-11 [13.2 kB] Get: 196 http://deb.debian.org/debian unstable/main arm64 gfortran-aarch64-linux-gnu arm64 4:14.2.0-1 [1284 B] Get: 197 http://deb.debian.org/debian unstable/main arm64 gfortran arm64 4:14.2.0-1 [1424 B] Get: 198 http://deb.debian.org/debian unstable/main arm64 gir1.2-glib-2.0 arm64 2.82.4-1 [194 kB] Get: 199 http://deb.debian.org/debian unstable/main arm64 gir1.2-freedesktop arm64 1.82.0-3 [60.0 kB] Get: 200 http://deb.debian.org/debian unstable/main arm64 gir1.2-glib-2.0-dev arm64 2.82.4-1 [903 kB] Get: 201 http://deb.debian.org/debian unstable/main arm64 gir1.2-freedesktop-dev arm64 1.82.0-3 [51.1 kB] Get: 202 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-gobject0 arm64 10.1.0-1 [31.7 kB] Get: 203 http://deb.debian.org/debian unstable/main arm64 gir1.2-harfbuzz-0.0 arm64 10.1.0-1 [41.9 kB] Get: 204 http://deb.debian.org/debian unstable/main arm64 libxft2 arm64 2.3.6-1+b3 [51.6 kB] Get: 205 http://deb.debian.org/debian unstable/main arm64 libpangoxft-1.0-0 arm64 1.55.0+ds-3 [26.9 kB] Get: 206 http://deb.debian.org/debian unstable/main arm64 gir1.2-pango-1.0 arm64 1.55.0+ds-3 [38.8 kB] Get: 207 http://deb.debian.org/debian unstable/main arm64 native-architecture all 0.2.3 [2108 B] Get: 208 http://deb.debian.org/debian unstable/main arm64 libgirepository-2.0-0 arm64 2.82.4-1 [130 kB] Get: 209 http://deb.debian.org/debian unstable/main arm64 girepository-tools arm64 2.82.4-1 [135 kB] Get: 210 http://deb.debian.org/debian unstable/main arm64 icu-devtools arm64 72.1-5+b1 [195 kB] Get: 211 http://deb.debian.org/debian unstable/main arm64 libgssrpc4t64 arm64 1.21.3-3 [56.7 kB] Get: 212 http://deb.debian.org/debian unstable/main arm64 libkadm5clnt-mit12 arm64 1.21.3-3 [40.3 kB] Get: 213 http://deb.debian.org/debian unstable/main arm64 libkdb5-10t64 arm64 1.21.3-3 [40.8 kB] Get: 214 http://deb.debian.org/debian unstable/main arm64 libkadm5srv-mit12 arm64 1.21.3-3 [52.2 kB] Get: 215 http://deb.debian.org/debian unstable/main arm64 krb5-multidev arm64 1.21.3-3 [126 kB] Get: 216 http://deb.debian.org/debian unstable/main arm64 libapache-pom-java all 33-2 [5852 B] Get: 217 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.0-4 [98.7 kB] Get: 218 http://deb.debian.org/debian unstable/main arm64 libblas-dev arm64 3.12.0-4 [106 kB] Get: 219 http://deb.debian.org/debian unstable/main arm64 uuid-dev arm64 2.40.2-12 [48.0 kB] Get: 220 http://deb.debian.org/debian unstable/main arm64 libblkid-dev arm64 2.40.2-12 [209 kB] Get: 221 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b6 [308 kB] Get: 222 http://deb.debian.org/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 223 http://deb.debian.org/debian unstable/main arm64 liblzo2-2 arm64 2.10-3+b1 [49.6 kB] Get: 224 http://deb.debian.org/debian unstable/main arm64 libcairo-script-interpreter2 arm64 1.18.2-2 [57.4 kB] Get: 225 http://deb.debian.org/debian unstable/main arm64 libexpat1-dev arm64 2.6.4-1 [143 kB] Get: 226 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 227 http://deb.debian.org/debian unstable/main arm64 libpng-dev arm64 1.6.44-3 [360 kB] Get: 228 http://deb.debian.org/debian unstable/main arm64 libfreetype-dev arm64 2.13.3+dfsg-1 [600 kB] Get: 229 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 230 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 231 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 232 http://deb.debian.org/debian unstable/main arm64 libfontconfig-dev arm64 2.15.0-1.1+b1 [411 kB] Get: 233 http://deb.debian.org/debian unstable/main arm64 libffi-dev arm64 3.4.6-1 [57.0 kB] Get: 234 http://deb.debian.org/debian unstable/main arm64 libsepol-dev arm64 3.7-1 [354 kB] Get: 235 http://deb.debian.org/debian unstable/main arm64 libpcre2-16-0 arm64 10.44-5 [230 kB] Get: 236 http://deb.debian.org/debian unstable/main arm64 libpcre2-32-0 arm64 10.44-5 [220 kB] Get: 237 http://deb.debian.org/debian unstable/main arm64 libpcre2-posix3 arm64 10.44-5 [60.5 kB] Get: 238 http://deb.debian.org/debian unstable/main arm64 libpcre2-dev arm64 10.44-5 [704 kB] Get: 239 http://deb.debian.org/debian unstable/main arm64 libselinux1-dev arm64 3.7-3+b1 [164 kB] Get: 240 http://deb.debian.org/debian unstable/main arm64 libmount-dev arm64 2.40.2-12 [29.1 kB] Get: 241 http://deb.debian.org/debian unstable/main arm64 libsysprof-capture-4-dev arm64 47.2-1 [49.1 kB] Get: 242 http://deb.debian.org/debian unstable/main arm64 libgio-2.0-dev arm64 2.82.4-1 [1698 kB] Get: 243 http://deb.debian.org/debian unstable/main arm64 libglib2.0-data all 2.82.4-1 [1276 kB] Get: 244 http://deb.debian.org/debian unstable/main arm64 libglib2.0-bin arm64 2.82.4-1 [123 kB] Get: 245 http://deb.debian.org/debian unstable/main arm64 python3-packaging all 24.2-1 [55.3 kB] Get: 246 http://deb.debian.org/debian unstable/main arm64 libgio-2.0-dev-bin arm64 2.82.4-1 [162 kB] Get: 247 http://deb.debian.org/debian unstable/main arm64 libglib2.0-dev-bin arm64 2.82.4-1 [52.0 kB] Get: 248 http://deb.debian.org/debian unstable/main arm64 libglib2.0-dev arm64 2.82.4-1 [52.7 kB] Get: 249 http://deb.debian.org/debian unstable/main arm64 libpixman-1-dev arm64 0.44.0-3 [11.4 kB] Get: 250 http://deb.debian.org/debian unstable/main arm64 libice6 arm64 2:1.1.1-1 [62.1 kB] Get: 251 http://deb.debian.org/debian unstable/main arm64 libsm6 arm64 2:1.2.4-1 [34.2 kB] Get: 252 http://deb.debian.org/debian unstable/main arm64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 253 http://deb.debian.org/debian unstable/main arm64 x11proto-dev all 2024.1-1 [603 kB] Get: 254 http://deb.debian.org/debian unstable/main arm64 x11proto-core-dev all 2024.1-1 [3312 B] Get: 255 http://deb.debian.org/debian unstable/main arm64 libice-dev arm64 2:1.1.1-1 [73.0 kB] Get: 256 http://deb.debian.org/debian unstable/main arm64 libsm-dev arm64 2:1.2.4-1 [38.0 kB] Get: 257 http://deb.debian.org/debian unstable/main arm64 libxau-dev arm64 1:1.0.11-1 [23.9 kB] Get: 258 http://deb.debian.org/debian unstable/main arm64 libxdmcp-dev arm64 1:1.1.5-1 [44.2 kB] Get: 259 http://deb.debian.org/debian unstable/main arm64 xtrans-dev all 1.4.0-1 [98.7 kB] Get: 260 http://deb.debian.org/debian unstable/main arm64 libxcb1-dev arm64 1.17.0-2+b1 [182 kB] Get: 261 http://deb.debian.org/debian unstable/main arm64 libx11-dev arm64 2:1.8.10-2 [877 kB] Get: 262 http://deb.debian.org/debian unstable/main arm64 libxcb-render0-dev arm64 1.17.0-2+b1 [119 kB] Get: 263 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0-dev arm64 1.17.0-2+b1 [108 kB] Get: 264 http://deb.debian.org/debian unstable/main arm64 libxext-dev arm64 2:1.3.4-1+b2 [105 kB] Get: 265 http://deb.debian.org/debian unstable/main arm64 libxrender-dev arm64 1:0.9.10-1.1+b3 [35.7 kB] Get: 266 http://deb.debian.org/debian unstable/main arm64 libcairo2-dev arm64 1.18.2-2 [43.0 kB] Get: 267 http://deb.debian.org/debian unstable/main arm64 libcommons-parent-java all 56-1 [10.8 kB] Get: 268 http://deb.debian.org/debian unstable/main arm64 libcommons-logging-java all 1.3.0-1 [68.6 kB] Get: 269 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8 [20.0 kB] Get: 270 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8 [55.4 kB] Get: 271 http://deb.debian.org/debian unstable/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3+b1 [175 kB] Get: 272 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB] Get: 273 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 274 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 275 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 276 http://deb.debian.org/debian unstable/main arm64 libcurl4t64 arm64 8.11.1-1 [325 kB] Get: 277 http://deb.debian.org/debian unstable/main arm64 libidn2-dev arm64 2.3.7-2+b1 [122 kB] Get: 278 http://deb.debian.org/debian unstable/main arm64 libkrb5-dev arm64 1.21.3-3 [15.8 kB] Get: 279 http://deb.debian.org/debian unstable/main arm64 libldap-dev arm64 2.5.18+dfsg-3+b1 [300 kB] Get: 280 http://deb.debian.org/debian unstable/main arm64 libnghttp2-dev arm64 1.64.0-1 [112 kB] Get: 281 http://deb.debian.org/debian unstable/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 282 http://deb.debian.org/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB] Get: 283 http://deb.debian.org/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB] Get: 284 http://deb.debian.org/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 285 http://deb.debian.org/debian unstable/main arm64 libunbound8 arm64 1.22.0-1 [553 kB] Get: 286 http://deb.debian.org/debian unstable/main arm64 libgnutls-dane0t64 arm64 3.8.8-2 [446 kB] Get: 287 http://deb.debian.org/debian unstable/main arm64 libgnutls-openssl27t64 arm64 3.8.8-2 [446 kB] Get: 288 http://deb.debian.org/debian unstable/main arm64 libp11-kit-dev arm64 0.25.5-2+b1 [208 kB] Get: 289 http://deb.debian.org/debian unstable/main arm64 libtasn1-6-dev arm64 4.19.0-3+b3 [96.5 kB] Get: 290 http://deb.debian.org/debian unstable/main arm64 nettle-dev arm64 3.10-1+b1 [1324 kB] Get: 291 http://deb.debian.org/debian unstable/main arm64 libgnutls28-dev arm64 3.8.8-2 [1404 kB] Get: 292 http://deb.debian.org/debian unstable/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB] Get: 293 http://deb.debian.org/debian unstable/main arm64 libssl-dev arm64 3.3.2-2 [3185 kB] Get: 294 http://deb.debian.org/debian unstable/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 295 http://deb.debian.org/debian unstable/main arm64 libzstd-dev arm64 1.5.6+dfsg-1+b1 [329 kB] Get: 296 http://deb.debian.org/debian unstable/main arm64 libcurl4-openssl-dev arm64 8.11.1-1 [449 kB] Get: 297 http://deb.debian.org/debian unstable/main arm64 libdatrie-dev arm64 0.2.13-3+b1 [18.5 kB] Get: 298 http://deb.debian.org/debian unstable/main arm64 libdeflate-dev arm64 1.22-1 [51.2 kB] Get: 299 http://deb.debian.org/debian unstable/main arm64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 300 http://deb.debian.org/debian unstable/main arm64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 301 http://deb.debian.org/debian unstable/main arm64 libfontbox-java all 1:1.8.16-5 [211 kB] Get: 302 http://deb.debian.org/debian unstable/main arm64 libfontconfig1-dev arm64 2.15.0-1.1+b1 [269 kB] Get: 303 http://deb.debian.org/debian unstable/main arm64 libfontenc1 arm64 1:1.1.8-1+b1 [22.5 kB] Get: 304 http://deb.debian.org/debian unstable/main arm64 libfribidi-dev arm64 1.0.16-1 [65.9 kB] Get: 305 http://deb.debian.org/debian unstable/main arm64 libgraphite2-dev arm64 1.3.14-2+b1 [20.3 kB] Get: 306 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-cairo0 arm64 10.1.0-1 [41.9 kB] Get: 307 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-icu0 arm64 10.1.0-1 [15.3 kB] Get: 308 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-subset0 arm64 10.1.0-1 [508 kB] Get: 309 http://deb.debian.org/debian unstable/main arm64 libicu-dev arm64 72.1-5+b1 [10.3 MB] Get: 310 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-dev arm64 10.1.0-1 [145 kB] Get: 311 http://deb.debian.org/debian unstable/main arm64 libjbig-dev arm64 2.1-6.1+b2 [30.5 kB] Get: 312 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo-dev arm64 1:2.1.5-3+b1 [293 kB] Get: 313 http://deb.debian.org/debian unstable/main arm64 libjpeg-dev arm64 1:2.1.5-3+b1 [72.2 kB] Get: 314 http://deb.debian.org/debian unstable/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 315 http://deb.debian.org/debian unstable/main arm64 libkpathsea6 arm64 2024.20240313.70630+ds-5 [153 kB] Get: 316 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.0-4 [1812 kB] Get: 317 http://deb.debian.org/debian unstable/main arm64 liblapack-dev arm64 3.12.0-4 [3709 kB] Get: 318 http://deb.debian.org/debian unstable/main arm64 liblerc-dev arm64 4.0.0+ds-5 [164 kB] Get: 319 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.6.3-1+b1 [312 kB] Get: 320 http://deb.debian.org/debian unstable/main arm64 libmime-charset-perl all 1.013.1-2 [34.0 kB] Get: 321 http://deb.debian.org/debian unstable/main arm64 libmpfi0 arm64 1.5.4+ds-4 [34.5 kB] Get: 322 http://deb.debian.org/debian unstable/main arm64 libncurses6 arm64 6.5-2+b1 [96.1 kB] Get: 323 http://deb.debian.org/debian unstable/main arm64 libncurses-dev arm64 6.5-2+b1 [338 kB] Get: 324 http://deb.debian.org/debian unstable/main arm64 libthai-dev arm64 0.1.29-2+b1 [24.0 kB] Get: 325 http://deb.debian.org/debian unstable/main arm64 libxft-dev arm64 2.3.6-1+b3 [72.0 kB] Get: 326 http://deb.debian.org/debian unstable/main arm64 pango1.0-tools arm64 1.55.0+ds-3 [41.3 kB] Get: 327 http://deb.debian.org/debian unstable/main arm64 libpango1.0-dev arm64 1.55.0+ds-3 [154 kB] Get: 328 http://deb.debian.org/debian unstable/main arm64 libpaper1 arm64 1.1.29+b2 [13.0 kB] Get: 329 http://deb.debian.org/debian unstable/main arm64 libpaper-utils arm64 1.1.29+b2 [9128 B] Get: 330 http://deb.debian.org/debian unstable/main arm64 libpdfbox-java all 1:1.8.16-5 [5527 kB] Get: 331 http://deb.debian.org/debian unstable/main arm64 libpotrace0 arm64 1.16-2+b2 [23.4 kB] Get: 332 http://deb.debian.org/debian unstable/main arm64 libptexenc1 arm64 2024.20240313.70630+ds-5 [47.9 kB] Get: 333 http://deb.debian.org/debian unstable/main arm64 libreadline-dev arm64 8.2-6 [155 kB] Get: 334 http://deb.debian.org/debian unstable/main arm64 libsharpyuv-dev arm64 1.4.0-0.1+b1 [115 kB] Get: 335 http://deb.debian.org/debian unstable/main arm64 libsombok3 arm64 2.4.0-2+b2 [29.9 kB] Get: 336 http://deb.debian.org/debian unstable/main arm64 libsynctex2 arm64 2024.20240313.70630+ds-5 [60.3 kB] Get: 337 http://deb.debian.org/debian unstable/main arm64 libtcl8.6 arm64 8.6.15+dfsg-2 [982 kB] Get: 338 http://deb.debian.org/debian unstable/main arm64 libteckit0 arm64 2.5.12+ds1-1+b1 [303 kB] Get: 339 http://deb.debian.org/debian unstable/main arm64 libtexlua53-5 arm64 2024.20240313.70630+ds-5 [106 kB] Get: 340 http://deb.debian.org/debian unstable/main arm64 libtext-unidecode-perl all 1.30-3 [101 kB] Get: 341 http://deb.debian.org/debian unstable/main arm64 libwebpdemux2 arm64 1.4.0-0.1+b1 [110 kB] Get: 342 http://deb.debian.org/debian unstable/main arm64 libwebpmux3 arm64 1.4.0-0.1+b1 [122 kB] Get: 343 http://deb.debian.org/debian unstable/main arm64 libwebpdecoder3 arm64 1.4.0-0.1+b1 [179 kB] Get: 344 http://deb.debian.org/debian unstable/main arm64 libwebp-dev arm64 1.4.0-0.1+b1 [400 kB] Get: 345 http://deb.debian.org/debian unstable/main arm64 libtiffxx6 arm64 4.5.1+git230720-5 [149 kB] Get: 346 http://deb.debian.org/debian unstable/main arm64 libtiff-dev arm64 4.5.1+git230720-5 [451 kB] Get: 347 http://deb.debian.org/debian unstable/main arm64 libtirpc-dev arm64 1.3.4+ds-1.3+b1 [192 kB] Get: 348 http://deb.debian.org/debian unstable/main arm64 libxss1 arm64 1:1.2.3-1+b2 [17.1 kB] Get: 349 http://deb.debian.org/debian unstable/main arm64 libtk8.6 arm64 8.6.15-1 [738 kB] Get: 350 http://deb.debian.org/debian unstable/main arm64 libunicode-linebreak-perl arm64 0.0.20190101-1+b7 [93.5 kB] Get: 351 http://deb.debian.org/debian unstable/main arm64 libunwind8 arm64 1.6.2-3.1 [47.7 kB] Get: 352 http://deb.debian.org/debian unstable/main arm64 libxt6t64 arm64 1:1.2.1-1.2+b1 [173 kB] Get: 353 http://deb.debian.org/debian unstable/main arm64 libxmu6 arm64 2:1.1.3-3+b3 [55.6 kB] Get: 354 http://deb.debian.org/debian unstable/main arm64 libxpm4 arm64 1:3.5.17-1+b2 [53.2 kB] Get: 355 http://deb.debian.org/debian unstable/main arm64 libxaw7 arm64 2:1.0.16-1 [195 kB] Get: 356 http://deb.debian.org/debian unstable/main arm64 libxfont2 arm64 1:2.0.6-1+b2 [124 kB] Get: 357 http://deb.debian.org/debian unstable/main arm64 libxkbfile1 arm64 1:1.1.0-1+b3 [72.2 kB] Get: 358 http://deb.debian.org/debian unstable/main arm64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get: 359 http://deb.debian.org/debian unstable/main arm64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get: 360 http://deb.debian.org/debian unstable/main arm64 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB] Get: 361 http://deb.debian.org/debian unstable/main arm64 libxml-libxml-perl arm64 2.0207+dfsg+really+2.0134-5+b1 [300 kB] Get: 362 http://deb.debian.org/debian unstable/main arm64 libxmuu1 arm64 2:1.1.3-3+b3 [22.0 kB] Get: 363 http://deb.debian.org/debian unstable/main arm64 libxss-dev arm64 1:1.2.3-1+b2 [22.8 kB] Get: 364 http://deb.debian.org/debian unstable/main arm64 libxt-dev arm64 1:1.2.1-1.2+b1 [403 kB] Get: 365 http://deb.debian.org/debian unstable/main arm64 libyaml-tiny-perl all 1.74-1 [30.7 kB] Get: 366 http://deb.debian.org/debian unstable/main arm64 libzzip-0-13t64 arm64 0.13.72+dfsg.1-1.3 [56.6 kB] Get: 367 http://deb.debian.org/debian unstable/main arm64 tex-common all 6.18 [32.5 kB] Get: 368 http://deb.debian.org/debian unstable/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 369 http://deb.debian.org/debian unstable/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB] Get: 370 http://deb.debian.org/debian unstable/main arm64 lmodern all 2.005-1 [9480 kB] Get: 371 http://deb.debian.org/debian unstable/main arm64 mpack arm64 1.6-18+b2 [36.0 kB] Get: 372 http://deb.debian.org/debian unstable/main arm64 preview-latex-style all 13.2-1 [350 kB] Get: 373 http://deb.debian.org/debian unstable/main arm64 t1utils arm64 1.41-4+b1 [57.6 kB] Get: 374 http://deb.debian.org/debian unstable/main arm64 tcl8.6 arm64 8.6.15+dfsg-2 [121 kB] Get: 375 http://deb.debian.org/debian unstable/main arm64 tcl8.6-dev arm64 8.6.15+dfsg-2 [1009 kB] Get: 376 http://deb.debian.org/debian unstable/main arm64 texinfo-lib arm64 7.1.1-1+b1 [220 kB] Get: 377 http://deb.debian.org/debian unstable/main arm64 texinfo all 7.1.1-1 [1753 kB] Get: 378 http://deb.debian.org/debian unstable/main arm64 texlive-binaries arm64 2024.20240313.70630+ds-5 [7358 kB] Get: 379 http://deb.debian.org/debian unstable/main arm64 xdg-utils all 1.2.1-2 [75.8 kB] Get: 380 http://deb.debian.org/debian unstable/main arm64 texlive-base all 2024.20241115-1 [22.7 MB] Get: 381 http://deb.debian.org/debian unstable/main arm64 texlive-latex-base all 2024.20241115-1 [1278 kB] Get: 382 http://deb.debian.org/debian unstable/main arm64 texlive-luatex all 2024.20241115-1 [27.8 MB] Get: 383 http://deb.debian.org/debian unstable/main arm64 texlive-plain-generic all 2024.20241115-1 [28.6 MB] Get: 384 http://deb.debian.org/debian unstable/main arm64 texlive-extra-utils all 2024.20241115-1 [64.6 MB] Get: 385 http://deb.debian.org/debian unstable/main arm64 texlive-fonts-extra all 2024.20241115-1 [626 MB] Get: 386 http://deb.debian.org/debian unstable/main arm64 texlive-fonts-recommended all 2024.20241115-1 [4991 kB] Get: 387 http://deb.debian.org/debian unstable/main arm64 texlive-latex-recommended all 2024.20241115-1 [8757 kB] Get: 388 http://deb.debian.org/debian unstable/main arm64 texlive-pictures all 2024.20241115-1 [17.0 MB] Get: 389 http://deb.debian.org/debian unstable/main arm64 texlive-latex-extra all 2024.20241115-1 [24.6 MB] Get: 390 http://deb.debian.org/debian unstable/main arm64 tk8.6 arm64 8.6.15-1 [69.7 kB] Get: 391 http://deb.debian.org/debian unstable/main arm64 tk8.6-dev arm64 8.6.15-1 [761 kB] Get: 392 http://deb.debian.org/debian unstable/main arm64 x11-xkb-utils arm64 7.7+9 [149 kB] Get: 393 http://deb.debian.org/debian unstable/main arm64 xauth arm64 1:1.1.2-1.1 [35.4 kB] Get: 394 http://deb.debian.org/debian unstable/main arm64 xfonts-base all 1:1.0.5+nmu1 [5895 kB] Get: 395 http://deb.debian.org/debian unstable/main arm64 xserver-common all 2:21.1.14-2 [2397 kB] Get: 396 http://deb.debian.org/debian unstable/main arm64 xvfb arm64 2:21.1.14-2 [3110 kB] Fetched 1157 MB in 16s (70.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20085 files and directories currently installed.) Preparing to unpack .../libapparmor1_3.1.7-1+b3_arm64.deb ... Unpacking libapparmor1:arm64 (3.1.7-1+b3) ... Selecting previously unselected package libsystemd-shared:arm64. Preparing to unpack .../libsystemd-shared_257-2_arm64.deb ... Unpacking libsystemd-shared:arm64 (257-2) ... Selecting previously unselected package systemd. Preparing to unpack .../systemd_257-2_arm64.deb ... Unpacking systemd (257-2) ... Setting up libapparmor1:arm64 (3.1.7-1+b3) ... Setting up libsystemd-shared:arm64 (257-2) ... Setting up systemd (257-2) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21041 files and directories currently installed.) Preparing to unpack .../0-systemd-sysv_257-2_arm64.deb ... Unpacking systemd-sysv (257-2) ... Selecting previously unselected package libdbus-1-3:arm64. Preparing to unpack .../1-libdbus-1-3_1.16.0-1_arm64.deb ... Unpacking libdbus-1-3:arm64 (1.16.0-1) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../2-dbus-bin_1.16.0-1_arm64.deb ... Unpacking dbus-bin (1.16.0-1) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../3-dbus-session-bus-common_1.16.0-1_all.deb ... Unpacking dbus-session-bus-common (1.16.0-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../4-libexpat1_2.6.4-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.4-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../5-dbus-daemon_1.16.0-1_arm64.deb ... Unpacking dbus-daemon (1.16.0-1) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../6-dbus-system-bus-common_1.16.0-1_all.deb ... Unpacking dbus-system-bus-common (1.16.0-1) ... Selecting previously unselected package dbus. Preparing to unpack .../7-dbus_1.16.0-1_arm64.deb ... Unpacking dbus (1.16.0-1) ... Selecting previously unselected package libpython3.12-minimal:arm64. Preparing to unpack .../8-libpython3.12-minimal_3.12.8-3_arm64.deb ... Unpacking libpython3.12-minimal:arm64 (3.12.8-3) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../9-python3.12-minimal_3.12.8-3_arm64.deb ... Unpacking python3.12-minimal (3.12.8-3) ... Setting up libpython3.12-minimal:arm64 (3.12.8-3) ... Setting up libexpat1:arm64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.8-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21453 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_arm64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-4_all.deb ... Unpacking tzdata (2024b-4) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../05-libcom-err2_1.47.2~rc1-2_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2~rc1-2) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:arm64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:arm64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_arm64.deb ... Unpacking libnsl2:arm64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../14-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.12-stdlib:arm64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.8-3_arm64.deb ... Unpacking libpython3.12-stdlib:arm64 (3.12.8-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.8-3_arm64.deb ... Unpacking python3.12 (3.12.8-3) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 22516 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_arm64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../001-libproc2-0_2%3a4.0.4-6_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.4-6_arm64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package bash-completion. Preparing to unpack .../004-bash-completion_1%3a2.14.0-2_all.deb ... Unpacking bash-completion (1:2.14.0-2) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.3.2-2_arm64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../007-libmagic-mgc_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../008-libmagic1t64_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../009-file_1%3a5.45-3+b1_arm64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../010-gettext-base_0.22.5-3_arm64.deb ... Unpacking gettext-base (0.22.5-3) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../011-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../012-groff-base_1.23.0-6_arm64.deb ... Unpacking groff-base (1.23.0-6) ... Selecting previously unselected package libpam-systemd:arm64. Preparing to unpack .../013-libpam-systemd_257-2_arm64.deb ... Unpacking libpam-systemd:arm64 (257-2) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../014-bsdextrautils_2.40.2-12_arm64.deb ... Unpacking bsdextrautils (2.40.2-12) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../015-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../016-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package ucf. Preparing to unpack .../017-ucf_3.0045_all.deb ... Moving old data out of the way Unpacking ucf (3.0045) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../018-libgdk-pixbuf2.0-common_2.42.12+dfsg-1_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... Selecting previously unselected package libglib2.0-0t64:arm64. 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Setting up libgif7:arm64 (5.2.2-1+b1) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpcre2-posix3:arm64 (10.44-5) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up gir1.2-glib-2.0-dev:arm64 (2.82.4-1) ... Setting up libxshmfence1:arm64 (1.3-1+b2) ... Setting up at-spi2-common (2.54.0-1) ... Setting up libmime-charset-perl (1.013.1-2) ... Setting up libtiff6:arm64 (4.5.1+git230720-5) ... Setting up libxcb-randr0:arm64 (1.17.0-2+b1) ... Setting up dbus-session-bus-common (1.16.0-1) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up procps (2:4.0.4-6) ... Setting up bison (2:3.8.2+dfsg-1+b2) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up fonts-lmodern (2.005-1) ... Setting up libx11-6:arm64 (2:1.8.10-2) ... Setting up libthai-data (0.1.29-2) ... Setting up xorg-sgml-doctools (1:1.11-1.1) ... Setting up netbase (6.4) ... Setting up libkrb5-3:arm64 (1.21.3-3) ... Setting up libwayland-egl1:arm64 (1.23.0-1+b1) ... Setting up libxkbfile1:arm64 (1:1.1.0-1+b3) ... Setting up libssh2-1t64:arm64 (1.11.1-1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up dbus-system-bus-common (1.16.0-1) ... useradd: Warning: missing or non-executable shell '/usr/sbin/nologin' Setting up libtext-unidecode-perl (1.30-3) ... Setting up libsharpyuv-dev:arm64 (1.4.0-0.1+b1) ... Setting up libfile-homedir-perl (1.006-2) ... Setting up libtasn1-6-dev:arm64 (4.19.0-3+b3) ... Setting up openssl (3.3.2-2) ... Setting up libwebpmux3:arm64 (1.4.0-0.1+b1) ... Setting up libtiffxx6:arm64 (4.5.1+git230720-5) ... Setting up libdeflate-dev:arm64 (1.22-1) ... Setting up libdrm-common (2.4.123-1) ... Setting up libxcomposite1:arm64 (1:0.4.6-1) ... Setting up readline-common (8.2-6) ... Setting up libicu-dev:arm64 (72.1-5+b1) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up xdg-utils (1.2.1-2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libxmuu1:arm64 (2:1.1.3-3+b3) ... Setting up dbus-bin (1.16.0-1) ... Setting up libbrotli-dev:arm64 (1.1.0-2+b6) ... Setting up libp11-kit-dev:arm64 (0.25.5-2+b1) ... Setting up libblas-dev:arm64 (3.12.0-4) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode Setting up libsynctex2:arm64 (2024.20240313.70630+ds-5) ... Setting up libbz2-dev:arm64 (1.0.8-6) ... Setting up libxkbcommon0:arm64 (1.7.0-2) ... Setting up libpotrace0:arm64 (1.16-2+b2) ... Setting up libwayland-client0:arm64 (1.23.0-1+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libgfortran-14-dev:arm64 (14.2.0-11) ... Setting up x11proto-dev (2024.1-1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libxcb-dri3-0:arm64 (1.17.0-2+b1) ... Setting up libblkid-dev:arm64 (2.40.2-12) ... Setting up libllvm19:arm64 (1:19.1.5-1) ... Setting up libx11-xcb1:arm64 (2:1.8.10-2) ... Setting up libice6:arm64 (2:1.1.1-1) ... Setting up tcl8.6 (8.6.15+dfsg-2) ... Setting up liblapack3:arm64 (3.12.0-4) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up libncurses-dev:arm64 (6.5-2+b1) ... Setting up gettext (0.22.5-3) ... Setting up libxdamage1:arm64 (1:1.1.6-1+b2) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-3) ... Setting up libatk1.0-0t64:arm64 (2.54.0-1) ... Setting up libpdfbox-java (1:1.8.16-5) ... Setting up libxau-dev:arm64 (1:1.0.11-1) ... Setting up libxpm4:arm64 (1:3.5.17-1+b2) ... Setting up libpcre2-dev:arm64 (10.44-5) ... Setting up nettle-dev:arm64 (3.10-1+b1) ... Setting up libxrender1:arm64 (1:0.9.10-1.1+b3) ... Setting up libice-dev:arm64 (2:1.1.1-1) ... Setting up libtool (2.4.7-8) ... Setting up libgirepository-2.0-0:arm64 (2.82.4-1) ... Setting up libselinux1-dev:arm64 (3.7-3+b1) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libfribidi-dev:arm64 (1.0.16-1) ... Setting up libwebpdemux2:arm64 (1.4.0-0.1+b1) ... Setting up tcl8.6-dev:arm64 (8.6.15+dfsg-2) ... Setting up libpng-dev:arm64 (1.6.44-3) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:arm64 (0.8-15) ... Setting up libjpeg-dev:arm64 (1:2.1.5-3+b1) ... Setting up libjbig-dev:arm64 (2.1-6.1+b2) ... Setting up libcloudproviders0:arm64 (0.3.6-1+b1) ... Setting up libcommons-logging-java (1.3.0-1) ... Setting up libxext6:arm64 (2:1.3.4-1+b2) ... Setting up libglib2.0-bin (2.82.4-1) ... Setting up libnss3:arm64 (2:3.106-1) ... Setting up dbus-daemon (1.16.0-1) ... Setting up libldap-2.5-0:arm64 (2.5.18+dfsg-3+b1) ... Setting up libcolord2:arm64 (1.4.7-1+b2) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up libxxf86vm1:arm64 (1:1.1.4-1+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libdconf1:arm64 (0.40.0-4+b3) ... Setting up dh-autoreconf (20) ... Setting up libthai0:arm64 (0.1.29-2+b1) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libxdmcp-dev:arm64 (1:1.1.5-1) ... Setting up libwebp-dev:arm64 (1.4.0-0.1+b1) ... Setting up libptexenc1:arm64 (2024.20240313.70630+ds-5) ... Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up libtiff-dev:arm64 (4.5.1+git230720-5) ... Setting up libxfixes3:arm64 (1:6.0.0-2+b3) ... Setting up x11proto-core-dev (2024.1-1) ... Setting up libldap-dev:arm64 (2.5.18+dfsg-3+b1) ... Setting up dbus (1.16.0-1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b1) ... Setting up libxinerama1:arm64 (2:1.1.4-3+b3) ... Setting up liblapack-dev:arm64 (3.12.0-4) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode Setting up libgssapi-krb5-2:arm64 (1.21.3-3) ... Setting up libxrandr2:arm64 (2:1.5.4-1+b2) ... Setting up ucf (3.0045) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libdrm2:arm64 (2.4.123-1) ... Setting up libdatrie-dev:arm64 (0.2.13-3+b1) ... Setting up xauth (1:1.1.2-1.1) ... Setting up groff-base (1.23.0-6) ... Setting up libwayland-cursor0:arm64 (1.23.0-1+b1) ... Setting up gfortran-14-aarch64-linux-gnu (14.2.0-11) ... Setting up libpam-systemd:arm64 (257-2) ... Setting up libharfbuzz0b:arm64 (10.1.0-1) ... Setting up gfortran-aarch64-linux-gnu (4:14.2.0-1) ... Setting up libgdk-pixbuf-2.0-0:arm64 (2.42.12+dfsg-1+b1) ... Setting up libxss1:arm64 (1:1.2.3-1+b2) ... Setting up libfontconfig1:arm64 (2.15.0-1.1+b1) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up gfortran-14 (14.2.0-11) ... Setting up libsm6:arm64 (2:1.2.4-1) ... Setting up libxfont2:arm64 (1:2.0.6-1+b2) ... Setting up libavahi-client3:arm64 (0.8-15) ... Setting up libmount-dev:arm64 (2.40.2-12) ... Setting up libdrm-amdgpu1:arm64 (2.4.123-1) ... Setting up libgnutls28-dev:arm64 (3.8.8-2) ... Setting up libpaper1:arm64 (1.1.29+b2) ... Creating config file /etc/papersize with new version Setting up gtk-update-icon-cache (4.16.7+ds-1) ... Setting up libnghttp2-dev:arm64 (1.64.0-1) ... Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up libxft2:arm64 (2.3.6-1+b3) ... Setting up libgio-2.0-dev:arm64 (2.82.4-1) ... Setting up libharfbuzz-icu0:arm64 (10.1.0-1) ... Setting up girepository-tools:arm64 (2.82.4-1) ... Setting up libxcb1-dev:arm64 (1.17.0-2+b1) ... Setting up openjdk-21-jre-headless:arm64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:arm64 (2:1.8.2-1) ... Setting up libcurl4t64:arm64 (8.11.1-1) ... Setting up libtirpc3t64:arm64 (1.3.4+ds-1.3+b1) ... Setting up libsombok3:arm64 (2.4.0-2+b2) ... Setting up libsm-dev:arm64 (2:1.2.4-1) ... Setting up libdrm-radeon1:arm64 (2.4.123-1) ... Setting up libxtst6:arm64 (2:1.2.3-1.1+b3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:arm64 (8.6.15-1) ... Setting up libxcursor1:arm64 (1:1.2.2-1+b1) ... Setting up libpango-1.0-0:arm64 (1.55.0+ds-3) ... Setting up libx11-dev:arm64 (2:1.8.10-2) ... Setting up libharfbuzz-gobject0:arm64 (10.1.0-1) ... Setting up libpaper-utils (1.1.29+b2) ... Setting up libreadline-dev:arm64 (8.2-6) ... Setting up xfonts-utils (1:7.7+7) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libxml-sax-perl (1.02+dfsg-4) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up gfortran (4:14.2.0-1) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libcairo2:arm64 (1.18.2-2) ... Setting up libfreetype-dev:arm64 (2.13.3+dfsg-1) ... Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libxcb-shm0-dev:arm64 (1.17.0-2+b1) ... Setting up dbus-user-session (1.16.0-1) ... Setting up xfonts-base (1:1.0.5+nmu1) ... Setting up libtirpc-dev:arm64 (1.3.4+ds-1.3+b1) ... Setting up libharfbuzz-cairo0:arm64 (10.1.0-1) ... Setting up adwaita-icon-theme (47.0-2) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libgssrpc4t64:arm64 (1.21.3-3) ... Setting up libunicode-linebreak-perl (0.0.20190101-1+b7) ... Setting up libatspi2.0-0t64:arm64 (2.54.0-1) ... Setting up libxt6t64:arm64 (1:1.2.1-1.2+b1) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libxcb-render0-dev:arm64 (1.17.0-2+b1) ... Setting up libxext-dev:arm64 (2:1.3.4-1+b2) ... Setting up libthai-dev:arm64 (0.1.29-2+b1) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up lmodern (2.005-1) ... Setting up libnsl2:arm64 (1.3.0-3+b3) ... Setting up libharfbuzz-subset0:arm64 (10.1.0-1) ... Setting up libcairo-gobject2:arm64 (1.18.2-2) ... Setting up libpangoft2-1.0-0:arm64 (1.55.0+ds-3) ... Setting up libxrender-dev:arm64 (1:0.9.10-1.1+b3) ... Setting up libcups2t64:arm64 (2.4.10-2) ... Setting up libpangocairo-1.0-0:arm64 (1.55.0+ds-3) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-3) ... Setting up libcairo-script-interpreter2:arm64 (1.18.2-2) ... Setting up libatk-bridge2.0-0t64:arm64 (2.54.0-1) ... Setting up tk8.6 (8.6.15-1) ... Setting up mesa-libgallium:arm64 (24.2.8-1) ... Setting up libxmu6:arm64 (2:1.1.3-3+b3) ... Setting up gir1.2-freedesktop:arm64 (1.82.0-3) ... Setting up libpython3.12-stdlib:arm64 (3.12.8-3) ... Setting up libpangoxft-1.0-0:arm64 (1.55.0+ds-3) ... Setting up libkdb5-10t64:arm64 (1.21.3-3) ... Setting up libgbm1:arm64 (24.2.8-1) ... Setting up libfontconfig-dev:arm64 (2.15.0-1.1+b1) ... Setting up preview-latex-style (13.2-1) ... Setting up python3.12 (3.12.8-3) ... Setting up libgl1-mesa-dri:arm64 (24.2.8-1) ... Setting up pango1.0-tools (1.55.0+ds-3) ... Setting up debhelper (13.22) ... Setting up dconf-service (0.40.0-4+b3) ... Setting up libxaw7:arm64 (2:1.0.16-1) ... Setting up libxss-dev:arm64 (1:1.2.3-1+b2) ... Setting up gir1.2-harfbuzz-0.0:arm64 (10.1.0-1) ... Setting up gir1.2-pango-1.0:arm64 (1.55.0+ds-3) ... Setting up libxt-dev:arm64 (1:1.2.1-1.2+b1) ... Setting up gir1.2-freedesktop-dev:arm64 (1.82.0-3) ... Setting up texinfo (7.1.1-1) ... Running mktexlsr. This may take some time. ... done. Setting up texlive-binaries (2024.20240313.70630+ds-5) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up libkadm5srv-mit12:arm64 (1.21.3-3) ... Setting up texlive-base (2024.20241115-1) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up libpython3-stdlib:arm64 (3.12.7-1) ... Setting up libxft-dev:arm64 (2.3.6-1+b3) ... Setting up krb5-multidev:arm64 (1.21.3-3) ... Setting up libfontconfig1-dev:arm64 (2.15.0-1.1+b1) ... Setting up libglx-mesa0:arm64 (24.2.8-1) ... Setting up libglx0:arm64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:arm64 (0.40.0-4+b3) ... Setting up texlive-luatex (2024.20241115-1) ... Setting up x11-xkb-utils (7.7+9) ... Setting up texlive-plain-generic (2024.20241115-1) ... Setting up python3 (3.12.7-1) ... Setting up libkrb5-dev:arm64 (1.21.3-3) ... Setting up python3-packaging (24.2-1) ... Setting up libgl1:arm64 (1.7.0-1+b2) ... Setting up texlive-latex-base (2024.20241115-1) ... Setting up libcurl4-openssl-dev:arm64 (8.11.1-1) ... Setting up texlive-extra-utils (2024.20241115-1) ... Setting up texlive-fonts-extra (2024.20241115-1) ... Setting up texlive-latex-recommended (2024.20241115-1) ... Setting up texlive-pictures (2024.20241115-1) ... Setting up tk8.6-dev:arm64 (8.6.15-1) ... Setting up texlive-fonts-recommended (2024.20241115-1) ... Setting up xserver-common (2:21.1.14-2) ... Setting up libgtk-3-common (3.24.43-4) ... Setting up libgio-2.0-dev-bin (2.82.4-1) ... Setting up xvfb (2:21.1.14-2) ... Setting up texlive-latex-extra (2024.20241115-1) ... Setting up libgtk-3-0t64:arm64 (3.24.43-4) ... Setting up libglib2.0-dev-bin (2.82.4-1) ... Setting up libglib2.0-dev:arm64 (2.82.4-1) ... Setting up libcairo2-dev:arm64 (1.18.2-2) ... Setting up libharfbuzz-dev:arm64 (10.1.0-1) ... Setting up libpango1.0-dev:arm64 (1.55.0+ds-3) ... Processing triggers for libc-bin (2.40-4) ... Processing triggers for systemd (257-2) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_FÅ‘tanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-21-jre:arm64 (21.0.5+11-1) ... Setting up openjdk-21-jdk-headless:arm64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up default-jre (2:1.21-76) ... Setting up openjdk-21-jdk:arm64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up default-jdk (2:1.21-76) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for tex-common (6.18) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.36-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/reproducible-path/r-base-4.4.2/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../r-base_4.4.2-1_source.changes dpkg-buildpackage: info: source package r-base dpkg-buildpackage: info: source version 4.4.2-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dirk Eddelbuettel dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean *** clean *** dh_testdir dh_testroot rm -f configure-stamp \ build-stamp build-indep-stamp build-arch-stamp \ make-stamp make-arch-stamp make-indep-stamp \ install-indep-stamp install-arch-stamp \ check-stamp [ ! -f Makefile ] || /usr/bin/make distclean rm -f `find . -name "*~"` rm -rf debian/tmp debian/files debian/files* core debian/substvars debian/files rm -f doc/html/function.html doc/html/packages.html rm -f modules/*.so src/unix/Rscript dh_clean debian/rules build *** configure *** #automake #autoconf dh_testdir R_SHELL=/bin/bash \ mkdir_p="/bin/mkdir -p" \ MKDIR_P="/bin/mkdir -p" \ R_TEXI2DVICMD=emulation \ R_PAPERSIZE=letter \ R_BROWSER=xdg-open \ R_BZIPCMD=/bin/bzip2 \ R_GZIPCMD="/bin/gzip -n" \ PAGER=/usr/bin/pager \ PERL=/usr/bin/perl \ JAVA_HOME=/usr/lib/jvm/default-java \ R_UNZIPCMD=/usr/bin/unzip \ R_ZIPCMD=/usr/bin/zip \ R_PRINTCMD=/usr/bin/lpr \ TAR=/bin/tar \ LIBnn=lib \ AWK=/usr/bin/awk \ DD=/bin/dd \ GREP=/bin/grep \ FGREP="/bin/grep -F" \ EGREP="/bin/grep -E" \ SED=/bin/sed \ GETWD="/bin/pwd" \ CC=gcc \ CXX=g++ \ F77=gfortran \ FC=gfortran \ CFLAGS="`DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CXXFLAGS` -Wdate-time -D_FORTIFY_SOURCE=2" \ CXXFLAGS="`DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CXXFLAGS` -Wdate-time -D_FORTIFY_SOURCE=2" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard" \ FCFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard" \ CPPFLAGS= \ LDFLAGS="-Wl,-z,relro" \ FLIBS= \ rsharedir=/usr/share/R/share \ rincludedir=/usr/share/R/include \ rdocdir=/usr/share/R/doc \ ./configure --prefix=/usr \ --with-cairo \ --with-jpeglib \ --with-readline \ --with-tcltk \ --mandir=/usr/share/man \ --infodir=/usr/share/info \ --datadir=/usr/share/R/share \ --includedir=/usr/share/R/include \ --with-blas \ --with-lapack \ --enable-long-double \ --enable-R-profiling \ --enable-R-shlib \ --enable-memory-profiling \ --without-recommended-packages \ --build aarch64-linux-gnu checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu loading site script './config.site' loading build-specific script './config.site' checking for pwd... /bin/pwd checking whether builddir is srcdir... yes checking whether ln -s works... yes checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c checking for sed... /bin/sed checking for which... /usr/bin/which checking for /usr/bin/pager... /usr/bin/pager checking for /bin/tar... /bin/tar checking for tex... /usr/bin/tex checking for pdftex... /usr/bin/pdftex checking for pdflatex... /usr/bin/pdflatex checking for makeindex... /usr/bin/makeindex checking for texi2any... /usr/bin/texi2any checking whether texi2any version is at least 5.1... yes checking for ginstall-info... no checking for install-info... no checking for texi2dvi... /usr/bin/texi2dvi checking for kpsewhich... /usr/bin/kpsewhich checking for latex inconsolata package... found zi4.sty checking for unzip... /usr/bin/unzip checking for zip... /usr/bin/zip checking for gzip... /bin/gzip -n checking for bzip2... /bin/bzip2 using default browser ... xdg-open 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(cached) no checking whether included gettext is requested... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc Finished configuring src/extra/intl directory checking whether OpenMP SIMD reduction is supported... yes using as R_SHELL for scripts ... /bin/bash configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/html/Makefile config.status: creating doc/manual/Makefile config.status: creating etc/Makefile config.status: creating etc/Makeconf config.status: creating etc/Renviron config.status: creating etc/javaconf config.status: creating etc/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile config.status: creating share/Makefile config.status: creating src/Makefile config.status: creating src/appl/Makefile config.status: creating src/extra/Makefile config.status: creating src/extra/blas/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/tre/Makefile config.status: creating src/extra/tzone/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/include/Makefile config.status: creating src/include/Rmath.h0 config.status: creating src/include/R_ext/Makefile config.status: creating src/library/Recommended/Makefile config.status: creating src/library/Makefile config.status: creating src/library/base/DESCRIPTION config.status: creating src/library/base/Makefile config.status: creating src/library/compiler/DESCRIPTION config.status: creating src/library/compiler/Makefile config.status: creating src/library/datasets/DESCRIPTION config.status: creating src/library/datasets/Makefile config.status: creating src/library/graphics/DESCRIPTION config.status: creating src/library/graphics/Makefile config.status: creating src/library/graphics/src/Makefile config.status: creating src/library/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/Makefile config.status: creating src/library/grDevices/src/cairo/Makefile config.status: creating src/library/grid/DESCRIPTION config.status: creating src/library/grid/Makefile config.status: creating src/library/grid/src/Makefile config.status: creating src/library/methods/DESCRIPTION config.status: creating src/library/methods/Makefile config.status: creating src/library/methods/src/Makefile config.status: creating src/library/parallel/DESCRIPTION config.status: creating src/library/parallel/Makefile config.status: creating src/library/parallel/src/Makefile config.status: creating src/library/profile/Makefile config.status: creating src/library/stats/DESCRIPTION config.status: creating src/library/stats/Makefile config.status: creating src/library/stats/src/Makefile config.status: creating src/library/stats4/DESCRIPTION config.status: creating src/library/stats4/Makefile config.status: creating src/library/splines/DESCRIPTION config.status: creating src/library/splines/Makefile config.status: creating src/library/splines/src/Makefile config.status: creating src/library/tcltk/DESCRIPTION config.status: creating src/library/tcltk/Makefile config.status: creating src/library/tcltk/src/Makefile config.status: creating src/library/tools/DESCRIPTION config.status: creating src/library/tools/Makefile config.status: creating src/library/tools/src/Makefile config.status: creating src/library/translations/DESCRIPTION config.status: creating src/library/translations/Makefile config.status: creating src/library/utils/DESCRIPTION config.status: creating src/library/utils/Makefile config.status: creating src/library/utils/src/Makefile config.status: creating src/main/Makefile config.status: creating src/modules/Makefile config.status: creating src/modules/X11/Makefile config.status: creating src/modules/internet/Makefile config.status: creating src/modules/lapack/Makefile config.status: creating src/nmath/Makefile config.status: creating src/nmath/standalone/Makefile config.status: creating src/scripts/Makefile config.status: creating src/scripts/R.sh config.status: creating src/scripts/Rcmd config.status: creating src/scripts/javareconf config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager config.status: creating src/scripts/rtags config.status: creating src/unix/Makefile config.status: creating tests/Makefile config.status: creating tests/Embedding/Makefile config.status: creating tests/Examples/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands config.status: executing stamp-h commands R is now configured for aarch64-unknown-linux-gnu Source directory: . Installation directory: /usr C compiler: gcc -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 Fortran fixed-form compiler: gfortran -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard Default C++ compiler: g++ -std=gnu++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 C++11 compiler: g++ -std=gnu++11 -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 C++14 compiler: g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 C++17 compiler: g++ -std=gnu++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 C++20 compiler: g++ -std=gnu++20 -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 C++23 compiler: g++ -std=gnu++23 -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 Fortran free-form compiler: gfortran -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard Obj-C compiler: Interfaces supported: X11, tcltk External libraries: pcre2, readline, BLAS(generic), LAPACK(generic), curl, libdeflate Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU Options enabled: shared R library, R profiling, memory profiling, libdeflate for lazyload Capabilities skipped: Options not enabled: shared BLAS Recommended packages: no touch configure-stamp *** make-arch *** /usr/bin/make CFLAGS="`DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CXXFLAGS` -Wdate-time -D_FORTIFY_SOURCE=2" \ CXXFLAGS="`DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CXXFLAGS` -Wdate-time -D_FORTIFY_SOURCE=2" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard" \ FCFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard" \ CC=gcc \ CXX=g++ \ F77=gfortran \ LDFLAGS="-Wl,-z,relro" \ PKG_BUILT_STAMP="""" \ R_GZIPCMD="/bin/gzip -n" \ R make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' creating src/scripts/R.fe make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' mkdir -p -- ../../bin make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include' mkdir -p -- ../../include make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' making regcomp.d from regcomp.c making regerror.d from regerror.c making regexec.d from regexec.c making tre-ast.d from tre-ast.c making tre-compile.d from tre-compile.c making tre-match-approx.d from tre-match-approx.c making tre-match-backtrack.d from tre-match-backtrack.c making tre-match-parallel.d from tre-match-parallel.c making tre-mem.d from tre-mem.c making tre-parse.d from tre-parse.c making tre-stack.d from tre-stack.c make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regcomp.c -o regcomp.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regerror.c -o regerror.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regexec.c -o regexec.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-ast.c -o tre-ast.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-compile.c -o tre-compile.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-mem.c -o tre-mem.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-parse.c -o tre-parse.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-stack.c -o tre-stack.o ar -cr libtre.a regcomp.o regerror.o regexec.o tre-ast.o tre-compile.o tre-match-approx.o tre-match-backtrack.o tre-match-parallel.o tre-mem.o tre-parse.o tre-stack.o ranlib libtre.a make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' making integrate.d from integrate.c making interv.d from interv.c making maxcol.d from maxcol.c making optim.d from optim.c making pretty.d from pretty.c making uncmin.d from uncmin.c make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c integrate.c -o integrate.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c interv.c -o interv.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c maxcol.c -o maxcol.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c optim.c -o optim.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pretty.c -o pretty.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c uncmin.c -o uncmin.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dchdc.f -o dchdc.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dpbfa.f -o dpbfa.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dpbsl.f -o dpbsl.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dpoco.f -o dpoco.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dpodi.f -o dpodi.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dpofa.f -o dpofa.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dposl.f -o dposl.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dqrdc.f -o dqrdc.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dqrdc2.f -o dqrdc2.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dqrls.f -o dqrls.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dqrsl.f -o dqrsl.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dqrutl.f -o dqrutl.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dsvdc.f -o dsvdc.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dtrco.f -o dtrco.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c dtrsl.f -o dtrsl.o ar -cr libappl.a integrate.o interv.o maxcol.o optim.o pretty.o uncmin.o dchdc.o dpbfa.o dpbsl.o dpoco.o dpodi.o dpofa.o dposl.o dqrdc.o dqrdc2.o dqrls.o dqrsl.o dqrutl.o dsvdc.o dtrco.o dtrsl.o ranlib libappl.a make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making qnbinom_mu.d from qnbinom_mu.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c mlutils.c -o mlutils.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c d1mach.c -o d1mach.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c i1mach.c -o i1mach.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fmax2.c -o fmax2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fmin2.c -o fmin2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fprec.c -o fprec.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fround.c -o fround.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ftrunc.c -o ftrunc.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sign.c -o sign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fsign.c -o fsign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c imax2.c -o imax2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c imin2.c -o imin2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c chebyshev.c -o chebyshev.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c log1p.c -o log1p.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c lgammacor.c -o lgammacor.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gammalims.c -o gammalims.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c stirlerr.c -o stirlerr.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bd0.c -o bd0.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gamma.c -o gamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c lgamma.c -o lgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gamma_cody.c -o gamma_cody.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c beta.c -o beta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c lbeta.c -o lbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c polygamma.c -o polygamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c cospi.c -o cospi.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_i.c -o bessel_i.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_j.c -o bessel_j.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_k.c -o bessel_k.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_y.c -o bessel_y.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c choose.c -o choose.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c snorm.c -o snorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sexp.c -o sexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dgamma.c -o dgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pgamma.c -o pgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qgamma.c -o qgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rgamma.c -o rgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dbeta.c -o dbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pbeta.c -o pbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qbeta.c -o qbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rbeta.c -o rbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dunif.c -o dunif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c punif.c -o punif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qunif.c -o qunif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c runif.c -o runif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dnorm.c -o dnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pnorm.c -o pnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qnorm.c -o qnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rnorm.c -o rnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dlnorm.c -o dlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c plnorm.c -o plnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qlnorm.c -o qlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rlnorm.c -o rlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c df.c -o df.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pf.c -o pf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qf.c -o qf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rf.c -o rf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dnf.c -o dnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dt.c -o dt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pt.c -o pt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qt.c -o qt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rt.c -o rt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dnt.c -o dnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dchisq.c -o dchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pchisq.c -o pchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qchisq.c -o qchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rchisq.c -o rchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rnchisq.c -o rnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dbinom.c -o dbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pbinom.c -o pbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qbinom.c -o qbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rbinom.c -o rbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rmultinom.c -o rmultinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dcauchy.c -o dcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pcauchy.c -o pcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qcauchy.c -o qcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rcauchy.c -o rcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dexp.c -o dexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pexp.c -o pexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qexp.c -o qexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rexp.c -o rexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dgeom.c -o dgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pgeom.c -o pgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qgeom.c -o qgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rgeom.c -o rgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dhyper.c -o dhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c phyper.c -o phyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qhyper.c -o qhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rhyper.c -o rhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dnbinom.c -o dnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pnbinom.c -o pnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbinom.c -o qnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbinom_mu.c -o qnbinom_mu.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rnbinom.c -o rnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dpois.c -o dpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ppois.c -o ppois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qpois.c -o qpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rpois.c -o rpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dweibull.c -o dweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pweibull.c -o pweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qweibull.c -o qweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rweibull.c -o rweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dlogis.c -o dlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c plogis.c -o plogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qlogis.c -o qlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rlogis.c -o rlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dnchisq.c -o dnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pnchisq.c -o pnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qnchisq.c -o qnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dnbeta.c -o dnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pnbeta.c -o pnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbeta.c -o qnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pnf.c -o pnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pnt.c -o pnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qnf.c -o qnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qnt.c -o qnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ptukey.c -o ptukey.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qtukey.c -o qtukey.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c toms708.c -o toms708.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c wilcox.c -o wilcox.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c signrank.c -o signrank.o ar -cr libnmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o ranlib libnmath.a make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' config.status: creating src/unix/Makefile making Rembedded.d from Rembedded.c making dynload.d from dynload.c making system.d from system.c making sys-unix.d from sys-unix.c making sys-std.d from sys-std.c making X11.d from X11.c make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c Rembedded.c -o Rembedded.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dynload.c -o dynload.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c system.c -o system.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sys-unix.c -o sys-unix.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sys-std.c -o sys-std.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c X11.c -o X11.o ar -cr libunix.a Rembedded.o dynload.o system.o sys-unix.o sys-std.o X11.o ranlib libunix.a make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/build/reproducible-path/r-base-4.4.2"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' config.status: creating src/main/Makefile making CommandLineArgs.d from CommandLineArgs.c making Rdynload.d from Rdynload.c making Renviron.d from Renviron.c making RNG.d from RNG.c making agrep.d from agrep.c making altclasses.d from altclasses.c making altrep.d from altrep.c making apply.d from apply.c making arithmetic.d from arithmetic.c making array.d from array.c making attrib.d from attrib.c making bind.d from bind.c making builtin.d from builtin.c making character.d from character.c making clippath.d from clippath.c making coerce.d from coerce.c making colors.d from colors.c making complex.d from complex.c making connections.d from connections.c making context.d from context.c making cum.d from cum.c making dcf.d from dcf.c making datetime.d from datetime.c making debug.d from debug.c making deparse.d from deparse.c making devices.d from devices.c making dotcode.d from dotcode.c making dounzip.d from dounzip.c making dstruct.d from dstruct.c making duplicate.d from duplicate.c making edit.d from edit.c making engine.d from engine.c making envir.d from envir.c making errors.d from errors.c making eval.d from eval.c making flexiblas.d from flexiblas.c making format.d from format.c making gevents.d from gevents.c making gram.d from gram.c making gram-ex.d from gram-ex.c making graphics.d from graphics.c making grep.d from grep.c making identical.d from identical.c making inlined.d from inlined.c making inspect.d from inspect.c making internet.d from internet.c making iosupport.d from iosupport.c making lapack.d from lapack.c making list.d from list.c making localecharset.d from localecharset.c making logic.d from logic.c making machine.d from machine.c making main.d from main.c making mapply.d from mapply.c making mask.d from mask.c making match.d from match.c making memory.d from memory.c making names.d from names.c making objects.d from objects.c making options.d from options.c making paste.d from paste.c making patterns.d from patterns.c making platform.d from platform.c making plot.d from plot.c making plot3d.d from plot3d.c making plotmath.d from plotmath.c making print.d from print.c making printarray.d from printarray.c making printvector.d from printvector.c making printutils.d from printutils.c making qsort.d from qsort.c making radixsort.d from radixsort.c making random.d from random.c making raw.d from raw.c making registration.d from registration.c making relop.d from relop.c making rlocale.d from rlocale.c making saveload.d from saveload.c making scan.d from scan.c making seq.d from seq.c making serialize.d from serialize.c making sort.d from sort.c making source.d from source.c making split.d from split.c making sprintf.d from sprintf.c making startup.d from startup.c making subassign.d from subassign.c making subscript.d from subscript.c making subset.d from subset.c making summary.d from summary.c making sysutils.d from sysutils.c making times.d from times.c making unique.d from unique.c making util.d from util.c making version.d from version.c making g_alab_her.d from g_alab_her.c making g_cntrlify.d from g_cntrlify.c making g_fontdb.d from g_fontdb.c making g_her_glyph.d from g_her_glyph.c making Rmain.d from Rmain.c making alloca.d from alloca.c making mkdtemp.d from mkdtemp.c making strdup.d from strdup.c making strncasecmp.d from strncasecmp.c make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c CommandLineArgs.c -o CommandLineArgs.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c Rdynload.c -o Rdynload.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c Renviron.c -o Renviron.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c RNG.c -o RNG.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c agrep.c -o agrep.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c altclasses.c -o altclasses.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c altrep.c -o altrep.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c apply.c -o apply.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c arithmetic.c -o arithmetic.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c array.c -o array.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c attrib.c -o attrib.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bind.c -o bind.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c builtin.c -o builtin.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c character.c -o character.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c coerce.c -o coerce.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c colors.c -o colors.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c complex.c -o complex.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c connections.c -o connections.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c context.c -o context.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c cum.c -o cum.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dcf.c -o dcf.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c datetime.c -o datetime.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c debug.c -o debug.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c deparse.c -o deparse.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c devices.c -o devices.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dotcode.c -o dotcode.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dounzip.c -o dounzip.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dstruct.c -o dstruct.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c duplicate.c -o duplicate.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c edit.c -o edit.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c engine.c -o engine.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c envir.c -o envir.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c errors.c -o errors.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c eval.c -o eval.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c flexiblas.c -o flexiblas.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c format.c -o format.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gevents.c -o gevents.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gram.c -o gram.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gram-ex.c -o gram-ex.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c graphics.c -o graphics.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c grep.c -o grep.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c identical.c -o identical.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c inlined.c -o inlined.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c inspect.c -o inspect.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c internet.c -o internet.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c iosupport.c -o iosupport.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c lapack.c -o lapack.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c list.c -o list.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c localecharset.c -o localecharset.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c logic.c -o logic.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c machine.c -o machine.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c main.c -o main.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c mapply.c -o mapply.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c match.c -o match.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c memory.c -o memory.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c names.c -o names.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c objects.c -o objects.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c options.c -o options.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c paste.c -o paste.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c patterns.c -o patterns.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c platform.c -o platform.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c plot.c -o plot.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c plot3d.c -o plot3d.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c plotmath.c -o plotmath.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c print.c -o print.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c printarray.c -o printarray.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c printvector.c -o printvector.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c printutils.c -o printutils.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c qsort.c -o qsort.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c radixsort.c -o radixsort.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c random.c -o random.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c raw.c -o raw.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c registration.c -o registration.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c relop.c -o relop.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rlocale.c -o rlocale.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c saveload.c -o saveload.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c scan.c -o scan.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c seq.c -o seq.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c serialize.c -o serialize.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sort.c -o sort.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c source.c -o source.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c split.c -o split.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sprintf.c -o sprintf.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c startup.c -o startup.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c subassign.c -o subassign.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c subscript.c -o subscript.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c subset.c -o subset.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c summary.c -o summary.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sysutils.c -o sysutils.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c times.c -o times.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c unique.c -o unique.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c util.c -o util.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c version.c -o version.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c g_alab_her.c -o g_alab_her.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c g_cntrlify.c -o g_cntrlify.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c g_fontdb.c -o g_fontdb.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c g_her_glyph.c -o g_her_glyph.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c xxxpr.f -o xxxpr.o gcc -shared -fopenmp -Wl,-z,relro -o libR.so CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o altclasses.o altrep.o apply.o arithmetic.o array.o attrib.o bind.o builtin.o character.o clippath.o coerce.o colors.o complex.o connections.o context.o cum.o dcf.o datetime.o debug.o deparse.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o edit.o engine.o envir.o errors.o eval.o flexiblas.o format.o gevents.o gram.o gram-ex.o graphics.o grep.o identical.o inlined.o inspect.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o machine.o main.o mapply.o mask.o match.o memory.o names.o objects.o options.o paste.o patterns.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o radixsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o times.o unique.o util.o version.o g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o xxxpr.o `ls ../unix/*.o ../appl/*.o ../nmath/*.o` ../extra/tre/libtre.a -lblas -lgfortran -lm -lreadline -lpcre2-8 -ldeflate -llzma -lbz2 -lz -ltirpc -lrt -ldl -lm -licuuc -licui18n make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' mkdir -p -- /build/reproducible-path/r-base-4.4.2/bin/exec mkdir -p -- /build/reproducible-path/r-base-4.4.2/lib make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c Rmain.c -o Rmain.o gcc -Wl,--export-dynamic -fopenmp -L"../../lib" -Wl,-z,relro -o R.bin Rmain.o -lR make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' making Rhttpd.d from Rhttpd.c making Rsock.d from Rsock.c making internet.d from internet.c making libcurl.d from libcurl.c making sock.d from sock.c making sockconn.d from sockconn.c make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c internet.c -o internet.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c libcurl.c -o libcurl.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c sock.c -o sock.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -shared -L"../../../lib" -Wl,-z,relro -o internet.so Rhttpd.o Rsock.o internet.o libcurl.o sock.o sockconn.o -lcurl -lR make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' mkdir -p -- /build/reproducible-path/r-base-4.4.2/modules make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' making Lapack.d from Lapack.c make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c Lapack.c -o Lapack.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ../../main/flexiblas.c -o flexiblas.o gcc -shared -L"../../../lib" -Wl,-z,relro -o lapack.so Lapack.o flexiblas.o -lR -llapack -lblas -lgfortran -lm make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' making devX11.d from devX11.c making rotated.d from rotated.c making rbitmap.d from rbitmap.c make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' gcc -I/usr/include/libpng16 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c devX11.c -o devX11.o gcc -I/usr/include/libpng16 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rotated.c -o rotated.o gcc -I/usr/include/libpng16 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rbitmap.c -o rbitmap.o gcc -shared -L"../../../lib" -Wl,-z,relro -o R_X11.so devX11.o rotated.o rbitmap.o -ltiff -ljpeg -lpng16 -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lz -lpng16 -lcairo -lX11 -lXext -lX11 -lXt -lR -lm gcc -I/usr/include/libpng16 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dataentry.c -o dataentry.o gcc -shared -L"../../../lib" -Wl,-z,relro -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lz -lpng16 -lcairo -lX11 -lXext -lX11 -lXt -lR -lm make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' mkdir -p -- ../../library make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/profile' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' building package 'translations' mkdir -p -- ../../../library/translations make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' building package 'base' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' mkdir -p -- ../../../library/base/demo make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' mkdir -p -- ../../../library/tools/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' making text.d from text.c making init.d from init.c making Rmd5.d from Rmd5.c making md5.d from md5.c making signals.d from signals.c making install.d from install.c making getfmts.d from getfmts.c making http.d from http.c making gramLatex.d from gramLatex.c making gramRd.d from gramRd.c making pdscan.d from pdscan.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c text.c -o text.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c Rmd5.c -o Rmd5.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c md5.c -o md5.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c signals.c -o signals.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c install.c -o install.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c getfmts.c -o getfmts.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c http.c -o http.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gramLatex.c -o gramLatex.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gramRd.c -o gramRd.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pdscan.c -o pdscan.o gcc -shared -L../../../../lib -Wl,-z,relro -o tools.so text.o init.o Rmd5.o md5.o signals.o install.o getfmts.o http.o gramLatex.o gramRd.o pdscan.o -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' mkdir -p -- ../../../library/compiler/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' byte-compiling package 'compiler' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' byte-compiling package 'base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' byte-compiling package 'tools' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' mkdir -p -- ../../../library/utils/R mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' making init.d from init.c making io.d from io.c making size.d from size.c making sock.d from sock.c making stubs.d from stubs.c making utils.d from utils.c making hashtab.d from hashtab.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c io.c -o io.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c size.c -o size.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sock.c -o sock.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c stubs.c -o stubs.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c hashtab.c -o hashtab.o gcc -shared -L../../../../lib -Wl,-z,relro -o utils.so init.o io.o size.o sock.o stubs.o utils.o hashtab.o -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' mkdir -p -- ../../../../library/utils/libs make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' byte-compiling package 'utils' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/fonts/Roboto mkdir -p -- ../../../library/grDevices/fonts/Montserrat/static mkdir -p -- ../../../library/grDevices/icc make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' making axis_scales.d from axis_scales.c making chull.d from chull.c making devices.d from devices.c making init.d from init.c making stubs.d from stubs.c making colors.d from colors.c making clippath.d from clippath.c making patterns.d from patterns.c making mask.d from mask.c making group.d from group.c making devCairo.d from devCairo.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c axis_scales.c -o axis_scales.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c chull.c -o chull.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c devices.c -o devices.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c stubs.c -o stubs.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c colors.c -o colors.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c patterns.c -o patterns.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c group.c -o group.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c devCairo.c -o devCairo.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c devPicTeX.c -o devPicTeX.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c devPS.c -o devPS.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c devQuartz.c -o devQuartz.o gcc -shared -L../../../../lib -Wl,-z,relro -o grDevices.so axis_scales.o chull.o devices.o init.o stubs.o colors.o clippath.o patterns.o mask.o group.o devCairo.o devPicTeX.o devPS.o devQuartz.o -lz -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[8]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[9]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' gcc -I. -I../../../../../src/include -I../../../../../src/include -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -pthread -I../../../../../src/modules/X11 -DHAVE_CONFIG_H -fopenmp -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c cairoBM.c -o cairoBM.o gcc -shared -L"../../../../../lib" -Wl,-z,relro -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -ltiff -ljpeg -lpng16 -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lz -lcairo -lpng16 -L"../../../../../lib" -lR -lm make[10]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' byte-compiling package 'grDevices' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' mkdir -p -- ../../../library/graphics/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' making init.d from init.c making base.d from base.c making graphics.d from graphics.c making par.d from par.c making plot.d from plot.c making plot3d.d from plot3d.c making stem.d from stem.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c base.c -o base.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c graphics.c -o graphics.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c par.c -o par.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c plot.c -o plot.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c plot3d.c -o plot3d.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c stem.c -o stem.o gcc -shared -L../../../../lib -Wl,-z,relro -o graphics.so init.o base.o graphics.o par.o plot.o plot3d.o stem.o -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' mkdir -p -- ../../../../library/graphics/libs make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' byte-compiling package 'graphics' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' mkdir -p -- ../../../library/stats/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' making init.d from init.c making kmeans.d from kmeans.c making ansari.d from ansari.c making bandwidths.d from bandwidths.c making chisqsim.d from chisqsim.c making d2x2xk.d from d2x2xk.c making fexact.d from fexact.c making kendall.d from kendall.c making ks.d from ks.c making line.d from line.c making smooth.d from smooth.c making prho.d from prho.c making swilk.d from swilk.c making ksmooth.d from ksmooth.c making loessc.d from loessc.c making monoSpl.d from monoSpl.c making isoreg.d from isoreg.c making Srunmed.d from Srunmed.c making dblcen.d from dblcen.c making distance.d from distance.c making hclust-utils.d from hclust-utils.c making nls.d from nls.c making rWishart.d from rWishart.c making HoltWinters.d from HoltWinters.c making PPsum.d from PPsum.c making arima.d from arima.c making burg.d from burg.c making filter.d from filter.c making mAR.d from mAR.c making pacf.d from pacf.c making starma.d from starma.c making port.d from port.c making family.d from family.c making sbart.d from sbart.c making approx.d from approx.c making loglin.d from loglin.c making lowess.d from lowess.c making massdist.d from massdist.c making splines.d from splines.c making lm.d from lm.c making complete_cases.d from complete_cases.c making cov.d from cov.c making deriv.d from deriv.c making fft.d from fft.c making fourier.d from fourier.c making model.d from model.c making optim.d from optim.c making optimize.d from optimize.c making integrate.d from integrate.c making random.d from random.c making distn.d from distn.c making zeroin.d from zeroin.c making rcont.d from rcont.c making influence.d from influence.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c kmeans.c -o kmeans.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ansari.c -o ansari.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bandwidths.c -o bandwidths.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c chisqsim.c -o chisqsim.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c d2x2xk.c -o d2x2xk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fexact.c -o fexact.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c kendall.c -o kendall.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ks.c -o ks.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c line.c -o line.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c smooth.c -o smooth.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c prho.c -o prho.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c swilk.c -o swilk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ksmooth.c -o ksmooth.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c loessc.c -o loessc.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c monoSpl.c -o monoSpl.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c isoreg.c -o isoreg.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c Srunmed.c -o Srunmed.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c dblcen.c -o dblcen.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c distance.c -o distance.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c hclust-utils.c -o hclust-utils.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c nls.c -o nls.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rWishart.c -o rWishart.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c HoltWinters.c -o HoltWinters.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c PPsum.c -o PPsum.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c arima.c -o arima.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c burg.c -o burg.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c filter.c -o filter.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c mAR.c -o mAR.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c pacf.c -o pacf.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c starma.c -o starma.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c port.c -o port.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c family.c -o family.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c sbart.c -o sbart.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c approx.c -o approx.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c loglin.c -o loglin.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c lowess.c -o lowess.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c massdist.c -o massdist.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c splines.c -o splines.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c lm.c -o lm.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c complete_cases.c -o complete_cases.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c cov.c -o cov.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c deriv.c -o deriv.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fft.c -o fft.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fourier.c -o fourier.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c model.c -o model.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c optim.c -o optim.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c optimize.c -o optimize.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c integrate.c -o integrate.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c random.c -o random.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c distn.c -o distn.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c zeroin.c -o zeroin.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rcont.c -o rcont.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c influence.c -o influence.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c bsplvd.f -o bsplvd.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c bvalue.f -o bvalue.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c bvalus.f -o bvalus.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c loessf.f -o loessf.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c ppr.f -o ppr.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c qsbart.f -o qsbart.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c sgram.f -o sgram.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c sinerp.f -o sinerp.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c sslvrg.f -o sslvrg.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c stxwx.f -o stxwx.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c hclust.f -o hclust.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c kmns.f -o kmns.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c eureka.f -o eureka.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c stl.f -o stl.o gfortran -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c portsrc.f -o portsrc.o gfortran -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -c lminfl.f -o lminfl.o gcc -shared -L../../../../lib -Wl,-z,relro -o stats.so init.o kmeans.o ansari.o bandwidths.o chisqsim.o d2x2xk.o fexact.o kendall.o ks.o line.o smooth.o prho.o swilk.o ksmooth.o loessc.o monoSpl.o isoreg.o Srunmed.o dblcen.o distance.o hclust-utils.o nls.o rWishart.o HoltWinters.o PPsum.o arima.o burg.o filter.o mAR.o pacf.o starma.o port.o family.o sbart.o approx.o loglin.o lowess.o massdist.o splines.o lm.o complete_cases.o cov.o deriv.o fft.o fourier.o model.o optim.o optimize.o integrate.o random.o distn.o zeroin.o rcont.o influence.o bsplvd.o bvalue.o bvalus.o loessf.o ppr.o qsbart.o sgram.o sinerp.o sslvrg.o stxwx.o hclust.o kmns.o eureka.o stl.o portsrc.o lminfl.o -fopenmp -llapack -lblas -lgfortran -lm -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' byte-compiling package 'stats' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' mkdir -p -- ../../../library/datasets/data make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' mkdir -p -- ../../../library/methods/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' making do_substitute_direct.d from do_substitute_direct.c making init.d from init.c making methods_list_dispatch.d from methods_list_dispatch.c making slot.d from slot.c making class_support.d from class_support.c making tests.d from tests.c making utils.d from utils.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c do_substitute_direct.c -o do_substitute_direct.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c slot.c -o slot.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c class_support.c -o class_support.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c tests.c -o tests.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -shared -L../../../../lib -Wl,-z,relro -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o utils.o -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' byte-compiling package 'methods' initializing class and method definitions ... done make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' mkdir -p -- ../../../library/grid/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' making clippath.d from clippath.c making gpar.d from gpar.c making grid.d from grid.c making just.d from just.c making layout.d from layout.c making mask.d from mask.c making matrix.d from matrix.c making path.d from path.c making register.d from register.c making state.d from state.c making typeset.d from typeset.c making unit.d from unit.c making util.d from util.c making viewport.d from viewport.c gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c gpar.c -o gpar.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c grid.c -o grid.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c just.c -o just.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c layout.c -o layout.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c matrix.c -o matrix.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c path.c -o path.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c register.c -o register.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c state.c -o state.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c typeset.c -o typeset.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c unit.c -o unit.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c util.c -o util.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c viewport.c -o viewport.o gcc -shared -L../../../../lib -Wl,-z,relro -o grid.so clippath.o gpar.o grid.o just.o layout.o mask.o matrix.o path.o register.o state.o typeset.o unit.o util.o viewport.o -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' byte-compiling package 'grid' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' mkdir -p -- ../../../library/splines/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' making splines.d from splines.c gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c splines.c -o splines.o gcc -shared -L../../../../lib -Wl,-z,relro -o splines.so splines.o -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' byte-compiling package 'splines' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' mkdir -p -- ../../../library/stats4/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' byte-compiling package 'stats4' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' mkdir -p -- ../../../library/tcltk/exec make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' making init.d from init.c making tcltk.d from tcltk.c making tcltk_unix.d from tcltk_unix.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c tcltk.c -o tcltk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c tcltk_unix.c -o tcltk_unix.o gcc -shared -L../../../../lib -Wl,-z,relro -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib/aarch64-linux-gnu -ltcl8.6 -L/usr/lib/aarch64-linux-gnu -ltk8.6 -lX11 -lXss -lXext -lm -L../../../../lib -lR make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' byte-compiling package 'tcltk' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' mkdir -p -- ../../../library/parallel/R make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c rngstream.c -o rngstream.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c fork.c -o fork.o gcc -shared -L../../../../lib -Wl,-z,relro -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' byte-compiling package 'parallel' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' you should 'make docs' now ... make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2' (cd src/nmath/standalone; \ /usr/bin/make CFLAGS="`DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CXXFLAGS` -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ CXXFLAGS="`DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CXXFLAGS` -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -D_REENTRANT" \ CC=gcc \ CXX=g++ \ F77=gfortran \ R_GZIPCMD="/bin/gzip -n" \ libRmath_la_LDFLAGS=-Wl,-soname,libRmath.so.1 \ shared static ) make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' (cd ../../include; /usr/bin/make Rmath.h) make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include' Copying source files make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making qnbinom_mu.d from qnbinom_mu.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c making std_unif.d from std_unif.c make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c mlutils.c -o mlutils.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c d1mach.c -o d1mach.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c i1mach.c -o i1mach.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmax2.c -o fmax2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmin2.c -o fmin2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fprec.c -o fprec.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fround.c -o fround.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ftrunc.c -o ftrunc.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sign.c -o sign.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fsign.c -o fsign.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imax2.c -o imax2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imin2.c -o imin2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c chebyshev.c -o chebyshev.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c log1p.c -o log1p.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgammacor.c -o lgammacor.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gammalims.c -o gammalims.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c stirlerr.c -o stirlerr.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bd0.c -o bd0.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma.c -o gamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgamma.c -o lgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma_cody.c -o gamma_cody.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c beta.c -o beta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lbeta.c -o lbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c polygamma.c -o polygamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c cospi.c -o cospi.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_i.c -o bessel_i.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_j.c -o bessel_j.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_k.c -o bessel_k.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_y.c -o bessel_y.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c choose.c -o choose.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c snorm.c -o snorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sexp.c -o sexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgamma.c -o dgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgamma.c -o pgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgamma.c -o qgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgamma.c -o rgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbeta.c -o dbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbeta.c -o pbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbeta.c -o qbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbeta.c -o rbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dunif.c -o dunif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c punif.c -o punif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qunif.c -o qunif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c runif.c -o runif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnorm.c -o dnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnorm.c -o pnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnorm.c -o qnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnorm.c -o rnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlnorm.c -o dlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plnorm.c -o plnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlnorm.c -o qlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlnorm.c -o rlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c df.c -o df.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pf.c -o pf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qf.c -o qf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rf.c -o rf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnf.c -o dnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dt.c -o dt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pt.c -o pt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qt.c -o qt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rt.c -o rt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnt.c -o dnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dchisq.c -o dchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pchisq.c -o pchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qchisq.c -o qchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rchisq.c -o rchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnchisq.c -o rnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbinom.c -o dbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbinom.c -o pbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbinom.c -o qbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbinom.c -o rbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rmultinom.c -o rmultinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dcauchy.c -o dcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pcauchy.c -o pcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qcauchy.c -o qcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rcauchy.c -o rcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dexp.c -o dexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pexp.c -o pexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qexp.c -o qexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rexp.c -o rexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgeom.c -o dgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgeom.c -o pgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgeom.c -o qgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgeom.c -o rgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dhyper.c -o dhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c phyper.c -o phyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qhyper.c -o qhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rhyper.c -o rhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbinom.c -o dnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbinom.c -o pnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom.c -o qnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom_mu.c -o qnbinom_mu.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnbinom.c -o rnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dpois.c -o dpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ppois.c -o ppois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qpois.c -o qpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rpois.c -o rpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dweibull.c -o dweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pweibull.c -o pweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qweibull.c -o qweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rweibull.c -o rweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlogis.c -o dlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plogis.c -o plogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlogis.c -o qlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlogis.c -o rlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnchisq.c -o dnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnchisq.c -o pnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnchisq.c -o qnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbeta.c -o dnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbeta.c -o pnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbeta.c -o qnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnf.c -o pnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnt.c -o pnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnf.c -o qnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnt.c -o qnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ptukey.c -o ptukey.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qtukey.c -o qtukey.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c toms708.c -o toms708.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c wilcox.c -o wilcox.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c signrank.c -o signrank.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c std_unif.c -o std_unif.lo gcc -shared -fopenmp -Wl,-z,relro -o libRmath.so -Wl,-soname,libRmath.so.1 mlutils.lo d1mach.lo i1mach.lo fmax2.lo fmin2.lo fprec.lo fround.lo ftrunc.lo sign.lo fsign.lo imax2.lo imin2.lo chebyshev.lo log1p.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.lo cospi.lo bessel_i.lo bessel_j.lo bessel_k.lo bessel_y.lo choose.lo snorm.lo sexp.lo dgamma.lo pgamma.lo qgamma.lo rgamma.lo dbeta.lo pbeta.lo qbeta.lo rbeta.lo dunif.lo punif.lo qunif.lo runif.lo dnorm.lo pnorm.lo qnorm.lo rnorm.lo dlnorm.lo plnorm.lo qlnorm.lo rlnorm.lo df.lo pf.lo qf.lo rf.lo dnf.lo dt.lo pt.lo qt.lo rt.lo dnt.lo dchisq.lo pchisq.lo qchisq.lo rchisq.lo rnchisq.lo dbinom.lo pbinom.lo qbinom.lo rbinom.lo rmultinom.lo dcauchy.lo pcauchy.lo qcauchy.lo rcauchy.lo dexp.lo pexp.lo qexp.lo rexp.lo dgeom.lo pgeom.lo qgeom.lo rgeom.lo dhyper.lo phyper.lo qhyper.lo rhyper.lo dnbinom.lo pnbinom.lo qnbinom.lo qnbinom_mu.lo rnbinom.lo dpois.lo ppois.lo qpois.lo rpois.lo dweibull.lo pweibull.lo qweibull.lo rweibull.lo dlogis.lo plogis.lo qlogis.lo rlogis.lo dnchisq.lo pnchisq.lo qnchisq.lo dnbeta.lo pnbeta.lo qnbeta.lo pnf.lo pnt.lo qnf.lo qnt.lo ptukey.lo qtukey.lo toms708.lo wilcox.lo signrank.lo std_unif.lo -lm make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c mlutils.c -o mlutils.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c d1mach.c -o d1mach.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c i1mach.c -o i1mach.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmax2.c -o fmax2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmin2.c -o fmin2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fprec.c -o fprec.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fround.c -o fround.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ftrunc.c -o ftrunc.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sign.c -o sign.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fsign.c -o fsign.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imax2.c -o imax2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imin2.c -o imin2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c chebyshev.c -o chebyshev.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c log1p.c -o log1p.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgammacor.c -o lgammacor.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gammalims.c -o gammalims.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c stirlerr.c -o stirlerr.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bd0.c -o bd0.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma.c -o gamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgamma.c -o lgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma_cody.c -o gamma_cody.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c beta.c -o beta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lbeta.c -o lbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c polygamma.c -o polygamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c cospi.c -o cospi.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_i.c -o bessel_i.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_j.c -o bessel_j.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_k.c -o bessel_k.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_y.c -o bessel_y.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c choose.c -o choose.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c snorm.c -o snorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sexp.c -o sexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgamma.c -o dgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgamma.c -o pgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgamma.c -o qgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgamma.c -o rgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbeta.c -o dbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbeta.c -o pbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbeta.c -o qbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbeta.c -o rbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dunif.c -o dunif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c punif.c -o punif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qunif.c -o qunif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c runif.c -o runif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnorm.c -o dnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnorm.c -o pnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnorm.c -o qnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnorm.c -o rnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlnorm.c -o dlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plnorm.c -o plnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlnorm.c -o qlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlnorm.c -o rlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c df.c -o df.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pf.c -o pf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qf.c -o qf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rf.c -o rf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnf.c -o dnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dt.c -o dt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pt.c -o pt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qt.c -o qt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rt.c -o rt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnt.c -o dnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dchisq.c -o dchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pchisq.c -o pchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qchisq.c -o qchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rchisq.c -o rchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnchisq.c -o rnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbinom.c -o dbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbinom.c -o pbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbinom.c -o qbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbinom.c -o rbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rmultinom.c -o rmultinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dcauchy.c -o dcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pcauchy.c -o pcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qcauchy.c -o qcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rcauchy.c -o rcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dexp.c -o dexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pexp.c -o pexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qexp.c -o qexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rexp.c -o rexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgeom.c -o dgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgeom.c -o pgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgeom.c -o qgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgeom.c -o rgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dhyper.c -o dhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c phyper.c -o phyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qhyper.c -o qhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rhyper.c -o rhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbinom.c -o dnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbinom.c -o pnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom.c -o qnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom_mu.c -o qnbinom_mu.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnbinom.c -o rnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dpois.c -o dpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ppois.c -o ppois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qpois.c -o qpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rpois.c -o rpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dweibull.c -o dweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pweibull.c -o pweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qweibull.c -o qweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rweibull.c -o rweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlogis.c -o dlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plogis.c -o plogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlogis.c -o qlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlogis.c -o rlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnchisq.c -o dnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnchisq.c -o pnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnchisq.c -o qnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbeta.c -o dnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbeta.c -o pnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbeta.c -o qnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnf.c -o pnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnt.c -o pnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnf.c -o qnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnt.c -o qnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ptukey.c -o ptukey.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qtukey.c -o qtukey.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c toms708.c -o toms708.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c wilcox.c -o wilcox.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c signrank.c -o signrank.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/nmath/standalone=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c std_unif.c -o std_unif.o ar -cr libRmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o std_unif.o ranlib libRmath.a make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' R_GZIPCMD="/bin/gzip -n" \ /usr/bin/make docs R_CMD_BUILD_HELP_OPTS="--txt --example" make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/build/reproducible-path/r-base-4.4.2"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' /build/reproducible-path/r-base-4.4.2/lib/libR.so is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' /build/reproducible-path/r-base-4.4.2/bin/exec/R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' /build/reproducible-path/r-base-4.4.2/modules/R_X11.so is unchanged /build/reproducible-path/r-base-4.4.2/modules/R_de.so is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/profile' building system startup profile make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/profile' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' building package 'translations' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' building package 'base' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' building package 'tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' building package 'utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' building package 'stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' building package 'methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' building package 'grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' building package 'splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' you should 'make docs' now ... make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc' creating doc/NEWS creating doc/NEWS.pdf make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi creating doc/manual/R-admin.html creating doc/manual/R-data.html creating doc/manual/R-exts.html creating doc/manual/R-intro.html creating doc/manual/R-ints.html creating doc/manual/R-lang.html make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' installing parsed Rd make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' building/updating package metadata ... make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' writing package indices make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2' /usr/bin/make javaconf make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/build/reproducible-path/r-base-4.4.2"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' /build/reproducible-path/r-base-4.4.2/lib/libR.so is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' /build/reproducible-path/r-base-4.4.2/bin/exec/R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' /build/reproducible-path/r-base-4.4.2/modules/R_X11.so is unchanged /build/reproducible-path/r-base-4.4.2/modules/R_de.so is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/profile' building system startup profile make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/profile' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' building package 'translations' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' building package 'base' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' building package 'tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' building package 'utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' building package 'stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' building package 'methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' building package 'grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' building package 'splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2' configuring Java ... Java interpreter : /usr/lib/jvm/default-java/bin/java Java version : 21.0.5 Java home path : /usr/lib/jvm/default-java Java compiler : /usr/lib/jvm/default-java/bin/javac Java headers gen.: Java archive tool: /usr/lib/jvm/default-java/bin/jar trying to compile and link a JNI program detected JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux detected JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm using C compiler: 'gcc (Debian 14.2.0-11) 14.2.0' make[3]: Entering directory '/tmp/Rjavareconf.5MJ74e' gcc -I"/build/reproducible-path/r-base-4.4.2/include" -DNDEBUG -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c conftest.c -o conftest.o gcc -shared -L/build/reproducible-path/r-base-4.4.2/lib -Wl,-z,relro -o conftest.so conftest.o -L/usr/lib/jvm/default-java/lib/server -ljvm -L/build/reproducible-path/r-base-4.4.2/lib -lR make[3]: Leaving directory '/tmp/Rjavareconf.5MJ74e' JAVA_HOME : /usr/lib/jvm/default-java Java library path: $(JAVA_HOME)/lib/server JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm Updating Java configuration in /build/reproducible-path/r-base-4.4.2 Done. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2' make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2' touch make-arch-stamp *** make-indep *** /usr/bin/make -k docs make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/build/reproducible-path/r-base-4.4.2"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' /build/reproducible-path/r-base-4.4.2/lib/libR.so is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' /build/reproducible-path/r-base-4.4.2/bin/exec/R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' /build/reproducible-path/r-base-4.4.2/modules/R_X11.so is unchanged /build/reproducible-path/r-base-4.4.2/modules/R_de.so is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/profile' building system startup profile make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/profile' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' building package 'translations' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/translations' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' building package 'base' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' building package 'tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' building package 'utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' building package 'stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' building package 'methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' building package 'grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' building package 'splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' 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Converting parsed Rd's to LaTeX ............................................ collecting LaTeX docs for package 'tools' ... Converting parsed Rd's to LaTeX ...... collecting LaTeX docs for package 'utils' ... Converting parsed Rd's to LaTeX ................ collecting LaTeX docs for package 'grDevices' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'graphics' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'stats' ... Converting parsed Rd's to LaTeX ............................... collecting LaTeX docs for package 'datasets' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'methods' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'grid' ... Converting parsed Rd's to LaTeX .......... collecting LaTeX docs for package 'splines' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'stats4' ... 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This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2024-11-01> L3 programming layer <2024-11-02> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2024/06/29 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. 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(/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texlive/texmf-dist/tex/latex/jknapltx/ursfs.fd) [1{/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-t1-0.enc}] [2] Underfull \hbox (badness 6252) in paragraph at lines 149--157 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 149--157 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 337--340 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . 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This reads the [120] Underfull \hbox (badness 2261) in paragraph at lines 7741--7746 \T1/zi4/m/n/10 / / github . com / astrand / xclip$[][]\T1/ptm/m/n/10 ) or []\T1 /zi4/m/n/10 xsel []\T1/ptm/m/n/10 ([][]$\T1/zi4/m/n/10 https : / / www . vergen et . net / ~conrad / software / [121] [122] Underfull \vbox (badness 10000) has occurred while \output is active [123] [124] [125] [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 2096) in paragraph at lines 8474--8478 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [132] [133] Underfull \hbox (badness 2351) in paragraph at lines 8589--8592 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [134] [135] [136] [137] [138] Underfull \hbox (badness 4479) in paragraph at lines 8906--8917 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [139] [140] [141] [142] [143] [144] Underfull \hbox (badness 1629) in paragraph at lines 9327--9339 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 9327--9339 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] Underfull \hbox (badness 1178) in paragraph at lines 10193--10197 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] Underfull \hbox (badness 2744) in paragraph at lines 12533--12535 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [194] [195] [196] [197] [198] [199] [200] [201] Underfull \vbox (badness 10000) has occurred while \output is active [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223] [224] [225] [226] Underfull \hbox (badness 2253) in paragraph at lines 14737--14739 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 14772--14775 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [227] Underfull \hbox (badness 1565) in paragraph at lines 14854--14858 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and [228] Underfull \hbox (badness 4927) in paragraph at lines 14905--14907 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [229] [230] [231] Underfull \hbox (badness 1466) in paragraph at lines 15056--15059 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [232] Underfull \hbox (badness 10000) in paragraph at lines 15187--15191 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15198--15201 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [233] [234] [235] [236] [237] Underfull \hbox (badness 3965) in paragraph at lines 15493--15497 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [238] [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 5260) in paragraph at lines 15995--15995 []\T1/zi4/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/zi4/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 decimal.mark[]\T1/ptm/m/n/10 , [246] [247] [248] [249] Underfull \hbox (badness 4429) in paragraph at lines 16285--16288 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [250] [251] Underfull \hbox (badness 10000) in paragraph at lines 16392--16394 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [252] Underfull \hbox (badness 2035) in paragraph at lines 16465--16469 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [253] Underfull \vbox (badness 10000) has occurred while \output is active [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 2452) in paragraph at lines 17088--17092 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 17088--17092 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [263] [264] [265] Underfull \hbox (badness 1092) in paragraph at lines 17262--17267 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [266] [267] [268] Underfull \hbox (badness 6741) in paragraph at lines 17515--17519 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \vbox (badness 3803) has occurred while \output is active [280] Underfull \vbox (badness 10000) has occurred while \output is active [281] [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1769) in paragraph at lines 18988--18991 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19297--19299 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 19303--19312 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] Underfull \hbox (badness 1442) in paragraph at lines 19911--19913 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [306] Underfull \hbox (badness 2452) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/zi4/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.vector[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 5726) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.call[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.en vironment[][][] [][]is.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.ma trix[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.na[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 anyNA[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.nan [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.finite[][][] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1248) in paragraph at lines 20405--20408 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [313] [314] [315] [316] [317] Underfull \hbox (badness 4739) in paragraph at lines 20672--20674 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] Underfull \hbox (badness 2469) in paragraph at lines 21830--21835 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [337] Underfull \hbox (badness 1675) in paragraph at lines 21917--21926 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21927--21940 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the [338] Underfull \hbox (badness 10000) in paragraph at lines 21975--21978 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21975--21978 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [339] [340] Underfull \hbox (badness 1014) in paragraph at lines 22109--22114 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 1264) in paragraph at lines 22956--22964 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 22991--22994 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] Underfull \hbox (badness 5231) in paragraph at lines 23809--23811 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [367] [368] [369] [370] [371] [372] [373] [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] Underfull \hbox (badness 6380) in paragraph at lines 24919--24925 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Data _ compress ion$[][] \T1/ptm/m/n/10 for back-ground on data com-pres- Underfull \hbox (badness 1472) in paragraph at lines 24919--24925 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / XZ _ Utils$[][] [384] [385] [386] [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 2790) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [393] [394] [395] [396] [397] Underfull \hbox (badness 1194) in paragraph at lines 25760--25763 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [398] [399] [400] Underfull \hbox (badness 2368) in paragraph at lines 25967--25973 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [401] [402] [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26357--26360 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 26985--26987 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 2443) in paragraph at lines 27476--27484 \T1/ptm/m/n/10 suit-able char-ac-ter vec-tors as above, or nu-meric ver-sion ob -jects. For [424] [425] [426] [427] [428] [429] [430] Underfull \hbox (badness 1881) in paragraph at lines 27906--27909 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27931--27933 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [431] [432] Underfull \hbox (badness 2142) in paragraph at lines 28072--28076 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 28129--28134 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [433] [434] [435] [436] Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 5878) in paragraph at lines 28438--28441 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/p tm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 28464--28466 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28510--28515 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [437] Underfull \hbox (badness 2529) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 28528--28531 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [438] [439] [440] [441] [442] Underfull \vbox (badness 10000) has occurred while \output is active [443] Underfull \hbox (badness 10000) in paragraph at lines 28946--28950 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [444] [445] Underfull \hbox (badness 10000) in paragraph at lines 29093--29096 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [446] Underfull \hbox (badness 7925) in paragraph at lines 29174--29178 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 29174--29178 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 29179--29188 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [447] [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] Underfull \hbox (badness 2726) in paragraph at lines 30193--30196 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] [481] Underfull \vbox (badness 3803) has occurred while \output is active [482] [483] [484] [485] [486] [487] [488] [489] [490] Underfull \hbox (badness 1533) in paragraph at lines 32001--32004 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [491] [492] [493] Underfull \hbox (badness 1163) in paragraph at lines 32172--32183 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [494] [495] [496] [497] [498] [499] [500] Underfull \vbox (badness 3803) has occurred while \output is active [501] [502] Underfull \hbox (badness 6300) in paragraph at lines 32718--32720 []\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr it-ing R Ex-ten-sions' man-ual: [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 10000) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 33862--33864 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 33865--33869 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [520] [521] Underfull \vbox (badness 10000) has occurred while \output is active [522] [523] [524] [525] [526] [527] [528] [529] Underfull \hbox (badness 1655) in paragraph at lines 34467--34469 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] Underfull \hbox (badness 2261) in paragraph at lines 35670--35675 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] Underfull \hbox (badness 3668) in paragraph at lines 36705--36709 []\T1/zi4/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use with [565] Underfull \hbox (badness 10000) in paragraph at lines 36796--36807 \T1/zi4/m/n/10 / / learn . microsoft . com / en-[]us / cpp / c-[]language / par sing-[]c-[]command-[]line-[]arguments ? [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] [584] [585] [586] [587] [588] [589] [590] Underfull \hbox (badness 10000) in paragraph at lines 38428--38430 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 2913) in paragraph at lines 38846--38850 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [598] [599] [600] Underfull \hbox (badness 1072) in paragraph at lines 39092--39096 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by [601] Underfull \hbox (badness 10000) in paragraph at lines 39097--39101 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 39152--39159 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [602] [603] [604] [605] Underfull \hbox (badness 2644) in paragraph at lines 39387--39391 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626] [627] [628] [629] Underfull \hbox (badness 1158) in paragraph at lines 40915--40917 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [630] [631] [632] [633] [634] [635] [636] [637] [638] [639] Underfull \hbox (badness 1137) in paragraph at lines 41515--41521 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails Underfull \hbox (badness 4967) in paragraph at lines 41533--41538 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [640] [641] Underfull \hbox (badness 1616) in paragraph at lines 41653--41658 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [642] [643] [644] [645] Underfull \vbox (badness 3803) has occurred while \output is active [646] [647] [648] [649] [650] Underfull \hbox (badness 1472) in paragraph at lines 42199--42202 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [651] [652] [653] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 42411. [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 10000) in paragraph at lines 43150--43154 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/sl/10 bin []\T1/ptm/m/n/10 ca n have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4 /m/sl/10 length(bin) > [666] [667] [668] [669] [670] Underfull \hbox (badness 10000) in paragraph at lines 43509--43512 [][][]\T1/zi4/m/sl/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [][]$https : / / developer . r-[]project . org / [671] [672] [673] Underfull \hbox (badness 10000) in paragraph at lines 43693--43697 [][][]\T1/zi4/m/sl/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 taskCallb ackManager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/sl/10 https : / / developer . [674] [675] [676] [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 10000) in paragraph at lines 44341--44344 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Time _ zone$[] [] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/sl/10 https : / / data . iana . org / time -[]zones / [684] [685] [686] [687] [688] [689] Underfull \vbox (badness 10000) has occurred while \output is active [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 1990) in paragraph at lines 45257--45265 []\T1/zi4/m/sl/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps an y er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 45257--45265 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/sl/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] Underfull \hbox (badness 1014) in paragraph at lines 46694--46697 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [720] [721] Underfull \hbox (badness 2401) in paragraph at lines 46827--46831 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/sl/10 options[][][](" warn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [722] [723] Underfull \hbox (badness 3492) in paragraph at lines 46953--46955 []\T1/zi4/m/sl/10 weekdays []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 months []\T1/ ptm/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [724] [725] Underfull \hbox (badness 2111) in paragraph at lines 47039--47044 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/sl/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [726] [727] [728] Underfull \hbox (badness 4001) in paragraph at lines 47287--47289 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/sl/10 https : / / developer . [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 5417) in paragraph at lines 47688--47692 []\T1/zi4/m/sl/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-re ntly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [736] Underfull \hbox (badness 10000) in paragraph at lines 47749--47753 []\T1/zi4/m/sl/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-d ard' reg-exps, in-clud-ing el-e-ments named [737]) (./compiler-pkg.tex [738] Chapter 2. [739] [740] [741] [742]) (./datasets-pkg.tex Chapter 3. [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] Underfull \hbox (badness 1097) in paragraph at lines 1034--1038 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] Overfull \hbox (2.27475pt too wide) in paragraph at lines 3524--3524 []\T1/zi4/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [802] [803] [804] [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] [825]) (./grDevices-pkg.tex [826] Chapter 4. [827] [828] [829] [830] [831] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/sl/10 c(mi, ma, n.)[] \T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 297--302 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/sl/10 axisTicks[][][]() []\T1 /ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/sl/10 CreateAtVector() []\T1 /ptm/m/n/10 in [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 1424) in paragraph at lines 899--901 [][][]\T1/zi4/m/sl/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) a nd []\T1/zi4/m/sl/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also b e spec-i-fied as [841] [842] [843] [844] [845] [846] Underfull \hbox (badness 5175) in paragraph at lines 1227--1229 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [847] [848] Underfull \hbox (badness 2512) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/sl/10 https : / / web . ar chive . org / web / 20190613001950 / http : / / efg2 . com / [849] [850] [851] [852] [853] Underfull \hbox (badness 1490) in paragraph at lines 1646--1651 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/sl/10 rasterImage[][][] []\T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues [] \T1/zi4/m/sl/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1659--1663 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [854] [855] [856] [857] [858] [859] Underfull \hbox (badness 1325) in paragraph at lines 2074--2084 []\T1/zi4/m/sl/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "pngmono"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "png alpha"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/ m/sl/10 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp32b"[]\T1/ptm /m/n/10 , [860] [861] Underfull \hbox (badness 10000) in paragraph at lines 2186--2188 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [862] [863] [864] Underfull \hbox (badness 6758) in paragraph at lines 2374--2377 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \hbox (badness 10000) in paragraph at lines 3130--3131 [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] Underfull \vbox (badness 3803) has occurred while \output is active [889] [890] [891] [892] Underfull \vbox (badness 10000) has occurred while \output is active [893] [894] [895] [896] Underfull \hbox (badness 1418) in paragraph at lines 4407--4414 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "H elvetica-Narrow"[]\T1/ptm/m/n/10 , [897] [898] [899] [900] [901] [902] [903] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4872 \aliasA{symbol}{plotmath}{symbol} [904] [905] [906] [907] Underfull \vbox (badness 3803) has occurred while \output is active [908] [909] Underfull \hbox (badness 1584) in paragraph at lines 5265--5267 []\T1/ptm/m/n/10 For type []\T1/zi4/m/sl/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1 /zi4/m/sl/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 5269--5276 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [910] [911] [912] [913] Underfull \hbox (badness 1377) in paragraph at lines 5571--5576 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [914] [915] Underfull \hbox (badness 1377) in paragraph at lines 5675--5680 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/sl/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [916] Underfull \hbox (badness 7344) in paragraph at lines 5744--5746 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [917] [918] Underfull \hbox (badness 2035) in paragraph at lines 5883--5892 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 \T1/ptm/m/n/10 vided: []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Helveti ca-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 []\T1/zi4/m/sl/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "P alatino" []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 "Times"[]\T1/ptm/m/n/10 ; []\T1 /zi4/m/sl/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "URWBookman"[]\T1/ ptm/m/n/10 , [919] Underfull \hbox (badness 10000) in paragraph at lines 5950--5955 []\T1/zi4/m/sl/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/ zi4/m/sl/10 https : / / ftp . gnu . org / pub / non-[]gnu / [920] [921] [922] Underfull \hbox (badness 1546) in paragraph at lines 6090--6098 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/sl/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 title[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 encoding[]\T1/ptm/m/n /10 , []\T1/zi4/m/sl/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 fg[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 width[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928] Underfull \hbox (badness 6625) in paragraph at lines 6534--6537 []\T1/ptm/m/n/10 Murrell, P., Ooms, J., Al-laire, J.J. (2015), "Record-ing and Re-play-ing the Graph- [929] [930] Underfull \hbox (badness 10000) in paragraph at lines 6638--6641 []\T1/zi4/m/sl/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space ( red/green/blue) into HSV space [931] [932] [933] [934] Overfull \hbox (9.73488pt too wide) in paragraph at lines 6875--6875 []\T1/zi4/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 continuous=TRUE\TS1/zi4/m/n/9 '\T1/ zi4/m/n/9 ):[] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Underfull \hbox (badness 1189) in paragraph at lines 7503--7505 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [945] Underfull \hbox (badness 10000) in paragraph at lines 7608--7610 []\T1/zi4/m/sl/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for C JK lan-guages and [946] [947] [948] [949] [950] Underfull \hbox (badness 3780) in paragraph at lines 7923--7929 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/s l/10 "AvantGarde"[]\T1/ptm/m/n/10 , [951] [952] [953] [954] [955] [956]) (./graphics-pkg.tex Chapter 5. [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \vbox (badness 3803) has occurred while \output is active [968] [969] [970] [971] [972] [973] Overfull \hbox (12.71341pt too wide) in paragraph at lines 1037--1037 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [974] [975] [976] [977] [978] [979] Underfull \hbox (badness 4634) in paragraph at lines 1410--1413 [][][]\T1/zi4/m/sl/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready wor ks nowa-days with data.frames; [][][]\T1/zi4/m/sl/10 boxplot.formula[][][][]\T1 /ptm/m/n/10 , [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 1728) in paragraph at lines 2388--2390 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/sl/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [997] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] Underfull \vbox (badness 10000) has occurred while \output is active [1021] Underfull \vbox (badness 10000) has occurred while \output is active [1022] [1023] [1024] [1025] [1026] [1027] Underfull \vbox (badness 3803) has occurred while \output is active [1028] [1029] [1030] [1031] [1032] [1033] [1034] Underfull \hbox (badness 3229) in paragraph at lines 4733--4738 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1035] [1036] [1037] [1038] [1039] Underfull \hbox (badness 1107) in paragraph at lines 5233--5239 []\T1/ptm/m/n/10 is []\T1/zi4/m/sl/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sc aled to user co-or-di-nates. Note that []\T1/zi4/m/sl/10 c([][]strwidth[][][](c h), [1040] [1041] Underfull \hbox (badness 10000) in paragraph at lines 5362--5365 [1042 ] Underfull \hbox (badness 10000) in paragraph at lines 5423--5425 [1043 ] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6097 \aliasA{plot}{plot.default}{plot} [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6997--6998 [][] [1068 ] [1069] Underfull \vbox (badness 3803) has occurred while \output is active [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 4954) in paragraph at lines 9109--9111 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /sl/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 9111--9113 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/sl/10 pa r(c("font.lab", "cex.lab", [1103] [1104] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} [1105] [1106] [1107] [1108]) (./grid-pkg.tex Chapter 6. [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] Underfull \hbox (badness 2680) in paragraph at lines 551--554 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/sl/10 preDrawDetails []\T1/ptm/m/n/10 an d []\T1/zi4/m/sl/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal -cu-la-tion of [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] Underfull \hbox (badness 4279) in paragraph at lines 1188--1197 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/sl/10 pushViewport[][][][]\T1/ ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T 1/zi4/m/sl/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 seekVi ewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 upViewport[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/sl/10 unit[][][][]\T1/ptm/m/n/10 , [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] Underfull \hbox (badness 10000) in paragraph at lines 3103--3105 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] Underfull \vbox (badness 10000) has occurred while \output is active [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 1067) in paragraph at lines 4842--4845 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1191] [1192] [1193] [1194] [1195] [1196] Underfull \hbox (badness 7256) in paragraph at lines 5193--5195 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1197] [1198] [1199] [1200] [1201] [1202] [1203] Underfull \hbox (badness 2142) in paragraph at lines 5647--5651 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/sl/10 gridGTreeCoords []\T1/ptm/m/n/ 10 a list of ei-ther []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1204] [1205] Underfull \hbox (badness 4699) in paragraph at lines 5729--5734 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 o b-ject (a list of lists with com-po-nents []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 y[]\T1/ptm/m/n/10 ) or a [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237]) (./methods-pkg.tex [1238] Chapter 7. [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] Underfull \vbox (badness 10000) has occurred while \output is active [1247] Underfull \vbox (badness 10000) has occurred while \output is active [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] Underfull \hbox (badness 2237) in paragraph at lines 1384--1386 []\T1/ptm/m/n/10 The class []\T1/zi4/m/sl/10 "className" []\T1/ptm/m/n/10 ex-te nds []\T1/zi4/m/sl/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/s l/10 "package"[]\T1/ptm/m/n/10 , also of class [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] Underfull \hbox (badness 10000) in paragraph at lines 1980--1985 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/m/n /10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1980--1985 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/ m/n/10 it calls []\T1/zi4/m/sl/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1267] [1268] [1269] Underfull \hbox (badness 2213) in paragraph at lines 2212--2217 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/sl/10 where = [1270] [1271] [1272] [1273] [1274] Underfull \hbox (badness 10000) in paragraph at lines 2572--2575 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/sl/10 setGeneric[][][] [] \T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 cre-ate ob-jects of class [1275] [1276] Underfull \hbox (badness 1132) in paragraph at lines 2712--2716 []\T1/ptm/m/n/10 In []\T1/zi4/m/sl/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi 4/m/sl/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/sl/10 package []\T1/ptm/m/n/10 slot of the re-turned re-sult is in [1277] Underfull \hbox (badness 1033) in paragraph at lines 2744--2749 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/sl/10 removeGeneric []\T1/ptm/m/n/10 re-moves the func-tion it-self; []\T1/zi4/m/sl/10 removeMethods []\T1/ptm/m/n/1 0 re-stores the [1278] [1279] [1280] [1281] [1282] [1283] [1284] Underfull \hbox (badness 1102) in paragraph at lines 3301--3303 []\T1/zi4/m/sl/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1285] [1286] [1287] [1288] [1289] Underfull \hbox (badness 10000) in paragraph at lines 3638--3647 []\T1/ptm/m/n/10 The [1290] [1291] Underfull \hbox (badness 10000) in paragraph at lines 3758--3759 [] \T1/zi4/m/sl/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longi tude = "numeric", [1292] Underfull \hbox (badness 10000) in paragraph at lines 3842--3843 []\T1/zi4/m/sl/10 Currency <- setClass("Currency", slots = c(unit = "character" ), contains = [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] Underfull \hbox (badness 1769) in paragraph at lines 4473--4479 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/sl/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4473--4479 []\T1/zi4/m/sl/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [ ][][]\T1/zi4/m/sl/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion u sed by [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] Underfull \vbox (badness 10000) has occurred while \output is active [1313] [1314] [1315] Underfull \hbox (badness 4036) in paragraph at lines 5438--5441 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/sl/10 "PossibleMethod" []\T1/ptm/m /n/10 the method to use in re-sponse to a [1316] [1317] Underfull \hbox (badness 3803) in paragraph at lines 5513--5515 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1318] [1319] [1320] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/sl/10 externalRe fMethod(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1330] [1331] [1332] [1333] Underfull \vbox (badness 10000) has occurred while \output is active [1334] [1335] [1336] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6972 \aliasA{S4}{S3Part}{S4} [1337] [1338] [1339] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7228 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7230 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7231 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7233 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7234 \aliasA{Summary}{S4groupGeneric}{Summary} [1340] Underfull \hbox (badness 2050) in paragraph at lines 7295--7299 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1341] [1342] [1343] Underfull \hbox (badness 1286) in paragraph at lines 7483--7485 []\T1/ptm/m/n/10 for []\T1/zi4/m/sl/10 .selectSuperClasses() []\T1/ptm/m/n/10 o nly, a [][][]\T1/zi4/m/sl/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cally [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] Underfull \vbox (badness 10000) has occurred while \output is active [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] Underfull \hbox (badness 1158) in paragraph at lines 10490--10493 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/zi4/m/sl/10 https : / / johnmchambers . su . domains / [1385] Underfull \hbox (badness 1852) in paragraph at lines 10568--10572 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1386] [1387] [1388] [1389]) (./parallel-pkg.tex [1390] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/sl/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [] []RNG[][][]: see [1391] [1392] [1393] [1394] [1395] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1396] [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 3386) in paragraph at lines 1400--1403 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/sl/10 .Random.seed []\T1/ptm/m/n/10 when the [1413] [1414]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/sl/10 \T1/ptm /m/n/10 and William N. Ven-ables [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430]) (./stats-pkg.tex Chapter 10. [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] Underfull \hbox (badness 1412) in paragraph at lines 901--903 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/sl/10 lm []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 aov[]\T1/ptm/m/n/10 , or a for-mula fo r [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] Underfull \hbox (badness 2503) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2503) in paragraph at lines 3557--3560 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1487] [1488] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3670. [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 3989) in paragraph at lines 4816--4823 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 2556) in paragraph at lines 5470--5473 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/sl/10 "circular"[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "filter"[]\T1/ptm/m/n/10 . For [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \hbox (badness 2503) in paragraph at lines 5882--5886 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 7081) in paragraph at lines 6674--6677 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/sl/10 "hclust" []\T1/ptm/m/n/10 c an be con-verted to class []\T1/zi4/m/sl/10 "dendrogram" []\T1/ptm/m/n/10 us-in g method Underfull \hbox (badness 10000) in paragraph at lines 6678--6680 []\T1/zi4/m/sl/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro- gram []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1537] [1538] [1539] [1540] [1541] [1542] Underfull \vbox (badness 10000) has occurred while \output is active [1543] [1544] [1545] Underfull \vbox (badness 10000) has occurred while \output is active [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 10000) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/sl/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1551] [1552] [1553] [1554] [1555] [1556] Underfull \vbox (badness 3803) has occurred while \output is active [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] Underfull \vbox (badness 3803) has occurred while \output is active [1573] [1574] [1575] [1576] [1577] [1578] Underfull \hbox (badness 2626) in paragraph at lines 9271--9274 []\T1/ptm/m/n/10 Either []\T1/zi4/m/sl/10 "convolution" []\T1/ptm/m/n/10 or []\ T1/zi4/m/sl/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1579] Underfull \hbox (badness 2503) in paragraph at lines 9378--9382 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 4518) in paragraph at lines 10733--10738 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2142) in paragraph at lines 11095--11098 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1606] Underfull \hbox (badness 1253) in paragraph at lines 11114--11117 []\T1/ptm/m/n/10 When []\T1/zi4/m/sl/10 trace []\T1/ptm/m/n/10 is true, calls t o [][][]\T1/zi4/m/sl/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for eac h IWLS it-er-a-tion. Hence, [1607] Underfull \hbox (badness 1708) in paragraph at lines 11176--11180 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1694) in paragraph at lines 11572--11575 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12053 \aliasA{hat}{influence.measures}{hat} [1622] [1623] Underfull \hbox (badness 1484) in paragraph at lines 12198--12200 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/sl/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1624] Underfull \vbox (badness 3803) has occurred while \output is active [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] Underfull \hbox (badness 10000) in paragraph at lines 12785--12787 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/sl/10 solve.d efault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/sl/10 SSinit = [1634] [1635] [1636] [1637] [1638] Underfull \hbox (badness 2894) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1639] [1640] [1641] [1642] [1643] [1644] [1645] Underfull \hbox (badness 1496) in paragraph at lines 13555--13561 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1646] [1647] [1648] [1649] [1650] [1651] Underfull \hbox (badness 4518) in paragraph at lines 13958--13963 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] Underfull \hbox (badness 4518) in paragraph at lines 14620--14625 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1662] [1663] [1664] Underfull \hbox (badness 6412) in paragraph at lines 14760--14764 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/sl/10 (surface = "int erpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14767--14769 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/sl/10 family []\T1/ptm/m/n/10 is [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] Underfull \hbox (badness 2503) in paragraph at lines 15843--15847 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] Underfull \hbox (badness 10000) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 model. response(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/sl/10 model.offset []\ T1/ptm/m/n/10 sums any terms [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] [1716] [1717] Underfull \hbox (badness 1158) in paragraph at lines 18014--18017 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/sl/10 nls []\T 1/ptm/m/n/10 as the data ar-gu-ment. The ac- [1718] [1719] Underfull \vbox (badness 10000) has occurred while \output is active [1720] Underfull \vbox (badness 10000) has occurred while \output is active [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 1377) in paragraph at lines 19057--19062 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 19062--19065 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 19075--19079 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 19075--19079 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/sl/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 19083--19087 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/sl/10 "BFGS"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 "SANN" []\T1/ptm/m/n/10 meth-ods if [1735] [1736] [1737] Underfull \vbox (badness 10000) has occurred while \output is active [1738] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19308--19308 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19311--19311 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \hbox (badness 1337) in paragraph at lines 19773--19776 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] Underfull \hbox (badness 10000) in paragraph at lines 20242--20248 \T1/zi4/m/sl/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 s distance", lty = cook.lty, col = cook.col, text.col [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 1194) in paragraph at lines 20669--20672 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1762] [1763] [1764] [1765] [1766] [1767] Underfull \hbox (badness 2503) in paragraph at lines 21047--21050 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 21074--21076 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/sl/10 "Exact Poisson test" []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 "Comparison of Poisson [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 10000) in paragraph at lines 22152--22158 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/sl/10 predict.ar [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 predict.Arima[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/sl/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 1337) in paragraph at lines 23628--23634 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] Underfull \hbox (badness 1436) in paragraph at lines 24118--24121 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/sl/10 max(2, [1819] Underfull \hbox (badness 10000) in paragraph at lines 24256--24257 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . o rg / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] Underfull \hbox (badness 1824) in paragraph at lines 25226--25232 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 25226--25232 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1836] Underfull \hbox (badness 10000) in paragraph at lines 25247--25250 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/sl/10 y = runmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/sl/10 y[j] = [1837] [1838] [1839] [1840] [1841] [1842] [1843] [1844] [1845] Underfull \hbox (badness 2165) in paragraph at lines 25822--25827 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/sl/10 "selfStart" []\T 1/ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/sl/10 SSasymp[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1846] [1847] [1848] [1849] Underfull \hbox (badness 1867) in paragraph at lines 26032--26034 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 26048--26052 []\T1/ptm/m/n/10 where []\T1/zi4/m/sl/10 NN <- [][]nobs[][][](object, use.fallb ack = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 PP <- [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \vbox (badness 10000) has occurred while \output is active [1875] [1876] Underfull \hbox (badness 3514) in paragraph at lines 27700--27705 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1877] [1878] [1879] [1880] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27934--27934 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27970--27976 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1881] Overfull \hbox (14.22568pt too wide) in paragraph at lines 28030--28030 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1882] [1883] [1884] [1885] Underfull \hbox (badness 3514) in paragraph at lines 28203--28208 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1886] Underfull \hbox (badness 3514) in paragraph at lines 28290--28295 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1887] Underfull \hbox (badness 3514) in paragraph at lines 28355--28360 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1888] [1889] Underfull \hbox (badness 3514) in paragraph at lines 28449--28454 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1890] [1891] Underfull \hbox (badness 6691) in paragraph at lines 28541--28546 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 x[] \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 4024) in paragraph at lines 29028--29031 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] [1908] [1909] Underfull \hbox (badness 5431) in paragraph at lines 29631--29633 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1910] [1911] [1912] Underfull \hbox (badness 5431) in paragraph at lines 29841--29844 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1913] [1914] [1915] [1916] [1917] [1918] Underfull \hbox (badness 1337) in paragraph at lines 30156--30160 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1919] [1920] Underfull \hbox (badness 1127) in paragraph at lines 30293--30296 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for []\T1/zi4/m/sl/10 rt()[]\T1/ptm/m/n/10 , ac-cu-rate only for [1921] [1922] [1923] Underfull \hbox (badness 1616) in paragraph at lines 30499--30502 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944] Underfull \hbox (badness 3557) in paragraph at lines 31726--31730 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/sl/10 extendInt []\T1/ptm/m/n/10 to a non- []\T1/zi4/m/sl/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-re ct []\T1/zi4/m/sl/10 interval = [1945] [1946] [1947] Underfull \vbox (badness 10000) has occurred while \output is active [1948] [1949] [1950] Underfull \hbox (badness 1337) in paragraph at lines 32093--32097 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] Underfull \hbox (badness 1337) in paragraph at lines 32621--32625 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1960] [1961] [1962] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32829--32829 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1963] [1964] [1965] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32990--32990 [] \T1/zi4/m/sl/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.ep s = getOption("ts.eps"), ...)[] [1966] [1967] [1968] [1969] [1970]) (./stats4-pkg.tex Chapter 11. [1971] [1972] [1973] Underfull \vbox (badness 10000) has occurred while \output is active [1974] Underfull \vbox (badness 10000) has occurred while \output is active [1975] [1976] [1977] [1978] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1979] [1980] [1981]) (./tcltk-pkg.tex [1982] Chapter 12. [1983] [1984] [1985] [1986] [1987] [1988] [1989] Underfull \vbox (badness 10000) has occurred while \output is active [1990] Underfull \vbox (badness 10000) has occurred while \output is active [1991] Underfull \hbox (badness 1546) in paragraph at lines 672--679 []\T1/zi4/m/sl/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call- ing any Tk or Tcl com-mand by sim-ply run-ning [1992] [1993] [1994] [1995] [1996] Underfull \vbox (badness 10000) has occurred while \output is active [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004]) (./tools-pkg.tex Chapter 13. [2005] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [2006] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/sl/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing wil l be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [2007] [2008] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/sl/10 b ibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 format InProceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatManual[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatPhdthesi s[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 formatTechreport []\T1/ptm/m/n/10 and [2009] [2010] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gi ne to use. Over-rides any [2011] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [2012] [2013] [2014] [2015] [2016] [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] Underfull \hbox (badness 1014) in paragraph at lines 1220--1222 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1226--1228 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [2025] Underfull \hbox (badness 10000) in paragraph at lines 1263--1266 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1263--1266 []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [2026] [2027] [2028] [2029] [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 1637--1640 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/sl/10 CRAN_aliases_db[]\T1/ptm /m/n/10 , []\T1/zi4/m/sl/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 CRAN_current_db []\T1/ptm/m/n/10 and [2032] [2033] Underfull \hbox (badness 4096) in paragraph at lines 1756--1764 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1766--1768 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 for all known trees (see [2034] [2035] [2036] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1967 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.1968 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2037] [2038] [2039] [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 3386) in paragraph at lines 2442--2445 []\T1/ptm/m/n/10 The de-fault method of []\T1/zi4/m/sl/10 as.Rconcordance []\T1 /ptm/m/n/10 searches for strings match-ing the pat-tern of [2045] [2046] Underfull \hbox (badness 4096) in paragraph at lines 2582--2590 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1424) in paragraph at lines 3516--3518 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] [2072] Underfull \hbox (badness 10000) in paragraph at lines 4232--4234 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 4388--4391 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/sl/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/sl/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2076] [2077] [2078] [2079] [2080] Underfull \hbox (badness 1796) in paragraph at lines 4745--4750 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/sl/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/sl/10 type = = [2081] [2082] Underfull \hbox (badness 1838) in paragraph at lines 4831--4837 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4831--4837 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2083] [2084] [2085] [2086] Underfull \hbox (badness 2197) in paragraph at lines 5112--5122 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/sl/10 available.packages[][][][]\T1/ptm/m/n/10 : [2087] Underfull \hbox (badness 1571) in paragraph at lines 5178--5182 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2088] [2089] [2090] [2091]) (./utils-pkg.tex [2092] Chapter 14. [2093] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/sl/10 insertions[]\T1/ptm/m/n/10 ', [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] Underfull \hbox (badness 10000) in paragraph at lines 728--734 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/sl/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/sl/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 728--734 []\T1/zi4/m/sl/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2104] [2105] [2106] Underfull \hbox (badness 3861) in paragraph at lines 934--939 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/sl/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 1139--1141 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2110] [2111] [2112] Underfull \vbox (badness 10000) has occurred while \output is active [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1371) in paragraph at lines 1666--1668 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 2057) in paragraph at lines 2386--2388 []\T1/ptm/m/n/10 None for []\T1/zi4/m/sl/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2130] Underfull \hbox (badness 2150) in paragraph at lines 2461--2468 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/zi4/m/sl/10 citation() []\T1 /ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2461--2468 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2131] [2132] [2133] Underfull \vbox (badness 3803) has occurred while \output is active [2134] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2738 ... the Clipboard in MS Windows}{clipboard} [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] Underfull \hbox (badness 6842) in paragraph at lines 4048--4053 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/sl/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2156] Underfull \hbox (badness 1430) in paragraph at lines 4111--4115 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/sl/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2157] Underfull \hbox (badness 1184) in paragraph at lines 4182--4198 []\T1/ptm/m/n/10 On Win-dows with []\T1/zi4/m/sl/10 method = "libcurl"[]\T1/ptm /m/n/10 , the CA root cer-tifi-cates are pro-vided by the OS Underfull \hbox (badness 1019) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 con-tain-ing `[]\T1/zi4/m/sl/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-ment vari- Underfull \hbox (badness 1668) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 able []\T1/zi4/m/sl/10 CURL_CA_BUNDLE []\T1/ptm/m/n/10 must be s et to a path to a cer-tifi-cate bun-dle file, usu-ally named [2158] [2159] Underfull \hbox (badness 10000) in paragraph at lines 4332--4334 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/sl/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2160] [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] Underfull \hbox (badness 1622) in paragraph at lines 5634--5638 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2181] [2182] [2183] [2184] [2185] [2186] Underfull \hbox (badness 1448) in paragraph at lines 6019--6024 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] Underfull \hbox (badness 1371) in paragraph at lines 6567--6569 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2195] [2196] Underfull \hbox (badness 1502) in paragraph at lines 6656--6662 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6656--6662 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2197] [2198] Underfull \hbox (badness 10000) in paragraph at lines 6833--6842 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 3354) in paragraph at lines 6833--6842 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R_DOC_DIR\T1/zi4/m/sl/10 /html/packages.html\T1 /ptm/m/n/10 ', which can be re-made by [][][]\T1/zi4/m/sl/10 make.packages.html [][][]()[]\T1/ptm/m/n/10 . [2199] Underfull \hbox (badness 2150) in paragraph at lines 6895--6898 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2200] [2201] Underfull \hbox (badness 3118) in paragraph at lines 7034--7036 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2202] [2203] [2204] Underfull \hbox (badness 1325) in paragraph at lines 7213--7217 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/sl/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2205] Underfull \hbox (badness 1424) in paragraph at lines 7305--7308 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2206] Underfull \hbox (badness 3219) in paragraph at lines 7377--7384 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/s l/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7377--7384 [][][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7385--7388 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/sl/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2207] [2208] Underfull \hbox (badness 1024) in paragraph at lines 7514--7517 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/sl/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 , ] []\T1/ ptm/m/n/10 will Underfull \hbox (badness 10000) in paragraph at lines 7547--7552 [][][]\T1/zi4/m/sl/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2209] Underfull \hbox (badness 5133) in paragraph at lines 7606--7610 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 10000) in paragraph at lines 8270--8272 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/sl/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2221] [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Underfull \hbox (badness 2310) in paragraph at lines 9057--9062 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2234] [2235] [2236] [2237] [2238] [2239] [2240] [2241] [2242] Underfull \hbox (badness 1248) in paragraph at lines 9628--9632 []\T1/zi4/m/sl/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2243] Underfull \hbox (badness 1789) in paragraph at lines 9706--9708 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2244] [2245] [2246] [2247] Underfull \hbox (badness 2600) in paragraph at lines 9930--9933 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic; de-faults to [2248] [2249] [2250] [2251] [2252] [2253] [2254] [2255] [2256] Underfull \hbox (badness 1097) in paragraph at lines 10567--10570 []\T1/ptm/m/n/10 The name []\T1/zi4/m/sl/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2257] [2258] Underfull \hbox (badness 3000) in paragraph at lines 10703--10708 [][][]\T1/zi4/m/sl/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ sl/10 read.table[][][][]\T1/ptm/m/n/10 ; [2259] [2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] Underfull \hbox (badness 2134) in paragraph at lines 11298--11303 [][][]\T1/zi4/m/sl/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ sl/10 write.table[][][][]\T1/ptm/m/n/10 ; [2268] Underfull \hbox (badness 10000) in paragraph at lines 11354--11359 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11354--11359 []\T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2269] [2270] [2271] [2272] [2273] [2274] [2275] [2276] Underfull \hbox (badness 1824) in paragraph at lines 11852--11856 \T1/zi4/m/sl/10 / / en . wikipedia . org / w / index . php ? title = Roman _ nu merals & oldid = 1188781837$[][]\T1/ptm/m/n/10 . Ac-cessed [2277] [2278] [2279] [2280] [2281] [2282] [2283] Underfull \hbox (badness 4060) in paragraph at lines 12297--12300 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/sl/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/sl/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12320--12320 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2284] [2285] [2286] [2287] Underfull \hbox (badness 2150) in paragraph at lines 12575--12577 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2288] [2289] [2290] [2291] Underfull \hbox (badness 10000) in paragraph at lines 12795--12799 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/sl/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12828--12834 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2292] Underfull \hbox (badness 2762) in paragraph at lines 12843--12849 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2293] [2294] Underfull \hbox (badness 1009) in paragraph at lines 13018--13030 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 13058--13060 []\T1/ptm/m/n/10 The file `\T1/zi4/m/sl/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/sl/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2295] Underfull \hbox (badness 1077) in paragraph at lines 13088--13095 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2296] [2297] [2298] [2299] [2300] [2301] Underfull \hbox (badness 3780) in paragraph at lines 13513--13519 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/sl/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via [2302] Underfull \hbox (badness 2635) in paragraph at lines 13531--13534 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/sl/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2303] [2304] [2305] Underfull \hbox (badness 2302) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 Convert file paths to the short form. 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 149--157 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 149--157 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 337--340 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 572--578 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13{/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [24] [25] [26] [27] [28] [29] [30] Underfull \vbox (badness 3803) has occurred while \output is active [31] [32] [33] [34] [35] [36] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2261--2261 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] Underfull \hbox (badness 1721) in paragraph at lines 2926--2930 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [47] [48] [49] [50] [51] [52] [53] Underfull \hbox (badness 2538) in paragraph at lines 3404--3407 []\T1/zi4/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[] [][] ver-sion of []\T1/zi4/m/n/10 balancePOSIXlt(x, fill.only=TRUE, [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Underfull \hbox (badness 10000) in paragraph at lines 4200--4202 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] Underfull \hbox (badness 2521) in paragraph at lines 5551--5553 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6834--6834 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] Underfull \hbox (badness 1303) in paragraph at lines 7730--7737 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [120] Underfull \hbox (badness 2261) in paragraph at lines 7741--7746 \T1/zi4/m/n/10 / / github . com / astrand / xclip$[][]\T1/ptm/m/n/10 ) or []\T1 /zi4/m/n/10 xsel []\T1/ptm/m/n/10 ([][]$\T1/zi4/m/n/10 https : / / www . vergen et . net / ~conrad / software / [121] [122] Underfull \vbox (badness 10000) has occurred while \output is active [123] [124] [125] [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 2096) in paragraph at lines 8474--8478 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [132] [133] Underfull \hbox (badness 2351) in paragraph at lines 8589--8592 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [134] [135] [136] [137] [138] Underfull \hbox (badness 4479) in paragraph at lines 8906--8917 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [139] [140] [141] [142] [143] [144] Underfull \hbox (badness 1629) in paragraph at lines 9327--9339 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 9327--9339 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] Underfull \hbox (badness 1178) in paragraph at lines 10193--10197 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] Underfull \hbox (badness 2744) in paragraph at lines 12533--12535 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [194] [195] [196] [197] [198] [199] [200] [201] Underfull \vbox (badness 10000) has occurred while \output is active [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223] [224] [225] [226] Underfull \hbox (badness 2253) in paragraph at lines 14737--14739 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 14772--14775 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [227] Underfull \hbox (badness 1565) in paragraph at lines 14854--14858 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and [228] Underfull \hbox (badness 4927) in paragraph at lines 14905--14907 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [229] [230] [231] Underfull \hbox (badness 1466) in paragraph at lines 15056--15059 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [232] Underfull \hbox (badness 10000) in paragraph at lines 15187--15191 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15198--15201 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [233] [234] [235] [236] [237] Underfull \hbox (badness 3965) in paragraph at lines 15493--15497 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [238] [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 5260) in paragraph at lines 15995--15995 []\T1/zi4/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/zi4/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 decimal.mark[]\T1/ptm/m/n/10 , [246] [247] [248] [249] Underfull \hbox (badness 4429) in paragraph at lines 16285--16288 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [250] [251] Underfull \hbox (badness 10000) in paragraph at lines 16392--16394 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [252] Underfull \hbox (badness 2035) in paragraph at lines 16465--16469 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [253] Underfull \vbox (badness 10000) has occurred while \output is active [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 2452) in paragraph at lines 17088--17092 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 17088--17092 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [263] [264] [265] Underfull \hbox (badness 1092) in paragraph at lines 17262--17267 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [266] [267] [268] Underfull \hbox (badness 6741) in paragraph at lines 17515--17519 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \vbox (badness 3803) has occurred while \output is active [280] Underfull \vbox (badness 10000) has occurred while \output is active [281] [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1769) in paragraph at lines 18988--18991 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19297--19299 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 19303--19312 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] Underfull \hbox (badness 1442) in paragraph at lines 19911--19913 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [306] Underfull \hbox (badness 2452) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/zi4/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.vector[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 5726) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.call[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.en vironment[][][] [][]is.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.ma trix[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.na[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 anyNA[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.nan [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.finite[][][] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1248) in paragraph at lines 20405--20408 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [313] [314] [315] [316] [317] Underfull \hbox (badness 4739) in paragraph at lines 20672--20674 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] Underfull \hbox (badness 2469) in paragraph at lines 21830--21835 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [337] Underfull \hbox (badness 1675) in paragraph at lines 21917--21926 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21927--21940 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the [338] Underfull \hbox (badness 10000) in paragraph at lines 21975--21978 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21975--21978 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [339] [340] Underfull \hbox (badness 1014) in paragraph at lines 22109--22114 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 1264) in paragraph at lines 22956--22964 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 22991--22994 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] Underfull \hbox (badness 5231) in paragraph at lines 23809--23811 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [367] [368] [369] [370] [371] [372] [373] [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] Underfull \hbox (badness 6380) in paragraph at lines 24919--24925 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Data _ compress ion$[][] \T1/ptm/m/n/10 for back-ground on data com-pres- Underfull \hbox (badness 1472) in paragraph at lines 24919--24925 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / XZ _ Utils$[][] [384] [385] [386] [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 2790) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [393] [394] [395] [396] [397] Underfull \hbox (badness 1194) in paragraph at lines 25760--25763 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [398] [399] [400] Underfull \hbox (badness 2368) in paragraph at lines 25967--25973 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [401] [402] [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26357--26360 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 26985--26987 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 2443) in paragraph at lines 27476--27484 \T1/ptm/m/n/10 suit-able char-ac-ter vec-tors as above, or nu-meric ver-sion ob -jects. For [424] [425] [426] [427] [428] [429] [430] Underfull \hbox (badness 1881) in paragraph at lines 27906--27909 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27931--27933 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [431] [432] Underfull \hbox (badness 2142) in paragraph at lines 28072--28076 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 28129--28134 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [433] [434] [435] [436] Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 5878) in paragraph at lines 28438--28441 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/p tm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 28464--28466 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28510--28515 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [437] Underfull \hbox (badness 2529) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 28528--28531 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [438] [439] [440] [441] [442] Underfull \vbox (badness 10000) has occurred while \output is active [443] Underfull \hbox (badness 10000) in paragraph at lines 28946--28950 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [444] [445] Underfull \hbox (badness 10000) in paragraph at lines 29093--29096 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [446] Underfull \hbox (badness 7925) in paragraph at lines 29174--29178 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 29174--29178 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 29179--29188 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [447] [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] Underfull \hbox (badness 2726) in paragraph at lines 30193--30196 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] [481] Underfull \vbox (badness 3803) has occurred while \output is active [482] [483] [484] [485] [486] [487] [488] [489] [490] Underfull \hbox (badness 1533) in paragraph at lines 32001--32004 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [491] [492] [493] Underfull \hbox (badness 1163) in paragraph at lines 32172--32183 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [494] [495] [496] [497] [498] [499] [500] Underfull \vbox (badness 3803) has occurred while \output is active [501] [502] Underfull \hbox (badness 6300) in paragraph at lines 32718--32720 []\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr it-ing R Ex-ten-sions' man-ual: [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 10000) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 33862--33864 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 33865--33869 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [520] [521] Underfull \vbox (badness 10000) has occurred while \output is active [522] [523] [524] [525] [526] [527] [528] [529] Underfull \hbox (badness 1655) in paragraph at lines 34467--34469 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] Underfull \hbox (badness 2261) in paragraph at lines 35670--35675 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] Underfull \hbox (badness 3668) in paragraph at lines 36705--36709 []\T1/zi4/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use with [565] Underfull \hbox (badness 10000) in paragraph at lines 36796--36807 \T1/zi4/m/n/10 / / learn . microsoft . com / en-[]us / cpp / c-[]language / par sing-[]c-[]command-[]line-[]arguments ? [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] [584] [585] [586] [587] [588] [589] [590] Underfull \hbox (badness 10000) in paragraph at lines 38428--38430 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 2913) in paragraph at lines 38846--38850 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [598] [599] [600] Underfull \hbox (badness 1072) in paragraph at lines 39092--39096 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by [601] Underfull \hbox (badness 10000) in paragraph at lines 39097--39101 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 39152--39159 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [602] [603] [604] [605] Underfull \hbox (badness 2644) in paragraph at lines 39387--39391 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626] [627] [628] [629] Underfull \hbox (badness 1158) in paragraph at lines 40915--40917 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [630] [631] [632] [633] [634] [635] [636] [637] [638] [639] Underfull \hbox (badness 1137) in paragraph at lines 41515--41521 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails Underfull \hbox (badness 4967) in paragraph at lines 41533--41538 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [640] [641] Underfull \hbox (badness 1616) in paragraph at lines 41653--41658 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [642] [643] [644] [645] Underfull \vbox (badness 3803) has occurred while \output is active [646] [647] [648] [649] [650] Underfull \hbox (badness 1472) in paragraph at lines 42199--42202 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [651] [652] [653] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 42411. [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 10000) in paragraph at lines 43150--43154 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/sl/10 bin []\T1/ptm/m/n/10 ca n have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4 /m/sl/10 length(bin) > [666] [667] [668] [669] [670] Underfull \hbox (badness 10000) in paragraph at lines 43509--43512 [][][]\T1/zi4/m/sl/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [][]$https : / / developer . r-[]project . org / [671] [672] [673] Underfull \hbox (badness 10000) in paragraph at lines 43693--43697 [][][]\T1/zi4/m/sl/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 taskCallb ackManager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/sl/10 https : / / developer . [674] [675] [676] [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 10000) in paragraph at lines 44341--44344 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Time _ zone$[] [] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/sl/10 https : / / data . iana . org / time -[]zones / [684] [685] [686] [687] [688] [689] Underfull \vbox (badness 10000) has occurred while \output is active [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 1990) in paragraph at lines 45257--45265 []\T1/zi4/m/sl/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps an y er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 45257--45265 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/sl/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] Underfull \hbox (badness 1014) in paragraph at lines 46694--46697 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [720] [721] Underfull \hbox (badness 2401) in paragraph at lines 46827--46831 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/sl/10 options[][][](" warn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [722] [723] Underfull \hbox (badness 3492) in paragraph at lines 46953--46955 []\T1/zi4/m/sl/10 weekdays []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 months []\T1/ ptm/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [724] [725] Underfull \hbox (badness 2111) in paragraph at lines 47039--47044 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/sl/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [726] [727] [728] Underfull \hbox (badness 4001) in paragraph at lines 47287--47289 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/sl/10 https : / / developer . [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 5417) in paragraph at lines 47688--47692 []\T1/zi4/m/sl/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-re ntly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [736] Underfull \hbox (badness 10000) in paragraph at lines 47749--47753 []\T1/zi4/m/sl/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-d ard' reg-exps, in-clud-ing el-e-ments named [737]) (./compiler-pkg.tex [738] Chapter 2. [739] [740] [741] [742]) (./datasets-pkg.tex Chapter 3. [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] Underfull \hbox (badness 1097) in paragraph at lines 1034--1038 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] Overfull \hbox (2.27475pt too wide) in paragraph at lines 3524--3524 []\T1/zi4/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [802] [803] [804] [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] [825]) (./grDevices-pkg.tex [826] Chapter 4. [827] [828] [829] [830] [831] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/sl/10 c(mi, ma, n.)[] \T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 297--302 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/sl/10 axisTicks[][][]() []\T1 /ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/sl/10 CreateAtVector() []\T1 /ptm/m/n/10 in [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 1424) in paragraph at lines 899--901 [][][]\T1/zi4/m/sl/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) a nd []\T1/zi4/m/sl/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also b e spec-i-fied as [841] [842] [843] [844] [845] [846] Underfull \hbox (badness 5175) in paragraph at lines 1227--1229 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [847] [848] Underfull \hbox (badness 2512) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/sl/10 https : / / web . ar chive . org / web / 20190613001950 / http : / / efg2 . com / [849] [850] [851] [852] [853] Underfull \hbox (badness 1490) in paragraph at lines 1646--1651 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/sl/10 rasterImage[][][] []\T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues [] \T1/zi4/m/sl/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1659--1663 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [854] [855] [856] [857] [858] [859] Underfull \hbox (badness 1325) in paragraph at lines 2074--2084 []\T1/zi4/m/sl/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "pngmono"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "png alpha"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/ m/sl/10 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp32b"[]\T1/ptm /m/n/10 , [860] [861] Underfull \hbox (badness 10000) in paragraph at lines 2186--2188 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [862] [863] [864] Underfull \hbox (badness 6758) in paragraph at lines 2374--2377 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \hbox (badness 10000) in paragraph at lines 3130--3131 [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] Underfull \vbox (badness 3803) has occurred while \output is active [889] [890] [891] [892] Underfull \vbox (badness 10000) has occurred while \output is active [893] [894] [895] [896] Underfull \hbox (badness 1418) in paragraph at lines 4407--4414 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "H elvetica-Narrow"[]\T1/ptm/m/n/10 , [897] [898] [899] [900] [901] [902] [903] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4872 \aliasA{symbol}{plotmath}{symbol} [904] [905] [906] [907] Underfull \vbox (badness 3803) has occurred while \output is active [908] [909] Underfull \hbox (badness 1584) in paragraph at lines 5265--5267 []\T1/ptm/m/n/10 For type []\T1/zi4/m/sl/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1 /zi4/m/sl/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 5269--5276 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [910] [911] [912] [913] Underfull \hbox (badness 1377) in paragraph at lines 5571--5576 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [914] [915] Underfull \hbox (badness 1377) in paragraph at lines 5675--5680 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/sl/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [916] Underfull \hbox (badness 7344) in paragraph at lines 5744--5746 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [917] [918] Underfull \hbox (badness 2035) in paragraph at lines 5883--5892 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 \T1/ptm/m/n/10 vided: []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Helveti ca-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 []\T1/zi4/m/sl/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "P alatino" []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 "Times"[]\T1/ptm/m/n/10 ; []\T1 /zi4/m/sl/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "URWBookman"[]\T1/ ptm/m/n/10 , [919] Underfull \hbox (badness 10000) in paragraph at lines 5950--5955 []\T1/zi4/m/sl/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/ zi4/m/sl/10 https : / / ftp . gnu . org / pub / non-[]gnu / [920] [921] [922] Underfull \hbox (badness 1546) in paragraph at lines 6090--6098 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/sl/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 title[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 encoding[]\T1/ptm/m/n /10 , []\T1/zi4/m/sl/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 fg[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 width[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928] Underfull \hbox (badness 6625) in paragraph at lines 6534--6537 []\T1/ptm/m/n/10 Murrell, P., Ooms, J., Al-laire, J.J. (2015), "Record-ing and Re-play-ing the Graph- [929] [930] Underfull \hbox (badness 10000) in paragraph at lines 6638--6641 []\T1/zi4/m/sl/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space ( red/green/blue) into HSV space [931] [932] [933] [934] Overfull \hbox (9.73488pt too wide) in paragraph at lines 6875--6875 []\T1/zi4/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 continuous=TRUE\TS1/zi4/m/n/9 '\T1/ zi4/m/n/9 ):[] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Underfull \hbox (badness 1189) in paragraph at lines 7503--7505 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [945] Underfull \hbox (badness 10000) in paragraph at lines 7608--7610 []\T1/zi4/m/sl/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for C JK lan-guages and [946] [947] [948] [949] [950] Underfull \hbox (badness 3780) in paragraph at lines 7923--7929 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/s l/10 "AvantGarde"[]\T1/ptm/m/n/10 , [951] [952] [953] [954] [955] [956]) (./graphics-pkg.tex Chapter 5. [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \vbox (badness 3803) has occurred while \output is active [968] [969] [970] [971] [972] [973] Overfull \hbox (12.71341pt too wide) in paragraph at lines 1037--1037 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [974] [975] [976] [977] [978] [979] Underfull \hbox (badness 4634) in paragraph at lines 1410--1413 [][][]\T1/zi4/m/sl/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready wor ks nowa-days with data.frames; [][][]\T1/zi4/m/sl/10 boxplot.formula[][][][]\T1 /ptm/m/n/10 , [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 1728) in paragraph at lines 2388--2390 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/sl/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [997] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] Underfull \vbox (badness 10000) has occurred while \output is active [1021] Underfull \vbox (badness 10000) has occurred while \output is active [1022] [1023] [1024] [1025] [1026] [1027] Underfull \vbox (badness 3803) has occurred while \output is active [1028] [1029] [1030] [1031] [1032] [1033] [1034] Underfull \hbox (badness 3229) in paragraph at lines 4733--4738 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1035] [1036] [1037] [1038] [1039] Underfull \hbox (badness 1107) in paragraph at lines 5233--5239 []\T1/ptm/m/n/10 is []\T1/zi4/m/sl/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sc aled to user co-or-di-nates. Note that []\T1/zi4/m/sl/10 c([][]strwidth[][][](c h), [1040] [1041] Underfull \hbox (badness 10000) in paragraph at lines 5362--5365 [1042 ] Underfull \hbox (badness 10000) in paragraph at lines 5423--5425 [1043 ] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6097 \aliasA{plot}{plot.default}{plot} [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6997--6998 [][] [1068 ] [1069] Underfull \vbox (badness 3803) has occurred while \output is active [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 4954) in paragraph at lines 9109--9111 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /sl/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 9111--9113 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/sl/10 pa r(c("font.lab", "cex.lab", [1103] [1104] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} [1105] [1106] [1107] [1108]) (./grid-pkg.tex Chapter 6. [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] Underfull \hbox (badness 2680) in paragraph at lines 551--554 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/sl/10 preDrawDetails []\T1/ptm/m/n/10 an d []\T1/zi4/m/sl/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal -cu-la-tion of [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] Underfull \hbox (badness 4279) in paragraph at lines 1188--1197 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/sl/10 pushViewport[][][][]\T1/ ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T 1/zi4/m/sl/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 seekVi ewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 upViewport[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/sl/10 unit[][][][]\T1/ptm/m/n/10 , [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] Underfull \hbox (badness 10000) in paragraph at lines 3103--3105 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] Underfull \vbox (badness 10000) has occurred while \output is active [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 1067) in paragraph at lines 4842--4845 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1191] [1192] [1193] [1194] [1195] [1196] Underfull \hbox (badness 7256) in paragraph at lines 5193--5195 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1197] [1198] [1199] [1200] [1201] [1202] [1203] Underfull \hbox (badness 2142) in paragraph at lines 5647--5651 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/sl/10 gridGTreeCoords []\T1/ptm/m/n/ 10 a list of ei-ther []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1204] [1205] Underfull \hbox (badness 4699) in paragraph at lines 5729--5734 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 o b-ject (a list of lists with com-po-nents []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 y[]\T1/ptm/m/n/10 ) or a [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237]) (./methods-pkg.tex [1238] Chapter 7. [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] Underfull \vbox (badness 10000) has occurred while \output is active [1247] Underfull \vbox (badness 10000) has occurred while \output is active [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] Underfull \hbox (badness 2237) in paragraph at lines 1384--1386 []\T1/ptm/m/n/10 The class []\T1/zi4/m/sl/10 "className" []\T1/ptm/m/n/10 ex-te nds []\T1/zi4/m/sl/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/s l/10 "package"[]\T1/ptm/m/n/10 , also of class [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] Underfull \hbox (badness 10000) in paragraph at lines 1980--1985 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/m/n /10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1980--1985 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/ m/n/10 it calls []\T1/zi4/m/sl/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1267] [1268] [1269] Underfull \hbox (badness 2213) in paragraph at lines 2212--2217 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/sl/10 where = [1270] [1271] [1272] [1273] [1274] Underfull \hbox (badness 10000) in paragraph at lines 2572--2575 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/sl/10 setGeneric[][][] [] \T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 cre-ate ob-jects of class [1275] [1276] Underfull \hbox (badness 1132) in paragraph at lines 2712--2716 []\T1/ptm/m/n/10 In []\T1/zi4/m/sl/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi 4/m/sl/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/sl/10 package []\T1/ptm/m/n/10 slot of the re-turned re-sult is in [1277] Underfull \hbox (badness 1033) in paragraph at lines 2744--2749 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/sl/10 removeGeneric []\T1/ptm/m/n/10 re-moves the func-tion it-self; []\T1/zi4/m/sl/10 removeMethods []\T1/ptm/m/n/1 0 re-stores the [1278] [1279] [1280] [1281] [1282] [1283] [1284] Underfull \hbox (badness 1102) in paragraph at lines 3301--3303 []\T1/zi4/m/sl/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1285] [1286] [1287] [1288] [1289] Underfull \hbox (badness 10000) in paragraph at lines 3638--3647 []\T1/ptm/m/n/10 The [1290] [1291] Underfull \hbox (badness 10000) in paragraph at lines 3758--3759 [] \T1/zi4/m/sl/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longi tude = "numeric", [1292] Underfull \hbox (badness 10000) in paragraph at lines 3842--3843 []\T1/zi4/m/sl/10 Currency <- setClass("Currency", slots = c(unit = "character" ), contains = [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] Underfull \hbox (badness 1769) in paragraph at lines 4473--4479 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/sl/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4473--4479 []\T1/zi4/m/sl/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [ ][][]\T1/zi4/m/sl/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion u sed by [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] Underfull \vbox (badness 10000) has occurred while \output is active [1313] [1314] [1315] Underfull \hbox (badness 4036) in paragraph at lines 5438--5441 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/sl/10 "PossibleMethod" []\T1/ptm/m /n/10 the method to use in re-sponse to a [1316] [1317] Underfull \hbox (badness 3803) in paragraph at lines 5513--5515 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1318] [1319] [1320] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/sl/10 externalRe fMethod(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1330] [1331] [1332] [1333] Underfull \vbox (badness 10000) has occurred while \output is active [1334] [1335] [1336] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6972 \aliasA{S4}{S3Part}{S4} [1337] [1338] [1339] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7228 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7230 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7231 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7233 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7234 \aliasA{Summary}{S4groupGeneric}{Summary} [1340] Underfull \hbox (badness 2050) in paragraph at lines 7295--7299 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1341] [1342] [1343] Underfull \hbox (badness 1286) in paragraph at lines 7483--7485 []\T1/ptm/m/n/10 for []\T1/zi4/m/sl/10 .selectSuperClasses() []\T1/ptm/m/n/10 o nly, a [][][]\T1/zi4/m/sl/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cally [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] Underfull \vbox (badness 10000) has occurred while \output is active [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] Underfull \hbox (badness 1158) in paragraph at lines 10490--10493 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/zi4/m/sl/10 https : / / johnmchambers . su . domains / [1385] Underfull \hbox (badness 1852) in paragraph at lines 10568--10572 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1386] [1387] [1388] [1389]) (./parallel-pkg.tex [1390] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/sl/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [] []RNG[][][]: see [1391] [1392] [1393] [1394] [1395] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1396] [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 3386) in paragraph at lines 1400--1403 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/sl/10 .Random.seed []\T1/ptm/m/n/10 when the [1413] [1414]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/sl/10 \T1/ptm /m/n/10 and William N. Ven-ables [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430]) (./stats-pkg.tex Chapter 10. [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] Underfull \hbox (badness 1412) in paragraph at lines 901--903 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/sl/10 lm []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 aov[]\T1/ptm/m/n/10 , or a for-mula fo r [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] Underfull \hbox (badness 2503) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2503) in paragraph at lines 3557--3560 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1487] [1488] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3670. [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 3989) in paragraph at lines 4816--4823 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 2556) in paragraph at lines 5470--5473 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/sl/10 "circular"[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "filter"[]\T1/ptm/m/n/10 . For [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \hbox (badness 2503) in paragraph at lines 5882--5886 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 7081) in paragraph at lines 6674--6677 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/sl/10 "hclust" []\T1/ptm/m/n/10 c an be con-verted to class []\T1/zi4/m/sl/10 "dendrogram" []\T1/ptm/m/n/10 us-in g method Underfull \hbox (badness 10000) in paragraph at lines 6678--6680 []\T1/zi4/m/sl/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro- gram []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1537] [1538] [1539] [1540] [1541] [1542] Underfull \vbox (badness 10000) has occurred while \output is active [1543] [1544] [1545] Underfull \vbox (badness 10000) has occurred while \output is active [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 10000) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/sl/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1551] [1552] [1553] [1554] [1555] [1556] Underfull \vbox (badness 3803) has occurred while \output is active [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] Underfull \vbox (badness 3803) has occurred while \output is active [1573] [1574] [1575] [1576] [1577] [1578] Underfull \hbox (badness 2626) in paragraph at lines 9271--9274 []\T1/ptm/m/n/10 Either []\T1/zi4/m/sl/10 "convolution" []\T1/ptm/m/n/10 or []\ T1/zi4/m/sl/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1579] Underfull \hbox (badness 2503) in paragraph at lines 9378--9382 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 4518) in paragraph at lines 10733--10738 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2142) in paragraph at lines 11095--11098 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1606] Underfull \hbox (badness 1253) in paragraph at lines 11114--11117 []\T1/ptm/m/n/10 When []\T1/zi4/m/sl/10 trace []\T1/ptm/m/n/10 is true, calls t o [][][]\T1/zi4/m/sl/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for eac h IWLS it-er-a-tion. Hence, [1607] Underfull \hbox (badness 1708) in paragraph at lines 11176--11180 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1694) in paragraph at lines 11572--11575 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12053 \aliasA{hat}{influence.measures}{hat} [1622] [1623] Underfull \hbox (badness 1484) in paragraph at lines 12198--12200 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/sl/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1624] Underfull \vbox (badness 3803) has occurred while \output is active [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] Underfull \hbox (badness 10000) in paragraph at lines 12785--12787 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/sl/10 solve.d efault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/sl/10 SSinit = [1634] [1635] [1636] [1637] [1638] Underfull \hbox (badness 2894) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1639] [1640] [1641] [1642] [1643] [1644] [1645] Underfull \hbox (badness 1496) in paragraph at lines 13555--13561 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1646] [1647] [1648] [1649] [1650] [1651] Underfull \hbox (badness 4518) in paragraph at lines 13958--13963 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] Underfull \hbox (badness 4518) in paragraph at lines 14620--14625 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1662] [1663] [1664] Underfull \hbox (badness 6412) in paragraph at lines 14760--14764 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/sl/10 (surface = "int erpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14767--14769 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/sl/10 family []\T1/ptm/m/n/10 is [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] Underfull \hbox (badness 2503) in paragraph at lines 15843--15847 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] Underfull \hbox (badness 10000) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 model. response(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/sl/10 model.offset []\ T1/ptm/m/n/10 sums any terms [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] [1716] [1717] Underfull \hbox (badness 1158) in paragraph at lines 18014--18017 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/sl/10 nls []\T 1/ptm/m/n/10 as the data ar-gu-ment. The ac- [1718] [1719] Underfull \vbox (badness 10000) has occurred while \output is active [1720] Underfull \vbox (badness 10000) has occurred while \output is active [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 1377) in paragraph at lines 19057--19062 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 19062--19065 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 19075--19079 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 19075--19079 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/sl/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 19083--19087 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/sl/10 "BFGS"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 "SANN" []\T1/ptm/m/n/10 meth-ods if [1735] [1736] [1737] Underfull \vbox (badness 10000) has occurred while \output is active [1738] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19308--19308 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19311--19311 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \hbox (badness 1337) in paragraph at lines 19773--19776 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] Underfull \hbox (badness 10000) in paragraph at lines 20242--20248 \T1/zi4/m/sl/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 s distance", lty = cook.lty, col = cook.col, text.col [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 1194) in paragraph at lines 20669--20672 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1762] [1763] [1764] [1765] [1766] [1767] Underfull \hbox (badness 2503) in paragraph at lines 21047--21050 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 21074--21076 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/sl/10 "Exact Poisson test" []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 "Comparison of Poisson [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 10000) in paragraph at lines 22152--22158 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/sl/10 predict.ar [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 predict.Arima[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/sl/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 1337) in paragraph at lines 23628--23634 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] Underfull \hbox (badness 1436) in paragraph at lines 24118--24121 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/sl/10 max(2, [1819] Underfull \hbox (badness 10000) in paragraph at lines 24256--24257 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . o rg / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] Underfull \hbox (badness 1824) in paragraph at lines 25226--25232 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 25226--25232 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1836] Underfull \hbox (badness 10000) in paragraph at lines 25247--25250 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/sl/10 y = runmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/sl/10 y[j] = [1837] [1838] [1839] [1840] [1841] [1842] [1843] [1844] [1845] Underfull \hbox (badness 2165) in paragraph at lines 25822--25827 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/sl/10 "selfStart" []\T 1/ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/sl/10 SSasymp[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1846] [1847] [1848] [1849] Underfull \hbox (badness 1867) in paragraph at lines 26032--26034 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 26048--26052 []\T1/ptm/m/n/10 where []\T1/zi4/m/sl/10 NN <- [][]nobs[][][](object, use.fallb ack = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 PP <- [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \vbox (badness 10000) has occurred while \output is active [1875] [1876] Underfull \hbox (badness 3514) in paragraph at lines 27700--27705 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1877] [1878] [1879] [1880] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27934--27934 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27970--27976 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1881] Overfull \hbox (14.22568pt too wide) in paragraph at lines 28030--28030 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1882] [1883] [1884] [1885] Underfull \hbox (badness 3514) in paragraph at lines 28203--28208 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1886] Underfull \hbox (badness 3514) in paragraph at lines 28290--28295 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1887] Underfull \hbox (badness 3514) in paragraph at lines 28355--28360 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1888] [1889] Underfull \hbox (badness 3514) in paragraph at lines 28449--28454 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1890] [1891] Underfull \hbox (badness 6691) in paragraph at lines 28541--28546 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 x[] \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 4024) in paragraph at lines 29028--29031 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] [1908] [1909] Underfull \hbox (badness 5431) in paragraph at lines 29631--29633 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1910] [1911] [1912] Underfull \hbox (badness 5431) in paragraph at lines 29841--29844 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1913] [1914] [1915] [1916] [1917] [1918] Underfull \hbox (badness 1337) in paragraph at lines 30156--30160 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1919] [1920] Underfull \hbox (badness 1127) in paragraph at lines 30293--30296 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for []\T1/zi4/m/sl/10 rt()[]\T1/ptm/m/n/10 , ac-cu-rate only for [1921] [1922] [1923] Underfull \hbox (badness 1616) in paragraph at lines 30499--30502 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944] Underfull \hbox (badness 3557) in paragraph at lines 31726--31730 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/sl/10 extendInt []\T1/ptm/m/n/10 to a non- []\T1/zi4/m/sl/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-re ct []\T1/zi4/m/sl/10 interval = [1945] [1946] [1947] Underfull \vbox (badness 10000) has occurred while \output is active [1948] [1949] [1950] Underfull \hbox (badness 1337) in paragraph at lines 32093--32097 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] Underfull \hbox (badness 1337) in paragraph at lines 32621--32625 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1960] [1961] [1962] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32829--32829 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1963] [1964] [1965] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32990--32990 [] \T1/zi4/m/sl/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.ep s = getOption("ts.eps"), ...)[] [1966] [1967] [1968] [1969] [1970]) (./stats4-pkg.tex Chapter 11. [1971] [1972] [1973] Underfull \vbox (badness 10000) has occurred while \output is active [1974] Underfull \vbox (badness 10000) has occurred while \output is active [1975] [1976] [1977] [1978] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1979] [1980] [1981]) (./tcltk-pkg.tex [1982] Chapter 12. [1983] [1984] [1985] [1986] [1987] [1988] [1989] Underfull \vbox (badness 10000) has occurred while \output is active [1990] Underfull \vbox (badness 10000) has occurred while \output is active [1991] Underfull \hbox (badness 1546) in paragraph at lines 672--679 []\T1/zi4/m/sl/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call- ing any Tk or Tcl com-mand by sim-ply run-ning [1992] [1993] [1994] [1995] [1996] Underfull \vbox (badness 10000) has occurred while \output is active [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004]) (./tools-pkg.tex Chapter 13. [2005] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [2006] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/sl/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing wil l be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [2007] [2008] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/sl/10 b ibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 format InProceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatManual[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatPhdthesi s[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 formatTechreport []\T1/ptm/m/n/10 and [2009] [2010] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gi ne to use. Over-rides any [2011] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [2012] [2013] [2014] [2015] [2016] [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] Underfull \hbox (badness 1014) in paragraph at lines 1220--1222 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1226--1228 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [2025] Underfull \hbox (badness 10000) in paragraph at lines 1263--1266 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1263--1266 []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [2026] [2027] [2028] [2029] [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 1637--1640 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/sl/10 CRAN_aliases_db[]\T1/ptm /m/n/10 , []\T1/zi4/m/sl/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 CRAN_current_db []\T1/ptm/m/n/10 and [2032] [2033] Underfull \hbox (badness 4096) in paragraph at lines 1756--1764 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1766--1768 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 for all known trees (see [2034] [2035] [2036] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1967 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.1968 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2037] [2038] [2039] [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 3386) in paragraph at lines 2442--2445 []\T1/ptm/m/n/10 The de-fault method of []\T1/zi4/m/sl/10 as.Rconcordance []\T1 /ptm/m/n/10 searches for strings match-ing the pat-tern of [2045] [2046] Underfull \hbox (badness 4096) in paragraph at lines 2582--2590 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1424) in paragraph at lines 3516--3518 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] [2072] Underfull \hbox (badness 10000) in paragraph at lines 4232--4234 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 4388--4391 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/sl/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/sl/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2076] [2077] [2078] [2079] [2080] Underfull \hbox (badness 1796) in paragraph at lines 4745--4750 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/sl/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/sl/10 type = = [2081] [2082] Underfull \hbox (badness 1838) in paragraph at lines 4831--4837 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4831--4837 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2083] [2084] [2085] [2086] Underfull \hbox (badness 2197) in paragraph at lines 5112--5122 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/sl/10 available.packages[][][][]\T1/ptm/m/n/10 : [2087] Underfull \hbox (badness 1571) in paragraph at lines 5178--5182 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2088] [2089] [2090] [2091]) (./utils-pkg.tex [2092] Chapter 14. [2093] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/sl/10 insertions[]\T1/ptm/m/n/10 ', [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] Underfull \hbox (badness 10000) in paragraph at lines 728--734 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/sl/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/sl/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 728--734 []\T1/zi4/m/sl/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2104] [2105] [2106] Underfull \hbox (badness 3861) in paragraph at lines 934--939 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/sl/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 1139--1141 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2110] [2111] [2112] Underfull \vbox (badness 10000) has occurred while \output is active [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1371) in paragraph at lines 1666--1668 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 2057) in paragraph at lines 2386--2388 []\T1/ptm/m/n/10 None for []\T1/zi4/m/sl/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2130] Underfull \hbox (badness 2150) in paragraph at lines 2461--2468 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/zi4/m/sl/10 citation() []\T1 /ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2461--2468 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2131] [2132] [2133] Underfull \vbox (badness 3803) has occurred while \output is active [2134] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2738 ... the Clipboard in MS Windows}{clipboard} [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] Underfull \hbox (badness 6842) in paragraph at lines 4048--4053 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/sl/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2156] Underfull \hbox (badness 1430) in paragraph at lines 4111--4115 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/sl/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2157] Underfull \hbox (badness 1184) in paragraph at lines 4182--4198 []\T1/ptm/m/n/10 On Win-dows with []\T1/zi4/m/sl/10 method = "libcurl"[]\T1/ptm /m/n/10 , the CA root cer-tifi-cates are pro-vided by the OS Underfull \hbox (badness 1019) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 con-tain-ing `[]\T1/zi4/m/sl/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-ment vari- Underfull \hbox (badness 1668) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 able []\T1/zi4/m/sl/10 CURL_CA_BUNDLE []\T1/ptm/m/n/10 must be s et to a path to a cer-tifi-cate bun-dle file, usu-ally named [2158] [2159] Underfull \hbox (badness 10000) in paragraph at lines 4332--4334 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/sl/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2160] [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] Underfull \hbox (badness 1622) in paragraph at lines 5634--5638 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2181] [2182] [2183] [2184] [2185] [2186] Underfull \hbox (badness 1448) in paragraph at lines 6019--6024 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] Underfull \hbox (badness 1371) in paragraph at lines 6567--6569 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2195] [2196] Underfull \hbox (badness 1502) in paragraph at lines 6656--6662 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6656--6662 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2197] [2198] Underfull \hbox (badness 10000) in paragraph at lines 6833--6842 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 3354) in paragraph at lines 6833--6842 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R_DOC_DIR\T1/zi4/m/sl/10 /html/packages.html\T1 /ptm/m/n/10 ', which can be re-made by [][][]\T1/zi4/m/sl/10 make.packages.html [][][]()[]\T1/ptm/m/n/10 . [2199] Underfull \hbox (badness 2150) in paragraph at lines 6895--6898 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2200] [2201] Underfull \hbox (badness 3118) in paragraph at lines 7034--7036 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2202] [2203] [2204] Underfull \hbox (badness 1325) in paragraph at lines 7213--7217 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/sl/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2205] Underfull \hbox (badness 1424) in paragraph at lines 7305--7308 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2206] Underfull \hbox (badness 3219) in paragraph at lines 7377--7384 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/s l/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7377--7384 [][][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7385--7388 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/sl/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2207] [2208] Underfull \hbox (badness 1024) in paragraph at lines 7514--7517 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/sl/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 , ] []\T1/ ptm/m/n/10 will Underfull \hbox (badness 10000) in paragraph at lines 7547--7552 [][][]\T1/zi4/m/sl/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2209] Underfull \hbox (badness 5133) in paragraph at lines 7606--7610 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 10000) in paragraph at lines 8270--8272 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/sl/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2221] [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Underfull \hbox (badness 2310) in paragraph at lines 9057--9062 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2234] [2235] [2236] [2237] [2238] [2239] [2240] [2241] [2242] Underfull \hbox (badness 1248) in paragraph at lines 9628--9632 []\T1/zi4/m/sl/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 149--157 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . 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Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 572--578 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13{/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [24] [25] [26] [27] [28] [29] [30] Underfull \vbox (badness 3803) has occurred while \output is active [31] [32] [33] [34] [35] [36] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2261--2261 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] Underfull \hbox (badness 1721) in paragraph at lines 2926--2930 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [47] [48] [49] [50] [51] [52] [53] Underfull \hbox (badness 2538) in paragraph at lines 3404--3407 []\T1/zi4/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[] [][] ver-sion of []\T1/zi4/m/n/10 balancePOSIXlt(x, fill.only=TRUE, [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Underfull \hbox (badness 10000) in paragraph at lines 4200--4202 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] Underfull \hbox (badness 2521) in paragraph at lines 5551--5553 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6834--6834 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] Underfull \hbox (badness 1303) in paragraph at lines 7730--7737 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [120] Underfull \hbox (badness 2261) in paragraph at lines 7741--7746 \T1/zi4/m/n/10 / / github . com / astrand / xclip$[][]\T1/ptm/m/n/10 ) or []\T1 /zi4/m/n/10 xsel []\T1/ptm/m/n/10 ([][]$\T1/zi4/m/n/10 https : / / www . vergen et . net / ~conrad / software / [121] [122] Underfull \vbox (badness 10000) has occurred while \output is active [123] [124] [125] [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 2096) in paragraph at lines 8474--8478 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [132] [133] Underfull \hbox (badness 2351) in paragraph at lines 8589--8592 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [134] [135] [136] [137] [138] Underfull \hbox (badness 4479) in paragraph at lines 8906--8917 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [139] [140] [141] [142] [143] [144] Underfull \hbox (badness 1629) in paragraph at lines 9327--9339 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 9327--9339 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] Underfull \hbox (badness 1178) in paragraph at lines 10193--10197 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] Underfull \hbox (badness 2744) in paragraph at lines 12533--12535 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [194] [195] [196] [197] [198] [199] [200] [201] Underfull \vbox (badness 10000) has occurred while \output is active [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223] [224] [225] [226] Underfull \hbox (badness 2253) in paragraph at lines 14737--14739 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 14772--14775 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [227] Underfull \hbox (badness 1565) in paragraph at lines 14854--14858 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and [228] Underfull \hbox (badness 4927) in paragraph at lines 14905--14907 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [229] [230] [231] Underfull \hbox (badness 1466) in paragraph at lines 15056--15059 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [232] Underfull \hbox (badness 10000) in paragraph at lines 15187--15191 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15198--15201 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [233] [234] [235] [236] [237] Underfull \hbox (badness 3965) in paragraph at lines 15493--15497 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [238] [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 5260) in paragraph at lines 15995--15995 []\T1/zi4/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/zi4/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 decimal.mark[]\T1/ptm/m/n/10 , [246] [247] [248] [249] Underfull \hbox (badness 4429) in paragraph at lines 16285--16288 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [250] [251] Underfull \hbox (badness 10000) in paragraph at lines 16392--16394 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [252] Underfull \hbox (badness 2035) in paragraph at lines 16465--16469 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [253] Underfull \vbox (badness 10000) has occurred while \output is active [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 2452) in paragraph at lines 17088--17092 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 17088--17092 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [263] [264] [265] Underfull \hbox (badness 1092) in paragraph at lines 17262--17267 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [266] [267] [268] Underfull \hbox (badness 6741) in paragraph at lines 17515--17519 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \vbox (badness 3803) has occurred while \output is active [280] Underfull \vbox (badness 10000) has occurred while \output is active [281] [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1769) in paragraph at lines 18988--18991 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19297--19299 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 19303--19312 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] Underfull \hbox (badness 1442) in paragraph at lines 19911--19913 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [306] Underfull \hbox (badness 2452) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/zi4/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.vector[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 5726) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.call[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.en vironment[][][] [][]is.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.ma trix[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.na[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 anyNA[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.nan [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.finite[][][] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1248) in paragraph at lines 20405--20408 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [313] [314] [315] [316] [317] Underfull \hbox (badness 4739) in paragraph at lines 20672--20674 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] Underfull \hbox (badness 2469) in paragraph at lines 21830--21835 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [337] Underfull \hbox (badness 1675) in paragraph at lines 21917--21926 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21927--21940 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the [338] Underfull \hbox (badness 10000) in paragraph at lines 21975--21978 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21975--21978 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [339] [340] Underfull \hbox (badness 1014) in paragraph at lines 22109--22114 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 1264) in paragraph at lines 22956--22964 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 22991--22994 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] Underfull \hbox (badness 5231) in paragraph at lines 23809--23811 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [367] [368] [369] [370] [371] [372] [373] [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] Underfull \hbox (badness 6380) in paragraph at lines 24919--24925 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Data _ compress ion$[][] \T1/ptm/m/n/10 for back-ground on data com-pres- Underfull \hbox (badness 1472) in paragraph at lines 24919--24925 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / XZ _ Utils$[][] [384] [385] [386] [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 2790) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [393] [394] [395] [396] [397] Underfull \hbox (badness 1194) in paragraph at lines 25760--25763 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [398] [399] [400] Underfull \hbox (badness 2368) in paragraph at lines 25967--25973 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [401] [402] [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26357--26360 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 26985--26987 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 2443) in paragraph at lines 27476--27484 \T1/ptm/m/n/10 suit-able char-ac-ter vec-tors as above, or nu-meric ver-sion ob -jects. For [424] [425] [426] [427] [428] [429] [430] Underfull \hbox (badness 1881) in paragraph at lines 27906--27909 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27931--27933 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [431] [432] Underfull \hbox (badness 2142) in paragraph at lines 28072--28076 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 28129--28134 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [433] [434] [435] [436] Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 5878) in paragraph at lines 28438--28441 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/p tm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 28464--28466 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28510--28515 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [437] Underfull \hbox (badness 2529) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 28528--28531 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [438] [439] [440] [441] [442] Underfull \vbox (badness 10000) has occurred while \output is active [443] Underfull \hbox (badness 10000) in paragraph at lines 28946--28950 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [444] [445] Underfull \hbox (badness 10000) in paragraph at lines 29093--29096 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [446] Underfull \hbox (badness 7925) in paragraph at lines 29174--29178 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 29174--29178 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 29179--29188 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [447] [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] Underfull \hbox (badness 2726) in paragraph at lines 30193--30196 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] [481] Underfull \vbox (badness 3803) has occurred while \output is active [482] [483] [484] [485] [486] [487] [488] [489] [490] Underfull \hbox (badness 1533) in paragraph at lines 32001--32004 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [491] [492] [493] Underfull \hbox (badness 1163) in paragraph at lines 32172--32183 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [494] [495] [496] [497] [498] [499] [500] Underfull \vbox (badness 3803) has occurred while \output is active [501] [502] Underfull \hbox (badness 6300) in paragraph at lines 32718--32720 []\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr it-ing R Ex-ten-sions' man-ual: [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 10000) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 33862--33864 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 33865--33869 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [520] [521] Underfull \vbox (badness 10000) has occurred while \output is active [522] [523] [524] [525] [526] [527] [528] [529] Underfull \hbox (badness 1655) in paragraph at lines 34467--34469 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] Underfull \hbox (badness 2261) in paragraph at lines 35670--35675 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] Underfull \hbox (badness 3668) in paragraph at lines 36705--36709 []\T1/zi4/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use with [565] Underfull \hbox (badness 10000) in paragraph at lines 36796--36807 \T1/zi4/m/n/10 / / learn . microsoft . com / en-[]us / cpp / c-[]language / par sing-[]c-[]command-[]line-[]arguments ? [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] [584] [585] [586] [587] [588] [589] [590] Underfull \hbox (badness 10000) in paragraph at lines 38428--38430 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 2913) in paragraph at lines 38846--38850 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [598] [599] [600] Underfull \hbox (badness 1072) in paragraph at lines 39092--39096 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by [601] Underfull \hbox (badness 10000) in paragraph at lines 39097--39101 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 39152--39159 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [602] [603] [604] [605] Underfull \hbox (badness 2644) in paragraph at lines 39387--39391 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626] [627] [628] [629] Underfull \hbox (badness 1158) in paragraph at lines 40915--40917 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [630] [631] [632] [633] [634] [635] [636] [637] [638] [639] Underfull \hbox (badness 1137) in paragraph at lines 41515--41521 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails Underfull \hbox (badness 4967) in paragraph at lines 41533--41538 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [640] [641] Underfull \hbox (badness 1616) in paragraph at lines 41653--41658 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [642] [643] [644] [645] Underfull \vbox (badness 3803) has occurred while \output is active [646] [647] [648] [649] [650] Underfull \hbox (badness 1472) in paragraph at lines 42199--42202 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [651] [652] [653] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 42411. [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 10000) in paragraph at lines 43150--43154 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/sl/10 bin []\T1/ptm/m/n/10 ca n have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4 /m/sl/10 length(bin) > [666] [667] [668] [669] [670] Underfull \hbox (badness 10000) in paragraph at lines 43509--43512 [][][]\T1/zi4/m/sl/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [][]$https : / / developer . r-[]project . org / [671] [672] [673] Underfull \hbox (badness 10000) in paragraph at lines 43693--43697 [][][]\T1/zi4/m/sl/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 taskCallb ackManager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/sl/10 https : / / developer . [674] [675] [676] [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 10000) in paragraph at lines 44341--44344 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Time _ zone$[] [] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/sl/10 https : / / data . iana . org / time -[]zones / [684] [685] [686] [687] [688] [689] Underfull \vbox (badness 10000) has occurred while \output is active [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 1990) in paragraph at lines 45257--45265 []\T1/zi4/m/sl/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps an y er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 45257--45265 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/sl/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] Underfull \hbox (badness 1014) in paragraph at lines 46694--46697 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [720] [721] Underfull \hbox (badness 2401) in paragraph at lines 46827--46831 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/sl/10 options[][][](" warn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [722] [723] Underfull \hbox (badness 3492) in paragraph at lines 46953--46955 []\T1/zi4/m/sl/10 weekdays []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 months []\T1/ ptm/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [724] [725] Underfull \hbox (badness 2111) in paragraph at lines 47039--47044 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/sl/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [726] [727] [728] Underfull \hbox (badness 4001) in paragraph at lines 47287--47289 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/sl/10 https : / / developer . [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 5417) in paragraph at lines 47688--47692 []\T1/zi4/m/sl/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-re ntly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [736] Underfull \hbox (badness 10000) in paragraph at lines 47749--47753 []\T1/zi4/m/sl/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-d ard' reg-exps, in-clud-ing el-e-ments named [737]) (./compiler-pkg.tex [738] Chapter 2. [739] [740] [741] [742]) (./datasets-pkg.tex Chapter 3. [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] Underfull \hbox (badness 1097) in paragraph at lines 1034--1038 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] Overfull \hbox (2.27475pt too wide) in paragraph at lines 3524--3524 []\T1/zi4/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [802] [803] [804] [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] [825]) (./grDevices-pkg.tex [826] Chapter 4. [827] [828] [829] [830] [831] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/sl/10 c(mi, ma, n.)[] \T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 297--302 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/sl/10 axisTicks[][][]() []\T1 /ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/sl/10 CreateAtVector() []\T1 /ptm/m/n/10 in [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 1424) in paragraph at lines 899--901 [][][]\T1/zi4/m/sl/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) a nd []\T1/zi4/m/sl/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also b e spec-i-fied as [841] [842] [843] [844] [845] [846] Underfull \hbox (badness 5175) in paragraph at lines 1227--1229 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [847] [848] Underfull \hbox (badness 2512) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/sl/10 https : / / web . ar chive . org / web / 20190613001950 / http : / / efg2 . com / [849] [850] [851] [852] [853] Underfull \hbox (badness 1490) in paragraph at lines 1646--1651 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/sl/10 rasterImage[][][] []\T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues [] \T1/zi4/m/sl/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1659--1663 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [854] [855] [856] [857] [858] [859] Underfull \hbox (badness 1325) in paragraph at lines 2074--2084 []\T1/zi4/m/sl/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "pngmono"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "png alpha"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/ m/sl/10 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp32b"[]\T1/ptm /m/n/10 , [860] [861] Underfull \hbox (badness 10000) in paragraph at lines 2186--2188 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [862] [863] [864] Underfull \hbox (badness 6758) in paragraph at lines 2374--2377 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \hbox (badness 10000) in paragraph at lines 3130--3131 [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] Underfull \vbox (badness 3803) has occurred while \output is active [889] [890] [891] [892] Underfull \vbox (badness 10000) has occurred while \output is active [893] [894] [895] [896] Underfull \hbox (badness 1418) in paragraph at lines 4407--4414 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "H elvetica-Narrow"[]\T1/ptm/m/n/10 , [897] [898] [899] [900] [901] [902] [903] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4872 \aliasA{symbol}{plotmath}{symbol} [904] [905] [906] [907] Underfull \vbox (badness 3803) has occurred while \output is active [908] [909] Underfull \hbox (badness 1584) in paragraph at lines 5265--5267 []\T1/ptm/m/n/10 For type []\T1/zi4/m/sl/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1 /zi4/m/sl/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 5269--5276 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [910] [911] [912] [913] Underfull \hbox (badness 1377) in paragraph at lines 5571--5576 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [914] [915] Underfull \hbox (badness 1377) in paragraph at lines 5675--5680 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/sl/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [916] Underfull \hbox (badness 7344) in paragraph at lines 5744--5746 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [917] [918] Underfull \hbox (badness 2035) in paragraph at lines 5883--5892 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 \T1/ptm/m/n/10 vided: []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Helveti ca-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 []\T1/zi4/m/sl/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "P alatino" []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 "Times"[]\T1/ptm/m/n/10 ; []\T1 /zi4/m/sl/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "URWBookman"[]\T1/ ptm/m/n/10 , [919] Underfull \hbox (badness 10000) in paragraph at lines 5950--5955 []\T1/zi4/m/sl/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/ zi4/m/sl/10 https : / / ftp . gnu . org / pub / non-[]gnu / [920] [921] [922] Underfull \hbox (badness 1546) in paragraph at lines 6090--6098 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/sl/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 title[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 encoding[]\T1/ptm/m/n /10 , []\T1/zi4/m/sl/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 fg[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 width[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928] Underfull \hbox (badness 6625) in paragraph at lines 6534--6537 []\T1/ptm/m/n/10 Murrell, P., Ooms, J., Al-laire, J.J. (2015), "Record-ing and Re-play-ing the Graph- [929] [930] Underfull \hbox (badness 10000) in paragraph at lines 6638--6641 []\T1/zi4/m/sl/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space ( red/green/blue) into HSV space [931] [932] [933] [934] Overfull \hbox (9.73488pt too wide) in paragraph at lines 6875--6875 []\T1/zi4/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 continuous=TRUE\TS1/zi4/m/n/9 '\T1/ zi4/m/n/9 ):[] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Underfull \hbox (badness 1189) in paragraph at lines 7503--7505 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [945] Underfull \hbox (badness 10000) in paragraph at lines 7608--7610 []\T1/zi4/m/sl/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for C JK lan-guages and [946] [947] [948] [949] [950] Underfull \hbox (badness 3780) in paragraph at lines 7923--7929 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/s l/10 "AvantGarde"[]\T1/ptm/m/n/10 , [951] [952] [953] [954] [955] [956]) (./graphics-pkg.tex Chapter 5. [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \vbox (badness 3803) has occurred while \output is active [968] [969] [970] [971] [972] [973] Overfull \hbox (12.71341pt too wide) in paragraph at lines 1037--1037 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [974] [975] [976] [977] [978] [979] Underfull \hbox (badness 4634) in paragraph at lines 1410--1413 [][][]\T1/zi4/m/sl/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready wor ks nowa-days with data.frames; [][][]\T1/zi4/m/sl/10 boxplot.formula[][][][]\T1 /ptm/m/n/10 , [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 1728) in paragraph at lines 2388--2390 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/sl/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [997] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] Underfull \vbox (badness 10000) has occurred while \output is active [1021] Underfull \vbox (badness 10000) has occurred while \output is active [1022] [1023] [1024] [1025] [1026] [1027] Underfull \vbox (badness 3803) has occurred while \output is active [1028] [1029] [1030] [1031] [1032] [1033] [1034] Underfull \hbox (badness 3229) in paragraph at lines 4733--4738 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1035] [1036] [1037] [1038] [1039] Underfull \hbox (badness 1107) in paragraph at lines 5233--5239 []\T1/ptm/m/n/10 is []\T1/zi4/m/sl/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sc aled to user co-or-di-nates. Note that []\T1/zi4/m/sl/10 c([][]strwidth[][][](c h), [1040] [1041] Underfull \hbox (badness 10000) in paragraph at lines 5362--5365 [1042 ] Underfull \hbox (badness 10000) in paragraph at lines 5423--5425 [1043 ] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6097 \aliasA{plot}{plot.default}{plot} [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6997--6998 [][] [1068 ] [1069] Underfull \vbox (badness 3803) has occurred while \output is active [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 4954) in paragraph at lines 9109--9111 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /sl/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 9111--9113 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/sl/10 pa r(c("font.lab", "cex.lab", [1103] [1104] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} [1105] [1106] [1107] [1108]) (./grid-pkg.tex Chapter 6. [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] Underfull \hbox (badness 2680) in paragraph at lines 551--554 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/sl/10 preDrawDetails []\T1/ptm/m/n/10 an d []\T1/zi4/m/sl/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal -cu-la-tion of [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] Underfull \hbox (badness 4279) in paragraph at lines 1188--1197 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/sl/10 pushViewport[][][][]\T1/ ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T 1/zi4/m/sl/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 seekVi ewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 upViewport[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/sl/10 unit[][][][]\T1/ptm/m/n/10 , [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] Underfull \hbox (badness 10000) in paragraph at lines 3103--3105 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] Underfull \vbox (badness 10000) has occurred while \output is active [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 1067) in paragraph at lines 4842--4845 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1191] [1192] [1193] [1194] [1195] [1196] Underfull \hbox (badness 7256) in paragraph at lines 5193--5195 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1197] [1198] [1199] [1200] [1201] [1202] [1203] Underfull \hbox (badness 2142) in paragraph at lines 5647--5651 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/sl/10 gridGTreeCoords []\T1/ptm/m/n/ 10 a list of ei-ther []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1204] [1205] Underfull \hbox (badness 4699) in paragraph at lines 5729--5734 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 o b-ject (a list of lists with com-po-nents []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 y[]\T1/ptm/m/n/10 ) or a [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237]) (./methods-pkg.tex [1238] Chapter 7. [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] Underfull \vbox (badness 10000) has occurred while \output is active [1247] Underfull \vbox (badness 10000) has occurred while \output is active [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] Underfull \hbox (badness 2237) in paragraph at lines 1384--1386 []\T1/ptm/m/n/10 The class []\T1/zi4/m/sl/10 "className" []\T1/ptm/m/n/10 ex-te nds []\T1/zi4/m/sl/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/s l/10 "package"[]\T1/ptm/m/n/10 , also of class [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] Underfull \hbox (badness 10000) in paragraph at lines 1980--1985 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/m/n /10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1980--1985 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/ m/n/10 it calls []\T1/zi4/m/sl/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1267] [1268] [1269] Underfull \hbox (badness 2213) in paragraph at lines 2212--2217 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/sl/10 where = [1270] [1271] [1272] [1273] [1274] Underfull \hbox (badness 10000) in paragraph at lines 2572--2575 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/sl/10 setGeneric[][][] [] \T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 cre-ate ob-jects of class [1275] [1276] Underfull \hbox (badness 1132) in paragraph at lines 2712--2716 []\T1/ptm/m/n/10 In []\T1/zi4/m/sl/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi 4/m/sl/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/sl/10 package []\T1/ptm/m/n/10 slot of the re-turned re-sult is in [1277] Underfull \hbox (badness 1033) in paragraph at lines 2744--2749 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/sl/10 removeGeneric []\T1/ptm/m/n/10 re-moves the func-tion it-self; []\T1/zi4/m/sl/10 removeMethods []\T1/ptm/m/n/1 0 re-stores the [1278] [1279] [1280] [1281] [1282] [1283] [1284] Underfull \hbox (badness 1102) in paragraph at lines 3301--3303 []\T1/zi4/m/sl/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1285] [1286] [1287] [1288] [1289] Underfull \hbox (badness 10000) in paragraph at lines 3638--3647 []\T1/ptm/m/n/10 The [1290] [1291] Underfull \hbox (badness 10000) in paragraph at lines 3758--3759 [] \T1/zi4/m/sl/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longi tude = "numeric", [1292] Underfull \hbox (badness 10000) in paragraph at lines 3842--3843 []\T1/zi4/m/sl/10 Currency <- setClass("Currency", slots = c(unit = "character" ), contains = [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] Underfull \hbox (badness 1769) in paragraph at lines 4473--4479 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/sl/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4473--4479 []\T1/zi4/m/sl/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [ ][][]\T1/zi4/m/sl/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion u sed by [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] Underfull \vbox (badness 10000) has occurred while \output is active [1313] [1314] [1315] Underfull \hbox (badness 4036) in paragraph at lines 5438--5441 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/sl/10 "PossibleMethod" []\T1/ptm/m /n/10 the method to use in re-sponse to a [1316] [1317] Underfull \hbox (badness 3803) in paragraph at lines 5513--5515 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1318] [1319] [1320] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/sl/10 externalRe fMethod(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1330] [1331] [1332] [1333] Underfull \vbox (badness 10000) has occurred while \output is active [1334] [1335] [1336] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6972 \aliasA{S4}{S3Part}{S4} [1337] [1338] [1339] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7228 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7230 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7231 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7233 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7234 \aliasA{Summary}{S4groupGeneric}{Summary} [1340] Underfull \hbox (badness 2050) in paragraph at lines 7295--7299 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1341] [1342] [1343] Underfull \hbox (badness 1286) in paragraph at lines 7483--7485 []\T1/ptm/m/n/10 for []\T1/zi4/m/sl/10 .selectSuperClasses() []\T1/ptm/m/n/10 o nly, a [][][]\T1/zi4/m/sl/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cally [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] Underfull \vbox (badness 10000) has occurred while \output is active [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] Underfull \hbox (badness 1158) in paragraph at lines 10490--10493 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/zi4/m/sl/10 https : / / johnmchambers . su . domains / [1385] Underfull \hbox (badness 1852) in paragraph at lines 10568--10572 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1386] [1387] [1388] [1389]) (./parallel-pkg.tex [1390] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/sl/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [] []RNG[][][]: see [1391] [1392] [1393] [1394] [1395] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1396] [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 3386) in paragraph at lines 1400--1403 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/sl/10 .Random.seed []\T1/ptm/m/n/10 when the [1413] [1414]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/sl/10 \T1/ptm /m/n/10 and William N. Ven-ables [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430]) (./stats-pkg.tex Chapter 10. [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] Underfull \hbox (badness 1412) in paragraph at lines 901--903 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/sl/10 lm []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 aov[]\T1/ptm/m/n/10 , or a for-mula fo r [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] Underfull \hbox (badness 2503) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2503) in paragraph at lines 3557--3560 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1487] [1488] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3670. [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 3989) in paragraph at lines 4816--4823 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 2556) in paragraph at lines 5470--5473 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/sl/10 "circular"[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "filter"[]\T1/ptm/m/n/10 . For [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \hbox (badness 2503) in paragraph at lines 5882--5886 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 7081) in paragraph at lines 6674--6677 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/sl/10 "hclust" []\T1/ptm/m/n/10 c an be con-verted to class []\T1/zi4/m/sl/10 "dendrogram" []\T1/ptm/m/n/10 us-in g method Underfull \hbox (badness 10000) in paragraph at lines 6678--6680 []\T1/zi4/m/sl/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro- gram []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1537] [1538] [1539] [1540] [1541] [1542] Underfull \vbox (badness 10000) has occurred while \output is active [1543] [1544] [1545] Underfull \vbox (badness 10000) has occurred while \output is active [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 10000) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/sl/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1551] [1552] [1553] [1554] [1555] [1556] Underfull \vbox (badness 3803) has occurred while \output is active [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] Underfull \vbox (badness 3803) has occurred while \output is active [1573] [1574] [1575] [1576] [1577] [1578] Underfull \hbox (badness 2626) in paragraph at lines 9271--9274 []\T1/ptm/m/n/10 Either []\T1/zi4/m/sl/10 "convolution" []\T1/ptm/m/n/10 or []\ T1/zi4/m/sl/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1579] Underfull \hbox (badness 2503) in paragraph at lines 9378--9382 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 4518) in paragraph at lines 10733--10738 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2142) in paragraph at lines 11095--11098 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1606] Underfull \hbox (badness 1253) in paragraph at lines 11114--11117 []\T1/ptm/m/n/10 When []\T1/zi4/m/sl/10 trace []\T1/ptm/m/n/10 is true, calls t o [][][]\T1/zi4/m/sl/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for eac h IWLS it-er-a-tion. Hence, [1607] Underfull \hbox (badness 1708) in paragraph at lines 11176--11180 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1694) in paragraph at lines 11572--11575 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12053 \aliasA{hat}{influence.measures}{hat} [1622] [1623] Underfull \hbox (badness 1484) in paragraph at lines 12198--12200 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/sl/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1624] Underfull \vbox (badness 3803) has occurred while \output is active [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] Underfull \hbox (badness 10000) in paragraph at lines 12785--12787 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/sl/10 solve.d efault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/sl/10 SSinit = [1634] [1635] [1636] [1637] [1638] Underfull \hbox (badness 2894) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1639] [1640] [1641] [1642] [1643] [1644] [1645] Underfull \hbox (badness 1496) in paragraph at lines 13555--13561 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1646] [1647] [1648] [1649] [1650] [1651] Underfull \hbox (badness 4518) in paragraph at lines 13958--13963 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] Underfull \hbox (badness 4518) in paragraph at lines 14620--14625 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1662] [1663] [1664] Underfull \hbox (badness 6412) in paragraph at lines 14760--14764 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/sl/10 (surface = "int erpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14767--14769 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/sl/10 family []\T1/ptm/m/n/10 is [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] Underfull \hbox (badness 2503) in paragraph at lines 15843--15847 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] Underfull \hbox (badness 10000) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 model. response(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/sl/10 model.offset []\ T1/ptm/m/n/10 sums any terms [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] [1716] [1717] Underfull \hbox (badness 1158) in paragraph at lines 18014--18017 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/sl/10 nls []\T 1/ptm/m/n/10 as the data ar-gu-ment. The ac- [1718] [1719] Underfull \vbox (badness 10000) has occurred while \output is active [1720] Underfull \vbox (badness 10000) has occurred while \output is active [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 1377) in paragraph at lines 19057--19062 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 19062--19065 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 19075--19079 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 19075--19079 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/sl/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 19083--19087 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/sl/10 "BFGS"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 "SANN" []\T1/ptm/m/n/10 meth-ods if [1735] [1736] [1737] Underfull \vbox (badness 10000) has occurred while \output is active [1738] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19308--19308 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19311--19311 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \hbox (badness 1337) in paragraph at lines 19773--19776 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] Underfull \hbox (badness 10000) in paragraph at lines 20242--20248 \T1/zi4/m/sl/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 s distance", lty = cook.lty, col = cook.col, text.col [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 1194) in paragraph at lines 20669--20672 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1762] [1763] [1764] [1765] [1766] [1767] Underfull \hbox (badness 2503) in paragraph at lines 21047--21050 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 21074--21076 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/sl/10 "Exact Poisson test" []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 "Comparison of Poisson [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 10000) in paragraph at lines 22152--22158 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/sl/10 predict.ar [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 predict.Arima[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/sl/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 1337) in paragraph at lines 23628--23634 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] Underfull \hbox (badness 1436) in paragraph at lines 24118--24121 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/sl/10 max(2, [1819] Underfull \hbox (badness 10000) in paragraph at lines 24256--24257 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . o rg / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] Underfull \hbox (badness 1824) in paragraph at lines 25226--25232 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 25226--25232 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1836] Underfull \hbox (badness 10000) in paragraph at lines 25247--25250 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/sl/10 y = runmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/sl/10 y[j] = [1837] [1838] [1839] [1840] [1841] [1842] [1843] [1844] [1845] Underfull \hbox (badness 2165) in paragraph at lines 25822--25827 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/sl/10 "selfStart" []\T 1/ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/sl/10 SSasymp[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1846] [1847] [1848] [1849] Underfull \hbox (badness 1867) in paragraph at lines 26032--26034 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 26048--26052 []\T1/ptm/m/n/10 where []\T1/zi4/m/sl/10 NN <- [][]nobs[][][](object, use.fallb ack = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 PP <- [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \vbox (badness 10000) has occurred while \output is active [1875] [1876] Underfull \hbox (badness 3514) in paragraph at lines 27700--27705 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1877] [1878] [1879] [1880] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27934--27934 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27970--27976 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1881] Overfull \hbox (14.22568pt too wide) in paragraph at lines 28030--28030 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1882] [1883] [1884] [1885] Underfull \hbox (badness 3514) in paragraph at lines 28203--28208 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1886] Underfull \hbox (badness 3514) in paragraph at lines 28290--28295 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1887] Underfull \hbox (badness 3514) in paragraph at lines 28355--28360 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1888] [1889] Underfull \hbox (badness 3514) in paragraph at lines 28449--28454 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1890] [1891] Underfull \hbox (badness 6691) in paragraph at lines 28541--28546 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 x[] \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 4024) in paragraph at lines 29028--29031 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] [1908] [1909] Underfull \hbox (badness 5431) in paragraph at lines 29631--29633 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1910] [1911] [1912] Underfull \hbox (badness 5431) in paragraph at lines 29841--29844 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1913] [1914] [1915] [1916] [1917] [1918] Underfull \hbox (badness 1337) in paragraph at lines 30156--30160 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1919] [1920] Underfull \hbox (badness 1127) in paragraph at lines 30293--30296 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for []\T1/zi4/m/sl/10 rt()[]\T1/ptm/m/n/10 , ac-cu-rate only for [1921] [1922] [1923] Underfull \hbox (badness 1616) in paragraph at lines 30499--30502 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944] Underfull \hbox (badness 3557) in paragraph at lines 31726--31730 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/sl/10 extendInt []\T1/ptm/m/n/10 to a non- []\T1/zi4/m/sl/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-re ct []\T1/zi4/m/sl/10 interval = [1945] [1946] [1947] Underfull \vbox (badness 10000) has occurred while \output is active [1948] [1949] [1950] Underfull \hbox (badness 1337) in paragraph at lines 32093--32097 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] Underfull \hbox (badness 1337) in paragraph at lines 32621--32625 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1960] [1961] [1962] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32829--32829 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1963] [1964] [1965] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32990--32990 [] \T1/zi4/m/sl/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.ep s = getOption("ts.eps"), ...)[] [1966] [1967] [1968] [1969] [1970]) (./stats4-pkg.tex Chapter 11. [1971] [1972] [1973] Underfull \vbox (badness 10000) has occurred while \output is active [1974] Underfull \vbox (badness 10000) has occurred while \output is active [1975] [1976] [1977] [1978] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1979] [1980] [1981]) (./tcltk-pkg.tex [1982] Chapter 12. [1983] [1984] [1985] [1986] [1987] [1988] [1989] Underfull \vbox (badness 10000) has occurred while \output is active [1990] Underfull \vbox (badness 10000) has occurred while \output is active [1991] Underfull \hbox (badness 1546) in paragraph at lines 672--679 []\T1/zi4/m/sl/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call- ing any Tk or Tcl com-mand by sim-ply run-ning [1992] [1993] [1994] [1995] [1996] Underfull \vbox (badness 10000) has occurred while \output is active [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004]) (./tools-pkg.tex Chapter 13. [2005] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [2006] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/sl/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing wil l be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [2007] [2008] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/sl/10 b ibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 format InProceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatManual[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatPhdthesi s[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 formatTechreport []\T1/ptm/m/n/10 and [2009] [2010] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gi ne to use. Over-rides any [2011] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [2012] [2013] [2014] [2015] [2016] [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] Underfull \hbox (badness 1014) in paragraph at lines 1220--1222 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1226--1228 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [2025] Underfull \hbox (badness 10000) in paragraph at lines 1263--1266 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1263--1266 []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [2026] [2027] [2028] [2029] [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 1637--1640 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/sl/10 CRAN_aliases_db[]\T1/ptm /m/n/10 , []\T1/zi4/m/sl/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 CRAN_current_db []\T1/ptm/m/n/10 and [2032] [2033] Underfull \hbox (badness 4096) in paragraph at lines 1756--1764 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1766--1768 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 for all known trees (see [2034] [2035] [2036] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1967 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.1968 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2037] [2038] [2039] [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 3386) in paragraph at lines 2442--2445 []\T1/ptm/m/n/10 The de-fault method of []\T1/zi4/m/sl/10 as.Rconcordance []\T1 /ptm/m/n/10 searches for strings match-ing the pat-tern of [2045] [2046] Underfull \hbox (badness 4096) in paragraph at lines 2582--2590 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1424) in paragraph at lines 3516--3518 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] [2072] Underfull \hbox (badness 10000) in paragraph at lines 4232--4234 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 4388--4391 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/sl/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/sl/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2076] [2077] [2078] [2079] [2080] Underfull \hbox (badness 1796) in paragraph at lines 4745--4750 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/sl/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/sl/10 type = = [2081] [2082] Underfull \hbox (badness 1838) in paragraph at lines 4831--4837 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4831--4837 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2083] [2084] [2085] [2086] Underfull \hbox (badness 2197) in paragraph at lines 5112--5122 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/sl/10 available.packages[][][][]\T1/ptm/m/n/10 : [2087] Underfull \hbox (badness 1571) in paragraph at lines 5178--5182 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2088] [2089] [2090] [2091]) (./utils-pkg.tex [2092] Chapter 14. [2093] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/sl/10 insertions[]\T1/ptm/m/n/10 ', [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] Underfull \hbox (badness 10000) in paragraph at lines 728--734 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/sl/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/sl/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 728--734 []\T1/zi4/m/sl/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2104] [2105] [2106] Underfull \hbox (badness 3861) in paragraph at lines 934--939 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/sl/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 1139--1141 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2110] [2111] [2112] Underfull \vbox (badness 10000) has occurred while \output is active [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1371) in paragraph at lines 1666--1668 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 2057) in paragraph at lines 2386--2388 []\T1/ptm/m/n/10 None for []\T1/zi4/m/sl/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2130] Underfull \hbox (badness 2150) in paragraph at lines 2461--2468 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/zi4/m/sl/10 citation() []\T1 /ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2461--2468 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2131] [2132] [2133] Underfull \vbox (badness 3803) has occurred while \output is active [2134] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2738 ... the Clipboard in MS Windows}{clipboard} [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] Underfull \hbox (badness 6842) in paragraph at lines 4048--4053 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/sl/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2156] Underfull \hbox (badness 1430) in paragraph at lines 4111--4115 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/sl/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2157] Underfull \hbox (badness 1184) in paragraph at lines 4182--4198 []\T1/ptm/m/n/10 On Win-dows with []\T1/zi4/m/sl/10 method = "libcurl"[]\T1/ptm /m/n/10 , the CA root cer-tifi-cates are pro-vided by the OS Underfull \hbox (badness 1019) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 con-tain-ing `[]\T1/zi4/m/sl/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-ment vari- Underfull \hbox (badness 1668) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 able []\T1/zi4/m/sl/10 CURL_CA_BUNDLE []\T1/ptm/m/n/10 must be s et to a path to a cer-tifi-cate bun-dle file, usu-ally named [2158] [2159] Underfull \hbox (badness 10000) in paragraph at lines 4332--4334 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/sl/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2160] [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] Underfull \hbox (badness 1622) in paragraph at lines 5634--5638 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2181] [2182] [2183] [2184] [2185] [2186] Underfull \hbox (badness 1448) in paragraph at lines 6019--6024 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] Underfull \hbox (badness 1371) in paragraph at lines 6567--6569 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2195] [2196] Underfull \hbox (badness 1502) in paragraph at lines 6656--6662 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6656--6662 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2197] [2198] Underfull \hbox (badness 10000) in paragraph at lines 6833--6842 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 3354) in paragraph at lines 6833--6842 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R_DOC_DIR\T1/zi4/m/sl/10 /html/packages.html\T1 /ptm/m/n/10 ', which can be re-made by [][][]\T1/zi4/m/sl/10 make.packages.html [][][]()[]\T1/ptm/m/n/10 . [2199] Underfull \hbox (badness 2150) in paragraph at lines 6895--6898 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2200] [2201] Underfull \hbox (badness 3118) in paragraph at lines 7034--7036 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2202] [2203] [2204] Underfull \hbox (badness 1325) in paragraph at lines 7213--7217 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/sl/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2205] Underfull \hbox (badness 1424) in paragraph at lines 7305--7308 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2206] Underfull \hbox (badness 3219) in paragraph at lines 7377--7384 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/s l/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7377--7384 [][][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7385--7388 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/sl/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2207] [2208] Underfull \hbox (badness 1024) in paragraph at lines 7514--7517 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/sl/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 , ] []\T1/ ptm/m/n/10 will Underfull \hbox (badness 10000) in paragraph at lines 7547--7552 [][][]\T1/zi4/m/sl/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2209] Underfull \hbox (badness 5133) in paragraph at lines 7606--7610 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 10000) in paragraph at lines 8270--8272 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/sl/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2221] [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Underfull \hbox (badness 2310) in paragraph at lines 9057--9062 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2234] [2235] [2236] [2237] [2238] [2239] [2240] [2241] [2242] Underfull \hbox (badness 1248) in paragraph at lines 9628--9632 []\T1/zi4/m/sl/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2243] Underfull \hbox (badness 1789) in paragraph at lines 9706--9708 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2244] [2245] [2246] [2247] Underfull \hbox (badness 2600) in paragraph at lines 9930--9933 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic; de-faults to [2248] [2249] [2250] [2251] [2252] [2253] [2254] [2255] [2256] Underfull \hbox (badness 1097) in paragraph at lines 10567--10570 []\T1/ptm/m/n/10 The name []\T1/zi4/m/sl/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2257] [2258] Underfull \hbox (badness 3000) in paragraph at lines 10703--10708 [][][]\T1/zi4/m/sl/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ sl/10 read.table[][][][]\T1/ptm/m/n/10 ; [2259] [2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] Underfull \hbox (badness 2134) in paragraph at lines 11298--11303 [][][]\T1/zi4/m/sl/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ sl/10 write.table[][][][]\T1/ptm/m/n/10 ; [2268] Underfull \hbox (badness 10000) in paragraph at lines 11354--11359 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11354--11359 []\T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2269] [2270] [2271] [2272] [2273] [2274] [2275] [2276] Underfull \hbox (badness 1824) in paragraph at lines 11852--11856 \T1/zi4/m/sl/10 / / en . wikipedia . org / w / index . php ? title = Roman _ nu merals & oldid = 1188781837$[][]\T1/ptm/m/n/10 . Ac-cessed [2277] [2278] [2279] [2280] [2281] [2282] [2283] Underfull \hbox (badness 4060) in paragraph at lines 12297--12300 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/sl/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/sl/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12320--12320 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2284] [2285] [2286] [2287] Underfull \hbox (badness 2150) in paragraph at lines 12575--12577 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2288] [2289] [2290] [2291] Underfull \hbox (badness 10000) in paragraph at lines 12795--12799 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/sl/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12828--12834 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2292] Underfull \hbox (badness 2762) in paragraph at lines 12843--12849 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2293] [2294] Underfull \hbox (badness 1009) in paragraph at lines 13018--13030 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 13058--13060 []\T1/ptm/m/n/10 The file `\T1/zi4/m/sl/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/sl/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2295] Underfull \hbox (badness 1077) in paragraph at lines 13088--13095 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2296] [2297] [2298] [2299] [2300] [2301] Underfull \hbox (badness 3780) in paragraph at lines 13513--13519 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/sl/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via [2302] Underfull \hbox (badness 2635) in paragraph at lines 13531--13534 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/sl/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2303] [2304] [2305] Underfull \hbox (badness 2302) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 Convert file paths to the short form. 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Ob- [2318] [2319] [2320] Underfull \hbox (badness 1460) in paragraph at lines 14644--14653 \T1/ptm/m/n/10 drives can be in-cluded in filepaths). []\T1/zi4/m/sl/10 Rtools []\T1/ptm/m/n/10 4 and ear-lier in-cluded a []\T1/zi4/m/sl/10 tar []\T1/ptm/m/n /10 which used Underfull \hbox (badness 1019) in paragraph at lines 14662--14674 []\T1/ptm/m/n/10 For GNU []\T1/zi4/m/sl/10 tar[]\T1/ptm/m/n/10 , `[]\T1/zi4/m/s l/10 --format=ustar[]\T1/ptm/m/n/10 ' forces a more portable for-mat. 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Transcript written on refman.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-admin.texi @setfilename R-admin.info This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.t2d/pdf/xtr/R-admin.t exi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-admin.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] Cross reference values unknown; you must run TeX again. [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] Chapter 3 [16] Underfull \hbox (badness 10000) in paragraph at lines 1434--1440 @textrm (@texttt https:// CRAN. R-project. org/ bin/ windows/ Rtools/ rt ools44/ rtools. html[]@textrm )[]. [17] [18] Chapter 4 [19] [20] [21] Chapter 5 [22] Chapter 6 [23] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1904--1904 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [24] [25] Underfull \hbox (badness 6842) in paragraph at lines 2136--2144 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [26] Overfull \hbox (37.93651pt too wide) in paragraph at lines 2210--2210 []@texttt FLIBS = -L/Library/Frameworks/R.framework/Resources/lib -lgfortran - lquadmath[] [27] [28] Underfull \hbox (badness 10000) in paragraph at lines 2326--2331 @textrm (avoiding @texttt autoconf[]@textrm 's de-fault @texttt -g[]@textrm ). As from R 4.3.0, @texttt R CMD INSTALL[] @textrm and [29] [30] [31] Underfull \hbox (badness 10000) in paragraph at lines 2608--2614 []@texttt "mac.binary"[]@textrm : lo-cated at @texttt bin/macosx/big-sur-arm64 /contrib/@textttsl 4.y[] @textrm or [32] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2662--2662 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl libdir @textt t --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [33] [34] [35] Chapter 8 [36] Chapter 9 [37] [38] [39] Appendix A [40] [41] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3230--3230 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [42] [43] [44] Underfull \hbox (badness 10000) in paragraph at lines 3444--3446 []@textrm Library @texttt libdeflate[] @textrm ([][]@texttt https:// github. com/ ebiggers/ libdeflate[][]@textrm ) is used by [45] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3541--3541 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.322.b06-6.fc34.x86_6 4/jre[] [46] [47] [48] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4888--4888 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSER TIONS[] [65] [66] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5089--5089 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] [67] Overfull \hbox (122.85329pt too wide) in paragraph at lines 5191--5191 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/arm64/pcre2-10.42-da rwin.20-arm64.tar.xz[] Overfull \hbox (105.60722pt too wide) in paragraph at lines 5193--5193 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/arm64/xz-5.4.2-darwi n.20-arm64.tar.xz[] [68] Overfull \hbox (60.93126pt too wide) in paragraph at lines 5314--5314 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.1-darwin.20 -arm64.tar.gz[] [69] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5321--5321 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] Overfull \hbox (170.15633pt too wide) in paragraph at lines 5351--5351 [] @texttt could not create compact unwind for _arcoef_: registers 23 and 24 not saved contiguously in frame[] Overfull \hbox (38.79282pt too wide) in paragraph at lines 5360--5361 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][]@smallrm .| [70] [71] [72] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5632--5632 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][]| [73] Overfull \hbox (9.18199pt too wide) in paragraph at lines 1--5665 @texttt OpenMathLib/ OpenBLAS/ releases[][]@textrm ) by sym-link-ing @texttt /opt/OpenBLAS/lib/libopenblas.dylib[] [74] [75] [76] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5898--5898 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libgfortran.5. dylib \[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5903--5903 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libquadmath.0. dylib \[] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5921--5921 []@texttt PKG_LIBS = /usr/local/llvm/lib/libc++.a /usr/local/llvm/lib/libc++ab i.a[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 5944--5944 []@texttt FC="/opt//gfortran/bin/gfortran -arch x86_64 -mtune=native -mmacosx- version-min=11"[] [77] [78] (Function and variable index) [79] No file R-admin.vrs. (Concept index) [80] No file R-admin.cps. (Environment variable index) [81] No file R-admin.ens. [82] ) (see the transcript file for additional information) pdfTeX warning (dest): name{\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not exist, replaced by a fixed one Output written on R-admin.pdf (85 pages, 471737 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.t2d/pdf/xtr/R-admin.t exi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-admin.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.toc [-1] [-2]) [-3] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.toc) Chapter 1 (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] Chapter 3 [16] Underfull \hbox (badness 10000) in paragraph at lines 1434--1440 @textrm (@texttt https:// CRAN. R-project. org/ bin/ windows/ Rtools/ rt ools44/ rtools. html[]@textrm )[]. [17] [18] Chapter 4 [19] [20] [21] Chapter 5 [22] Chapter 6 [23] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1904--1904 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [24] [25] Underfull \hbox (badness 6842) in paragraph at lines 2136--2144 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [26] Overfull \hbox (37.93651pt too wide) in paragraph at lines 2210--2210 []@texttt FLIBS = -L/Library/Frameworks/R.framework/Resources/lib -lgfortran - lquadmath[] [27] [28] Underfull \hbox (badness 10000) in paragraph at lines 2326--2331 @textrm (avoiding @texttt autoconf[]@textrm 's de-fault @texttt -g[]@textrm ). As from R 4.3.0, @texttt R CMD INSTALL[] @textrm and [29] [30] [31] Underfull \hbox (badness 10000) in paragraph at lines 2608--2614 []@texttt "mac.binary"[]@textrm : lo-cated at @texttt bin/macosx/big-sur-arm64 /contrib/@textttsl 4.y[] @textrm or [32] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2662--2662 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl libdir @textt t --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [33] [34] [35] Chapter 8 [36] Chapter 9 [37] [38] [39] Appendix A [40] [41] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3230--3230 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [42] [43] [44] Underfull \hbox (badness 10000) in paragraph at lines 3444--3446 []@textrm Library @texttt libdeflate[] @textrm ([][]@texttt https:// github. com/ ebiggers/ libdeflate[][]@textrm ) is used by [45] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3541--3541 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.322.b06-6.fc34.x86_6 4/jre[] [46] [47] [48] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4888--4888 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSER TIONS[] [65] [66] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5089--5089 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] [67] Overfull \hbox (122.85329pt too wide) in paragraph at lines 5191--5191 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/arm64/pcre2-10.42-da rwin.20-arm64.tar.xz[] Overfull \hbox (105.60722pt too wide) in paragraph at lines 5193--5193 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/arm64/xz-5.4.2-darwi n.20-arm64.tar.xz[] [68] l.5240: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5240: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5240: Undefined cross reference ` Tcl/Tk headers and libraries-pg'. Overfull \hbox (60.93126pt too wide) in paragraph at lines 5314--5314 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.1-darwin.20 -arm64.tar.gz[] [69] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5321--5321 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] Overfull \hbox (170.15633pt too wide) in paragraph at lines 5351--5351 [] @texttt could not create compact unwind for _arcoef_: registers 23 and 24 not saved contiguously in frame[] Overfull \hbox (38.79282pt too wide) in paragraph at lines 5360--5361 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][]@smallrm .| [70] [71] [72] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5632--5632 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][]| [73] Overfull \hbox (9.18199pt too wide) in paragraph at lines 1--5665 @texttt OpenMathLib/ OpenBLAS/ releases[][]@textrm ) by sym-link-ing @texttt /opt/OpenBLAS/lib/libopenblas.dylib[] [74] [75] [76] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5898--5898 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libgfortran.5. dylib \[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5903--5903 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libquadmath.0. dylib \[] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5921--5921 []@texttt PKG_LIBS = /usr/local/llvm/lib/libc++.a /usr/local/llvm/lib/libc++ab i.a[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 5944--5944 []@texttt FC="/opt//gfortran/bin/gfortran -arch x86_64 -mtune=native -mmacosx- version-min=11"[] [77] [78] (Function and variable index) [79] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.vrs) (Concept index) [80] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.cps) (Environment variable index) [81] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.ens) [82] ) (see the transcript file for additional information) pdfTeX warning (dest): name{\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not exist, replaced by a fixed one Output written on R-admin.pdf (87 pages, 514589 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.t2d/pdf/xtr/R-admin.t exi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-admin.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.toc [-1] [-2]) [-3] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.toc) Chapter 1 (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] Chapter 3 [16] Underfull \hbox (badness 10000) in paragraph at lines 1434--1440 @textrm (@texttt https:// CRAN. R-project. org/ bin/ windows/ Rtools/ rt ools44/ rtools. html[]@textrm )[]. [17] [18] Chapter 4 [19] [20] [21] Chapter 5 [22] Chapter 6 [23] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1904--1904 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [24] [25] Underfull \hbox (badness 6842) in paragraph at lines 2136--2144 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [26] Overfull \hbox (37.93651pt too wide) in paragraph at lines 2210--2210 []@texttt FLIBS = -L/Library/Frameworks/R.framework/Resources/lib -lgfortran - lquadmath[] [27] [28] Underfull \hbox (badness 10000) in paragraph at lines 2326--2331 @textrm (avoiding @texttt autoconf[]@textrm 's de-fault @texttt -g[]@textrm ). As from R 4.3.0, @texttt R CMD INSTALL[] @textrm and [29] [30] [31] Underfull \hbox (badness 10000) in paragraph at lines 2608--2614 []@texttt "mac.binary"[]@textrm : lo-cated at @texttt bin/macosx/big-sur-arm64 /contrib/@textttsl 4.y[] @textrm or [32] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2662--2662 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl libdir @textt t --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [33] [34] [35] Chapter 8 [36] Chapter 9 [37] [38] [39] Appendix A [40] [41] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3230--3230 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [42] [43] [44] Underfull \hbox (badness 10000) in paragraph at lines 3444--3446 []@textrm Library @texttt libdeflate[] @textrm ([][]@texttt https:// github. com/ ebiggers/ libdeflate[][]@textrm ) is used by [45] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3541--3541 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.322.b06-6.fc34.x86_6 4/jre[] [46] [47] [48] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4888--4888 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSER TIONS[] [65] [66] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5089--5089 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] [67] Overfull \hbox (122.85329pt too wide) in paragraph at lines 5191--5191 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/arm64/pcre2-10.42-da rwin.20-arm64.tar.xz[] Overfull \hbox (105.60722pt too wide) in paragraph at lines 5193--5193 []@texttt curl -OL https://mac.r-project.org/bin/darwin20/arm64/xz-5.4.2-darwi n.20-arm64.tar.xz[] [68] l.5240: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5240: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5240: Undefined cross reference ` Tcl/Tk headers and libraries-pg'. Overfull \hbox (60.93126pt too wide) in paragraph at lines 5314--5314 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.1-darwin.20 -arm64.tar.gz[] [69] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5321--5321 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] Overfull \hbox (170.15633pt too wide) in paragraph at lines 5351--5351 [] @texttt could not create compact unwind for _arcoef_: registers 23 and 24 not saved contiguously in frame[] Overfull \hbox (38.79282pt too wide) in paragraph at lines 5360--5361 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][]@smallrm .| [70] [71] [72] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5632--5632 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][]| [73] Overfull \hbox (9.18199pt too wide) in paragraph at lines 1--5665 @texttt OpenMathLib/ OpenBLAS/ releases[][]@textrm ) by sym-link-ing @texttt /opt/OpenBLAS/lib/libopenblas.dylib[] [74] [75] [76] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5898--5898 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libgfortran.5. dylib \[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5903--5903 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/12.2.0/libquadmath.0. dylib \[] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5921--5921 []@texttt PKG_LIBS = /usr/local/llvm/lib/libc++.a /usr/local/llvm/lib/libc++ab i.a[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 5944--5944 []@texttt FC="/opt//gfortran/bin/gfortran -arch x86_64 -mtune=native -mmacosx- version-min=11"[] [77] [78] (Function and variable index) [79] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.vrs) (Concept index) [80] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.cps) (Environment variable index) [81] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-admin.ens) [82] ) (see the transcript file for additional information) pdfTeX warning (dest): name{\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not exist, replaced by a fixed one Output written on R-admin.pdf (87 pages, 514593 bytes). Transcript written on R-admin.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-data.texi @setfilename R-data.info This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.t2d/pdf/xtr/R-data.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-data.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) [1] Chapter 1 [2] Writing index file R-data.cp Cross reference values unknown; you must run TeX again. [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 442--445 []@textrm Function @texttt write.matrix[] @textrm in pack-age [][]@textbf MASS @textrm (@texttt https:// CRAN. R-project. org/ Underfull \hbox (badness 10000) in paragraph at lines 453--457 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] Underfull \hbox (badness 10000) in paragraph at lines 1227--1239 @textrm (@texttt https:// www. ibm. com/ products/ informix[]@textrm )[]; [][]Oracle (@texttt https:// www. oracle. com[]@textrm )[]; Underfull \hbox (badness 10000) in paragraph at lines 1227--1239 @textrm (@texttt https:// www. microsoft. com/ sql-server/ []@textrm )[] o n Win-dows) and aca-demic and [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1800--1806 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] No file R-data.vrs. (Concept index) [34] No file R-data.cps. [35] ) (see the transcript file for additional information) Output written on R-data.pdf (38 pages, 266575 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.t2d/pdf/xtr/R-data.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-data.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.toc [-1]) [-2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.toc) (Acknowledgements) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.aux ) [1] Chapter 1 [2] Writing index file R-data.cp [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 442--445 []@textrm Function @texttt write.matrix[] @textrm in pack-age [][]@textbf MASS @textrm (@texttt https:// CRAN. R-project. org/ Underfull \hbox (badness 10000) in paragraph at lines 453--457 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] Underfull \hbox (badness 10000) in paragraph at lines 1227--1239 @textrm (@texttt https:// www. ibm. com/ products/ informix[]@textrm )[]; [][]Oracle (@texttt https:// www. oracle. com[]@textrm )[]; Underfull \hbox (badness 10000) in paragraph at lines 1227--1239 @textrm (@texttt https:// www. microsoft. com/ sql-server/ []@textrm )[] o n Win-dows) and aca-demic and [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1800--1806 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.vrs [34]) (Concept index) [35] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.cps) [36] [37] ) (see the transcript file for additional information) Output written on R-data.pdf (41 pages, 302822 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.t2d/pdf/xtr/R-data.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-data.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.toc [-1]) [-2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.toc) (Acknowledgements) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.aux ) [1] Chapter 1 [2] Writing index file R-data.cp [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 442--445 []@textrm Function @texttt write.matrix[] @textrm in pack-age [][]@textbf MASS @textrm (@texttt https:// CRAN. R-project. org/ Underfull \hbox (badness 10000) in paragraph at lines 453--457 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] Underfull \hbox (badness 10000) in paragraph at lines 1227--1239 @textrm (@texttt https:// www. ibm. com/ products/ informix[]@textrm )[]; [][]Oracle (@texttt https:// www. oracle. com[]@textrm )[]; Underfull \hbox (badness 10000) in paragraph at lines 1227--1239 @textrm (@texttt https:// www. microsoft. com/ sql-server/ []@textrm )[] o n Win-dows) and aca-demic and [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1800--1806 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.vrs [34]) (Concept index) [35] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-data.cps) [36] [37] ) (see the transcript file for additional information) Output written on R-data.pdf (41 pages, 302832 bytes). Transcript written on R-data.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-exts.texi @setfilename R-exts.info This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.t2d/pdf/xtr/R-exts.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-exts.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Writing index file R-exts.cp Cross reference values unknown; you must run TeX again. [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 508--511 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Underfull \hbox (badness 10000) in paragraph at lines 1318--1319 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1319--1320 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1322--1324 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars- Underfull \hbox (badness 10000) in paragraph at lines 1324--1326 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1332--1333 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1333--1334 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1336--1338 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars- Underfull \hbox (badness 10000) in paragraph at lines 1338--1340 @texttt ~/.R/Makevars.win64[]@textrm , [17] [18] [19] [20] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1602--1602 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1603--1603 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1604--1604 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [21] Underfull \hbox (badness 10000) in paragraph at lines 1635--1642 @texttt org/ package=amap[]@textrm )[]), Python or Tcl ([][]@textbf Simile @te xtrm (@texttt https:// CRAN. R-project. org/ [22] [23] [24] [25] [26] Overfull \hbox (32.18782pt too wide) in paragraph at lines 2041--2041 []@texttt $ pkg-config --exists libtiff-4 >= 4.1.0 --print-errors # check the status[] [27] [28] [29] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2285--2285 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [30] [31] [32] [33] [34] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2692--2692 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2694--2694 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [35] [36] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2832--2832 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [37] [38] [39] Underfull \hbox (badness 7221) in paragraph at lines 3045--3051 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][] @smallrm or [40] Overfull \hbox (60.93126pt too wide) in paragraph at lines 3132--3132 [] @texttt CXX="$(CXX17) $(CXX17STD)" CXXFLAGS="$(CXX17FLAGS) $(CXX 17PICFLAGS)")[] [41] [42] [43] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3377--3377 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4777--4777 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [62] [63] [64] Overfull \hbox (81.29893pt too wide) in paragraph at lines 5013--5013 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 5032--5032 []@texttt CXXFLAGS = ^^R"${RBIN}" CMD config CXXFLAGS^^R ^^R"${RBIN}" CMD conf ig CXXPICFLAGS^^R[] [65] [66] [67] [68] [69] [70] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5499--5499 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5501--5501 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5502--5502 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5517--5517 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [71] [72] [73] [74] [75] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5897--5897 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [76] [77] [78] Underfull \hbox (badness 10000) in paragraph at lines 6059--6062 @texttt gcc/ C-Extensions. html[][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [79] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6137--6137 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [80] [81] Overfull \hbox (53.86903pt too wide) in paragraph at lines 6283--6283 []@texttt register storage class specifier is deprecated and incompatible with C++17[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6348--6348 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [82] Overfull \hbox (48.12035pt too wide) in paragraph at lines 6425--6425 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] [83] Overfull \hbox (25.1256pt too wide) in paragraph at lines 6437--6437 []@texttt warning: argument 1 value 18446744073709551615 exceeds maximum object[] Overfull \hbox (94.10985pt too wide) in paragraph at lines 6452--6452 [] @texttt error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj), ( double) nelem);[] Underfull \hbox (badness 10000) in paragraph at lines 6485--6486 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [84] [85] [86] [87] [88] [89] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6940--6940 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [90] [91] Chapter 2 [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] Underfull \hbox (badness 10000) in paragraph at lines 8216--8223 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [106] [107] [108] Underfull \hbox (badness 10000) in paragraph at lines 8428--8433 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt TRUE[] @textit and [109] [110] [111] Chapter 3 [112] [113] [114] [115] [116] [117] [118] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9199--9199 []@texttt 5497 1.9783 R findVarLocInFrame.part.0. lto_priv.0[] [119] Chapter 4 [120] [121] [122] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9471--9471 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [123] Overfull \hbox (25.25755pt too wide) in paragraph at lines 9512--9512 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [124] Overfull \hbox (20.53261pt too wide) in paragraph at lines 9616--9616 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 9646--9655 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [125] [126] [127] [128] Underfull \hbox (badness 10000) in paragraph at lines 9916--9928 @texttt controlling-code-generation[][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9932--9933 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [129] [130] Overfull \hbox (78.17732pt too wide) in paragraph at lines 10071--10071 []@texttt setenv ASAN_OPTIONS alloc_dealloc_mismatch=0:detect_leaks=0:detect_odr_violation=0 [] Overfull \hbox (33.15736pt too wide) in paragraph at lines 10104--10107 []@textrm This san-i-tizer may be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [131] Underfull \hbox (badness 10000) in paragraph at lines 10203--10207 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][] [132] Overfull \hbox (112.66945pt too wide) in paragraph at lines 10219--10219 []@texttt CC = clang -fsanitize=undefined -fno-sanitize=float-divide-by-zero - fno-omit-frame-pointer[] Overfull \hbox (170.15633pt too wide) in paragraph at lines 10220--10220 []@texttt CXX = clang++ -fsanitize=undefined -fno-sanitize=float-divide-by-zer o -fno-omit-frame-pointer -frtti[] Overfull \hbox (181.6537pt too wide) in paragraph at lines 10223--10223 []@texttt SAN_LIBS = $(UBSAN_DIR)/libclang_rt.ubsan_standalone.a $(UBSAN_DIR)/ libclang_rt.ubsan_standalone_cxx.a[] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10231--10231 []@texttt SAN_LIBS = -L$(UBSAN_DIR) -Wl,-rpath,$(UBSAN_DIR) -lclang_rt.ubsan_s tandalone[] Overfull \hbox (2.03816pt too wide) in paragraph at lines 10263--10267 []@textrm See [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc-10. 1. 0/ gcc/ Static-Analyzer-Options. [133] Overfull \hbox (72.42863pt too wide) in paragraph at lines 10286--10286 []@texttt Fortran runtime error: Index 1 of dimension 1 of array x above upper bound of 0[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10331--10331 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10334--10334 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [134] Overfull \hbox (26.43913pt too wide) in paragraph at lines 10413--10413 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [135] [136] [137] [138] Underfull \hbox (badness 10000) in paragraph at lines 10656--10658 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][]@smallrm : Overfull \hbox (124.16682pt too wide) in paragraph at lines 10723--10723 []@texttt boot.f:61: warning: type of ddot does not match original declaration [-Wlto-type-mismatch][] [139] Overfull \hbox (147.16158pt too wide) in paragraph at lines 10742--10742 []@texttt rkpk2.f:77:5: warning: type of dstup does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (141.41289pt too wide) in paragraph at lines 10753--10753 []@texttt reg.f:78:33: warning: type of dqrdc does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10773--10773 [] @tex ttt 1[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10782--10782 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 10783--10783 []@texttt Warning: Type mismatch in argument jpvt at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] Overfull \hbox (30.87428pt too wide) in paragraph at lines 11599--11599 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 11663--11663 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [151] [152] Overfull \hbox (60.93126pt too wide) in paragraph at lines 11827--11827 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [153] [154] [155] [156] [157] [158] Overfull \hbox (37.93651pt too wide) in paragraph at lines 12264--12264 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13135--13135 [] @texttt if(ign == NA_LOGICAL) error(" ignore_quotes must be TRUE or FALSE");[] [170] Underfull \hbox (badness 10000) in paragraph at lines 13285--13289 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [171] [172] [173] [174] [175] [176] [177] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13849--13849 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [178] [179] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13973--13973 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13978--13978 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [180] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14033--14033 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14046--14046 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [181] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14145--14145 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [182] [183] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14294--14294 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [184] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14385--14385 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [185] [186] Overfull \hbox (72.42863pt too wide) in paragraph at lines 14480--14480 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [187] [188] [189] [190] [191] [192] [193] [194] [195] Overfull \hbox (20.69044pt too wide) in paragraph at lines 15292--15292 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 15310--15315 @texttt com/ content/ www/ us/ en/ docs/ fortran-compiler/ developer-gui de-reference/ [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Underfull \hbox (badness 10000) in paragraph at lines 16043--16047 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [206] Warning: unbalanced parentheses in @def... [207] [208] Overfull \hbox (26.43913pt too wide) in paragraph at lines 16275--16275 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [209] [210] [211] [212] [213] Chapter 7 [214] [215] Chapter 8 [216] [217] [218] Overfull \hbox (43.6852pt too wide) in paragraph at lines 17040--17040 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [219] Overfull \hbox (20.69044pt too wide) in paragraph at lines 17083--17083 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 17098--17098 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [220] [221] [222] [223] [224] [225] [226] [227] [228] (Function and variable index) [229] No file R-exts.vrs. (Concept index) [230] No file R-exts.cps. [231] ) (see the transcript file for additional information) Output written on R-exts.pdf (234 pages, 995883 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.t2d/pdf/xtr/R-exts.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-exts.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.toc) (Acknowledgements) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.aux ) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 508--511 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Underfull \hbox (badness 10000) in paragraph at lines 1318--1319 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1319--1320 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1322--1324 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars- Underfull \hbox (badness 10000) in paragraph at lines 1324--1326 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1332--1333 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1333--1334 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1336--1338 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars- Underfull \hbox (badness 10000) in paragraph at lines 1338--1340 @texttt ~/.R/Makevars.win64[]@textrm , [17] [18] [19] [20] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1602--1602 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1603--1603 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1604--1604 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [21] Underfull \hbox (badness 10000) in paragraph at lines 1635--1642 @texttt org/ package=amap[]@textrm )[]), Python or Tcl ([][]@textbf Simile @te xtrm (@texttt https:// CRAN. R-project. org/ [22] [23] [24] [25] [26] Overfull \hbox (32.18782pt too wide) in paragraph at lines 2041--2041 []@texttt $ pkg-config --exists libtiff-4 >= 4.1.0 --print-errors # check the status[] [27] [28] [29] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2285--2285 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [30] [31] [32] [33] [34] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2692--2692 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2694--2694 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [35] [36] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2832--2832 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [37] [38] [39] Underfull \hbox (badness 7221) in paragraph at lines 3045--3051 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][] @smallrm or [40] Overfull \hbox (60.93126pt too wide) in paragraph at lines 3132--3132 [] @texttt CXX="$(CXX17) $(CXX17STD)" CXXFLAGS="$(CXX17FLAGS) $(CXX 17PICFLAGS)")[] [41] [42] [43] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3377--3377 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4777--4777 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [62] [63] [64] Overfull \hbox (81.29893pt too wide) in paragraph at lines 5013--5013 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 5032--5032 []@texttt CXXFLAGS = ^^R"${RBIN}" CMD config CXXFLAGS^^R ^^R"${RBIN}" CMD conf ig CXXPICFLAGS^^R[] [65] [66] [67] [68] [69] [70] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5499--5499 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5501--5501 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5502--5502 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5517--5517 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [71] [72] [73] [74] [75] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5897--5897 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [76] [77] Underfull \hbox (badness 10000) in paragraph at lines 6059--6062 @texttt gcc/ C-Extensions. html[][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [78] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6137--6137 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [79] [80] Overfull \hbox (53.86903pt too wide) in paragraph at lines 6283--6283 []@texttt register storage class specifier is deprecated and incompatible with C++17[] [81] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6348--6348 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [82] Overfull \hbox (48.12035pt too wide) in paragraph at lines 6425--6425 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] Overfull \hbox (25.1256pt too wide) in paragraph at lines 6437--6437 []@texttt warning: argument 1 value 18446744073709551615 exceeds maximum object[] [83] Overfull \hbox (94.10985pt too wide) in paragraph at lines 6452--6452 [] @texttt error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj), ( double) nelem);[] Underfull \hbox (badness 10000) in paragraph at lines 6485--6486 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [84] [85] [86] [87] [88] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6940--6940 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [89] [90] [91] Chapter 2 [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] Underfull \hbox (badness 10000) in paragraph at lines 8216--8223 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [106] [107] [108] Underfull \hbox (badness 10000) in paragraph at lines 8428--8433 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt TRUE[] @textit and [109] [110] [111] Chapter 3 [112] [113] [114] [115] [116] [117] [118] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9199--9199 []@texttt 5497 1.9783 R findVarLocInFrame.part.0. lto_priv.0[] [119] Chapter 4 [120] [121] [122] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9471--9471 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [123] Overfull \hbox (25.25755pt too wide) in paragraph at lines 9512--9512 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [124] Overfull \hbox (20.53261pt too wide) in paragraph at lines 9616--9616 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 9646--9655 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [125] [126] [127] [128] Underfull \hbox (badness 10000) in paragraph at lines 9916--9928 @texttt controlling-code-generation[][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9932--9933 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [129] [130] Overfull \hbox (78.17732pt too wide) in paragraph at lines 10071--10071 []@texttt setenv ASAN_OPTIONS alloc_dealloc_mismatch=0:detect_leaks=0:detect_odr_violation=0 [] Overfull \hbox (33.15736pt too wide) in paragraph at lines 10104--10107 []@textrm This san-i-tizer may be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [131] Underfull \hbox (badness 10000) in paragraph at lines 10203--10207 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][] [132] Overfull \hbox (112.66945pt too wide) in paragraph at lines 10219--10219 []@texttt CC = clang -fsanitize=undefined -fno-sanitize=float-divide-by-zero - fno-omit-frame-pointer[] Overfull \hbox (170.15633pt too wide) in paragraph at lines 10220--10220 []@texttt CXX = clang++ -fsanitize=undefined -fno-sanitize=float-divide-by-zer o -fno-omit-frame-pointer -frtti[] Overfull \hbox (181.6537pt too wide) in paragraph at lines 10223--10223 []@texttt SAN_LIBS = $(UBSAN_DIR)/libclang_rt.ubsan_standalone.a $(UBSAN_DIR)/ libclang_rt.ubsan_standalone_cxx.a[] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10231--10231 []@texttt SAN_LIBS = -L$(UBSAN_DIR) -Wl,-rpath,$(UBSAN_DIR) -lclang_rt.ubsan_s tandalone[] Overfull \hbox (2.03816pt too wide) in paragraph at lines 10263--10267 []@textrm See [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc-10. 1. 0/ gcc/ Static-Analyzer-Options. [133] Overfull \hbox (72.42863pt too wide) in paragraph at lines 10286--10286 []@texttt Fortran runtime error: Index 1 of dimension 1 of array x above upper bound of 0[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10331--10331 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10334--10334 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [134] Overfull \hbox (26.43913pt too wide) in paragraph at lines 10413--10413 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [135] [136] [137] [138] Underfull \hbox (badness 10000) in paragraph at lines 10656--10658 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][]@smallrm : Overfull \hbox (124.16682pt too wide) in paragraph at lines 10723--10723 []@texttt boot.f:61: warning: type of ddot does not match original declaration [-Wlto-type-mismatch][] [139] Overfull \hbox (147.16158pt too wide) in paragraph at lines 10742--10742 []@texttt rkpk2.f:77:5: warning: type of dstup does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (141.41289pt too wide) in paragraph at lines 10753--10753 []@texttt reg.f:78:33: warning: type of dqrdc does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10773--10773 [] @tex ttt 1[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10782--10782 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 10783--10783 []@texttt Warning: Type mismatch in argument jpvt at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] Overfull \hbox (30.87428pt too wide) in paragraph at lines 11599--11599 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 11663--11663 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [151] [152] Overfull \hbox (60.93126pt too wide) in paragraph at lines 11827--11827 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [153] [154] [155] [156] [157] [158] Overfull \hbox (37.93651pt too wide) in paragraph at lines 12264--12264 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13135--13135 [] @texttt if(ign == NA_LOGICAL) error(" ignore_quotes must be TRUE or FALSE");[] [170] Underfull \hbox (badness 10000) in paragraph at lines 13285--13289 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [171] [172] [173] [174] [175] [176] [177] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13849--13849 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [178] [179] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13973--13973 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13978--13978 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [180] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14033--14033 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14046--14046 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [181] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14145--14145 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [182] [183] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14294--14294 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [184] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14385--14385 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [185] [186] Overfull \hbox (72.42863pt too wide) in paragraph at lines 14480--14480 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [187] [188] [189] [190] [191] [192] [193] [194] [195] Overfull \hbox (20.69044pt too wide) in paragraph at lines 15292--15292 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 15310--15315 @texttt com/ content/ www/ us/ en/ docs/ fortran-compiler/ developer-gui de-reference/ [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Underfull \hbox (badness 10000) in paragraph at lines 16043--16047 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [206] Warning: unbalanced parentheses in @def... [207] [208] Overfull \hbox (26.43913pt too wide) in paragraph at lines 16275--16275 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [209] [210] [211] [212] [213] Chapter 7 [214] [215] Chapter 8 [216] [217] [218] Overfull \hbox (43.6852pt too wide) in paragraph at lines 17040--17040 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [219] Overfull \hbox (20.69044pt too wide) in paragraph at lines 17083--17083 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 17098--17098 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [220] [221] [222] [223] [224] [225] [226] [227] [228] (Function and variable index) [229] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.vrs [230] [231] [232] [233]) [234] (Concept index) [235] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.cps [236]) [237] ) (see the transcript file for additional information) Output written on R-exts.pdf (244 pages, 1061382 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.t2d/pdf/xtr/R-exts.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-exts.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.toc) (Acknowledgements) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.aux ) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 508--511 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Underfull \hbox (badness 10000) in paragraph at lines 1318--1319 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1319--1320 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1322--1324 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars- Underfull \hbox (badness 10000) in paragraph at lines 1324--1326 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1332--1333 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1333--1334 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1336--1338 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars- Underfull \hbox (badness 10000) in paragraph at lines 1338--1340 @texttt ~/.R/Makevars.win64[]@textrm , [17] [18] [19] [20] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1602--1602 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1603--1603 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1604--1604 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [21] Underfull \hbox (badness 10000) in paragraph at lines 1635--1642 @texttt org/ package=amap[]@textrm )[]), Python or Tcl ([][]@textbf Simile @te xtrm (@texttt https:// CRAN. R-project. org/ [22] [23] [24] [25] [26] Overfull \hbox (32.18782pt too wide) in paragraph at lines 2041--2041 []@texttt $ pkg-config --exists libtiff-4 >= 4.1.0 --print-errors # check the status[] [27] [28] [29] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2285--2285 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [30] [31] [32] [33] [34] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2692--2692 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2694--2694 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [35] [36] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2832--2832 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [37] [38] [39] Underfull \hbox (badness 7221) in paragraph at lines 3045--3051 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][] @smallrm or [40] Overfull \hbox (60.93126pt too wide) in paragraph at lines 3132--3132 [] @texttt CXX="$(CXX17) $(CXX17STD)" CXXFLAGS="$(CXX17FLAGS) $(CXX 17PICFLAGS)")[] [41] [42] [43] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3377--3377 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4777--4777 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [62] [63] [64] Overfull \hbox (81.29893pt too wide) in paragraph at lines 5013--5013 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 5032--5032 []@texttt CXXFLAGS = ^^R"${RBIN}" CMD config CXXFLAGS^^R ^^R"${RBIN}" CMD conf ig CXXPICFLAGS^^R[] [65] [66] [67] [68] [69] [70] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5499--5499 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5501--5501 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5502--5502 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5517--5517 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [71] [72] [73] [74] [75] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5897--5897 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [76] [77] Underfull \hbox (badness 10000) in paragraph at lines 6059--6062 @texttt gcc/ C-Extensions. html[][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [78] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6137--6137 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [79] [80] Overfull \hbox (53.86903pt too wide) in paragraph at lines 6283--6283 []@texttt register storage class specifier is deprecated and incompatible with C++17[] [81] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6348--6348 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [82] Overfull \hbox (48.12035pt too wide) in paragraph at lines 6425--6425 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] Overfull \hbox (25.1256pt too wide) in paragraph at lines 6437--6437 []@texttt warning: argument 1 value 18446744073709551615 exceeds maximum object[] [83] Overfull \hbox (94.10985pt too wide) in paragraph at lines 6452--6452 [] @texttt error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj), ( double) nelem);[] Underfull \hbox (badness 10000) in paragraph at lines 6485--6486 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [84] [85] [86] [87] [88] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6940--6940 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [89] [90] [91] Chapter 2 [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] Underfull \hbox (badness 10000) in paragraph at lines 8216--8223 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [106] [107] [108] Underfull \hbox (badness 10000) in paragraph at lines 8428--8433 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt TRUE[] @textit and [109] [110] [111] Chapter 3 [112] [113] [114] [115] [116] [117] [118] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9199--9199 []@texttt 5497 1.9783 R findVarLocInFrame.part.0. lto_priv.0[] [119] Chapter 4 [120] [121] [122] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9471--9471 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [123] Overfull \hbox (25.25755pt too wide) in paragraph at lines 9512--9512 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [124] Overfull \hbox (20.53261pt too wide) in paragraph at lines 9616--9616 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 9646--9655 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [125] [126] [127] [128] Underfull \hbox (badness 10000) in paragraph at lines 9916--9928 @texttt controlling-code-generation[][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9932--9933 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [129] [130] Overfull \hbox (78.17732pt too wide) in paragraph at lines 10071--10071 []@texttt setenv ASAN_OPTIONS alloc_dealloc_mismatch=0:detect_leaks=0:detect_odr_violation=0 [] Overfull \hbox (33.15736pt too wide) in paragraph at lines 10104--10107 []@textrm This san-i-tizer may be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [131] Underfull \hbox (badness 10000) in paragraph at lines 10203--10207 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][] [132] Overfull \hbox (112.66945pt too wide) in paragraph at lines 10219--10219 []@texttt CC = clang -fsanitize=undefined -fno-sanitize=float-divide-by-zero - fno-omit-frame-pointer[] Overfull \hbox (170.15633pt too wide) in paragraph at lines 10220--10220 []@texttt CXX = clang++ -fsanitize=undefined -fno-sanitize=float-divide-by-zer o -fno-omit-frame-pointer -frtti[] Overfull \hbox (181.6537pt too wide) in paragraph at lines 10223--10223 []@texttt SAN_LIBS = $(UBSAN_DIR)/libclang_rt.ubsan_standalone.a $(UBSAN_DIR)/ libclang_rt.ubsan_standalone_cxx.a[] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10231--10231 []@texttt SAN_LIBS = -L$(UBSAN_DIR) -Wl,-rpath,$(UBSAN_DIR) -lclang_rt.ubsan_s tandalone[] Overfull \hbox (2.03816pt too wide) in paragraph at lines 10263--10267 []@textrm See [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc-10. 1. 0/ gcc/ Static-Analyzer-Options. [133] Overfull \hbox (72.42863pt too wide) in paragraph at lines 10286--10286 []@texttt Fortran runtime error: Index 1 of dimension 1 of array x above upper bound of 0[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10331--10331 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10334--10334 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [134] Overfull \hbox (26.43913pt too wide) in paragraph at lines 10413--10413 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [135] [136] [137] [138] Underfull \hbox (badness 10000) in paragraph at lines 10656--10658 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][]@smallrm : Overfull \hbox (124.16682pt too wide) in paragraph at lines 10723--10723 []@texttt boot.f:61: warning: type of ddot does not match original declaration [-Wlto-type-mismatch][] [139] Overfull \hbox (147.16158pt too wide) in paragraph at lines 10742--10742 []@texttt rkpk2.f:77:5: warning: type of dstup does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (141.41289pt too wide) in paragraph at lines 10753--10753 []@texttt reg.f:78:33: warning: type of dqrdc does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10773--10773 [] @tex ttt 1[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10782--10782 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 10783--10783 []@texttt Warning: Type mismatch in argument jpvt at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] Overfull \hbox (30.87428pt too wide) in paragraph at lines 11599--11599 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 11663--11663 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [151] [152] Overfull \hbox (60.93126pt too wide) in paragraph at lines 11827--11827 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [153] [154] [155] [156] [157] [158] Overfull \hbox (37.93651pt too wide) in paragraph at lines 12264--12264 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13135--13135 [] @texttt if(ign == NA_LOGICAL) error(" ignore_quotes must be TRUE or FALSE");[] [170] Underfull \hbox (badness 10000) in paragraph at lines 13285--13289 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [171] [172] [173] [174] [175] [176] [177] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13849--13849 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [178] [179] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13973--13973 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13978--13978 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [180] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14033--14033 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14046--14046 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [181] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14145--14145 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [182] [183] Overfull \hbox (14.94176pt too wide) in paragraph at lines 14294--14294 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [184] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14385--14385 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [185] [186] Overfull \hbox (72.42863pt too wide) in paragraph at lines 14480--14480 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [187] [188] [189] [190] [191] [192] [193] [194] [195] Overfull \hbox (20.69044pt too wide) in paragraph at lines 15292--15292 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 15310--15315 @texttt com/ content/ www/ us/ en/ docs/ fortran-compiler/ developer-gui de-reference/ [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Underfull \hbox (badness 10000) in paragraph at lines 16043--16047 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [206] Warning: unbalanced parentheses in @def... [207] [208] Overfull \hbox (26.43913pt too wide) in paragraph at lines 16275--16275 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [209] [210] [211] [212] [213] Chapter 7 [214] [215] Chapter 8 [216] [217] [218] Overfull \hbox (43.6852pt too wide) in paragraph at lines 17040--17040 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [219] Overfull \hbox (20.69044pt too wide) in paragraph at lines 17083--17083 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 17098--17098 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [220] [221] [222] [223] [224] [225] [226] [227] [228] (Function and variable index) [229] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.vrs [230] [231] [232] [233]) [234] (Concept index) [235] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-exts.cps [236]) [237] ) (see the transcript file for additional information) Output written on R-exts.pdf (244 pages, 1061383 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi @setfilename R-FAQ.info This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) [1{/var/lib/texmf/fonts/map/pdftex/u pdmap/pdftex.map}] [-1] Chapter 1 Chapter 2 [1] Cross reference values unknown; you must run TeX again. [2] Underfull \hbox (badness 10000) in paragraph at lines 294--323 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][]@textrm ), [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 658--663 @textrm (doi: [][]10.1080/10618600.1996.10474713 (@texttt https:// doi. org/ 10. 1080/ 10618600. 1996. [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] Underfull \hbox (badness 10000) in paragraph at lines 1531--1534 []@textrm See also [][]@texttt https:// en. wikipedia. org/ wiki/ R_progra mming_language# Underfull \hbox (badness 10000) in paragraph at lines 1531--1534 @texttt Commercialized_versions_of_R[][] @textrm for point-ers to com-mer-cial- ized ver-sions of Chapter 4 [18] Chapter 5 [19] [20] [21] Overfull \hbox (14.27353pt too wide) in paragraph at lines 1819--1819 []@smalltt MASS Support Functions and Datasets for Venables and Riple y s MASS[] [22] [23] Chapter 6 [24] [25] Chapter 7 [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] Writing index file R-FAQ.fn [38] Underfull \hbox (badness 10000) in paragraph at lines 3135--3149 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [39] [40] [41] Chapter 8 [42] Chapter 9 [43] [44] [45] Chapter 10 [46] [47] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (49 pages, 351208 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) [1{/var/lib/texmf/fonts/map/pdftex/u pdmap/pdftex.map}] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-FAQ.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-FAQ.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-FAQ.toc) Chapter 1 (/build/reproducible-path/r-base-4.4.2/doc/manual/R-FAQ.aux) Chapter 2 [1] [2] Underfull \hbox (badness 10000) in paragraph at lines 294--323 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][]@textrm ), [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 658--663 @textrm (doi: [][]10.1080/10618600.1996.10474713 (@texttt https:// doi. org/ 10. 1080/ 10618600. 1996. [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] Underfull \hbox (badness 10000) in paragraph at lines 1531--1534 []@textrm See also [][]@texttt https:// en. wikipedia. org/ wiki/ R_progra mming_language# Underfull \hbox (badness 10000) in paragraph at lines 1531--1534 @texttt Commercialized_versions_of_R[][] @textrm for point-ers to com-mer-cial- ized ver-sions of Chapter 4 [18] Chapter 5 [19] [20] [21] Overfull \hbox (14.27353pt too wide) in paragraph at lines 1819--1819 []@smalltt MASS Support Functions and Datasets for Venables and Riple y s MASS[] [22] [23] Chapter 6 [24] [25] Chapter 7 [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] Writing index file R-FAQ.fn [38] Underfull \hbox (badness 10000) in paragraph at lines 3135--3149 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [39] [40] [41] Chapter 8 [42] Chapter 9 [43] [44] [45] Chapter 10 [46] [47] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (51 pages, 368259 bytes). Transcript written on R-FAQ.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-intro.texi @setfilename R-intro.info This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.t2d/pdf/xtr/R-intro.t exi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-intro.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Preface) Cross reference values unknown; you must run TeX again. Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 4839--4841 @texttt logit[]@textrm , @texttt probit[]@textrm , @texttt cloglog[]@textrm , @texttt identity[]@textrm , [61] [62] [63] [64] [65] Underfull \hbox (badness 10000) in paragraph at lines 5254--5264 [][]@textbf Mixed mod-els. @textrm The rec-om-mended [][]@textbf nlme @textrm (@texttt https:// CRAN. R-project. org/ [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5734--5734 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6445--6450 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6653--6658 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] No file R-intro.vrs. Appendix E [102] No file R-intro.cps. Appendix F [103] [104] ) (see the transcript file for additional information) Output written on R-intro.pdf (107 pages, 572279 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.t2d/pdf/xtr/R-intro.t exi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-intro.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.toc) (Preface) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 4839--4841 @texttt logit[]@textrm , @texttt probit[]@textrm , @texttt cloglog[]@textrm , @texttt identity[]@textrm , [61] [62] [63] [64] [65] Underfull \hbox (badness 10000) in paragraph at lines 5254--5264 [][]@textbf Mixed mod-els. @textrm The rec-om-mended [][]@textbf nlme @textrm (@texttt https:// CRAN. R-project. org/ [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5734--5734 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6445--6450 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6653--6658 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.vrs [102] [103]) Appendix E [104] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.cps [105]) Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 623963 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.t2d/pdf/xtr/R-intro.t exi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-intro.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.toc) (Preface) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 4839--4841 @texttt logit[]@textrm , @texttt probit[]@textrm , @texttt cloglog[]@textrm , @texttt identity[]@textrm , [61] [62] [63] [64] [65] Underfull \hbox (badness 10000) in paragraph at lines 5254--5264 [][]@textbf Mixed mod-els. @textrm The rec-om-mended [][]@textbf nlme @textrm (@texttt https:// CRAN. R-project. org/ [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5734--5734 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6445--6450 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6653--6658 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.vrs [102] [103]) Appendix E [104] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-intro.cps [105]) Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 623980 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi @setfilename R-ints.info This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.t2d/pdf/xtr/R-ints.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-ints.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1498--1498 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1499--1499 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1500--1500 [] @texttt length(meth.Ops <- nM$^^R.__T__Ops:base^^R) # 71 methods for the Ops (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1501--1501 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2019--2019 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] Underfull \hbox (badness 10000) in paragraph at lines 3137--3143 []@textrm The @texttt glyphs[] @textrm com-po-nent re-ports whether ren-der-in g glyphs (e.g., via [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3791--3800 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3791--3800 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3842--3846 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 4552--4557 @texttt blog. r-project. org/ 2022/ 04/ 08/ enhancements-to-html-documen tation/ [62] [63] [64] [65] Chapter 9 [66] [67] Chapter 10 [68] Chapter 11 [69] Chapter 12 [70] [71] (Function and variable index) [72] [73] No file R-ints.vrs. (Concept index) [74] No file R-ints.cps. [75] ) (see the transcript file for additional information) Output written on R-ints.pdf (78 pages, 420748 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.t2d/pdf/xtr/R-ints.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-ints.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.toc [-1] [-2]) [-3] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.toc) Chapter 1 (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1498--1498 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1499--1499 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1500--1500 [] @texttt length(meth.Ops <- nM$^^R.__T__Ops:base^^R) # 71 methods for the Ops (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1501--1501 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2019--2019 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] Underfull \hbox (badness 10000) in paragraph at lines 3137--3143 []@textrm The @texttt glyphs[] @textrm com-po-nent re-ports whether ren-der-in g glyphs (e.g., via [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3791--3800 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3791--3800 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3842--3846 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 4552--4557 @texttt blog. r-project. org/ 2022/ 04/ 08/ enhancements-to-html-documen tation/ [62] [63] [64] [65] Chapter 9 [66] [67] Chapter 10 [68] Chapter 11 [69] Chapter 12 [70] [71] (Function and variable index) [72] [73] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.vrs [74] [75]) (Concept index) [76] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.cps) [77] ) (see the transcript file for additional information) Output written on R-ints.pdf (82 pages, 469350 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.t2d/pdf/xtr/R-ints.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-ints.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.toc [-1] [-2]) [-3] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.toc) Chapter 1 (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1498--1498 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1499--1499 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1500--1500 [] @texttt length(meth.Ops <- nM$^^R.__T__Ops:base^^R) # 71 methods for the Ops (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1501--1501 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2019--2019 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] Underfull \hbox (badness 10000) in paragraph at lines 3137--3143 []@textrm The @texttt glyphs[] @textrm com-po-nent re-ports whether ren-der-in g glyphs (e.g., via [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3791--3800 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3791--3800 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3842--3846 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4180--4188 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 4552--4557 @texttt blog. r-project. org/ 2022/ 04/ 08/ enhancements-to-html-documen tation/ [62] [63] [64] [65] Chapter 9 [66] [67] Chapter 10 [68] Chapter 11 [69] Chapter 12 [70] [71] (Function and variable index) [72] [73] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.vrs [74] [75]) (Concept index) [76] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-ints.cps) [77] ) (see the transcript file for additional information) Output written on R-ints.pdf (82 pages, 469344 bytes). Transcript written on R-ints.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi @setfilename R-lang.info This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.t2d/pdf/xtr/R-lang.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-lang.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-lang.cp Chapter 2 [1] [2] Cross reference values unknown; you must run TeX again. Overfull \hbox (8.41086pt too wide) in paragraph at lines 306--307 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] No file R-lang.vrs. (Concept Index) [60] No file R-lang.cps. Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (65 pages, 348687 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.t2d/pdf/xtr/R-lang.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-lang.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.toc [-1] [-2]) [-3] [-4] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.toc) Chapter 1 (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 306--307 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.vrs [60]) (Concept Index) [61] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.cps) [62] Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (70 pages, 391318 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.t2d/pdf/xtr/R-lang.tex i (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/reproducible-path/r-base-4.4.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-lang.vr (/build/reproducible-path/r-base-4.4.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/reproducible-path/r-base-4.4.2/doc/manual/version.texi) [1{/var/lib/tex mf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.toc [-1] [-2]) [-3] [-4] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.toc) (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.toc) Chapter 1 (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 306--307 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.vrs [60]) (Concept Index) [61] (/build/reproducible-path/r-base-4.4.2/doc/manual/R-lang.cps) [62] Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (70 pages, 391312 bytes). Transcript written on R-lang.log. make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' /usr/bin/make -k pdf make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' PDF/LaTeX documentation: full reference index ... 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Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 572--578 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13{/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [24] [25] [26] [27] [28] [29] [30] Underfull \vbox (badness 3803) has occurred while \output is active [31] [32] [33] [34] [35] [36] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2261--2261 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] Underfull \hbox (badness 1721) in paragraph at lines 2926--2930 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [47] [48] [49] [50] [51] [52] [53] Underfull \hbox (badness 2538) in paragraph at lines 3404--3407 []\T1/zi4/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[] [][] ver-sion of []\T1/zi4/m/n/10 balancePOSIXlt(x, fill.only=TRUE, [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Underfull \hbox (badness 10000) in paragraph at lines 4200--4202 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] Underfull \hbox (badness 2521) in paragraph at lines 5551--5553 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6834--6834 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] Underfull \hbox (badness 1303) in paragraph at lines 7730--7737 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [120] Underfull \hbox (badness 2261) in paragraph at lines 7741--7746 \T1/zi4/m/n/10 / / github . com / astrand / xclip$[][]\T1/ptm/m/n/10 ) or []\T1 /zi4/m/n/10 xsel []\T1/ptm/m/n/10 ([][]$\T1/zi4/m/n/10 https : / / www . vergen et . net / ~conrad / software / [121] [122] Underfull \vbox (badness 10000) has occurred while \output is active [123] [124] [125] [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 2096) in paragraph at lines 8474--8478 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [132] [133] Underfull \hbox (badness 2351) in paragraph at lines 8589--8592 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [134] [135] [136] [137] [138] Underfull \hbox (badness 4479) in paragraph at lines 8906--8917 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [139] [140] [141] [142] [143] [144] Underfull \hbox (badness 1629) in paragraph at lines 9327--9339 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 9327--9339 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] Underfull \hbox (badness 1178) in paragraph at lines 10193--10197 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] Underfull \hbox (badness 2744) in paragraph at lines 12533--12535 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [194] [195] [196] [197] [198] [199] [200] [201] Underfull \vbox (badness 10000) has occurred while \output is active [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223] [224] [225] [226] Underfull \hbox (badness 2253) in paragraph at lines 14737--14739 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 14772--14775 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [227] Underfull \hbox (badness 1565) in paragraph at lines 14854--14858 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and [228] Underfull \hbox (badness 4927) in paragraph at lines 14905--14907 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [229] [230] [231] Underfull \hbox (badness 1466) in paragraph at lines 15056--15059 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [232] Underfull \hbox (badness 10000) in paragraph at lines 15187--15191 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15198--15201 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [233] [234] [235] [236] [237] Underfull \hbox (badness 3965) in paragraph at lines 15493--15497 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [238] [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 5260) in paragraph at lines 15995--15995 []\T1/zi4/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/zi4/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 decimal.mark[]\T1/ptm/m/n/10 , [246] [247] [248] [249] Underfull \hbox (badness 4429) in paragraph at lines 16285--16288 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [250] [251] Underfull \hbox (badness 10000) in paragraph at lines 16392--16394 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [252] Underfull \hbox (badness 2035) in paragraph at lines 16465--16469 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [253] Underfull \vbox (badness 10000) has occurred while \output is active [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 2452) in paragraph at lines 17088--17092 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 17088--17092 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [263] [264] [265] Underfull \hbox (badness 1092) in paragraph at lines 17262--17267 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [266] [267] [268] Underfull \hbox (badness 6741) in paragraph at lines 17515--17519 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \vbox (badness 3803) has occurred while \output is active [280] Underfull \vbox (badness 10000) has occurred while \output is active [281] [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1769) in paragraph at lines 18988--18991 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19297--19299 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 19303--19312 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] Underfull \hbox (badness 1442) in paragraph at lines 19911--19913 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [306] Underfull \hbox (badness 2452) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/zi4/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.vector[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 5726) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.call[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.en vironment[][][] [][]is.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.ma trix[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.na[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 anyNA[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.nan [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.finite[][][] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1248) in paragraph at lines 20405--20408 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [313] [314] [315] [316] [317] Underfull \hbox (badness 4739) in paragraph at lines 20672--20674 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] Underfull \hbox (badness 2469) in paragraph at lines 21830--21835 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [337] Underfull \hbox (badness 1675) in paragraph at lines 21917--21926 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21927--21940 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the [338] Underfull \hbox (badness 10000) in paragraph at lines 21975--21978 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21975--21978 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [339] [340] Underfull \hbox (badness 1014) in paragraph at lines 22109--22114 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 1264) in paragraph at lines 22956--22964 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 22991--22994 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] Underfull \hbox (badness 5231) in paragraph at lines 23809--23811 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [367] [368] [369] [370] [371] [372] [373] [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] Underfull \hbox (badness 6380) in paragraph at lines 24919--24925 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Data _ compress ion$[][] \T1/ptm/m/n/10 for back-ground on data com-pres- Underfull \hbox (badness 1472) in paragraph at lines 24919--24925 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / XZ _ Utils$[][] [384] [385] [386] [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 2790) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [393] [394] [395] [396] [397] Underfull \hbox (badness 1194) in paragraph at lines 25760--25763 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [398] [399] [400] Underfull \hbox (badness 2368) in paragraph at lines 25967--25973 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [401] [402] [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26357--26360 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 26985--26987 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 2443) in paragraph at lines 27476--27484 \T1/ptm/m/n/10 suit-able char-ac-ter vec-tors as above, or nu-meric ver-sion ob -jects. For [424] [425] [426] [427] [428] [429] [430] Underfull \hbox (badness 1881) in paragraph at lines 27906--27909 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27931--27933 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [431] [432] Underfull \hbox (badness 2142) in paragraph at lines 28072--28076 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 28129--28134 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [433] [434] [435] [436] Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 5878) in paragraph at lines 28438--28441 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/p tm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 28464--28466 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28510--28515 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [437] Underfull \hbox (badness 2529) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 28528--28531 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [438] [439] [440] [441] [442] Underfull \vbox (badness 10000) has occurred while \output is active [443] Underfull \hbox (badness 10000) in paragraph at lines 28946--28950 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [444] [445] Underfull \hbox (badness 10000) in paragraph at lines 29093--29096 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [446] Underfull \hbox (badness 7925) in paragraph at lines 29174--29178 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 29174--29178 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 29179--29188 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [447] [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] Underfull \hbox (badness 2726) in paragraph at lines 30193--30196 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] [481] Underfull \vbox (badness 3803) has occurred while \output is active [482] [483] [484] [485] [486] [487] [488] [489] [490] Underfull \hbox (badness 1533) in paragraph at lines 32001--32004 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [491] [492] [493] Underfull \hbox (badness 1163) in paragraph at lines 32172--32183 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [494] [495] [496] [497] [498] [499] [500] Underfull \vbox (badness 3803) has occurred while \output is active [501] [502] Underfull \hbox (badness 6300) in paragraph at lines 32718--32720 []\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr it-ing R Ex-ten-sions' man-ual: [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 10000) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 33862--33864 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 33865--33869 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [520] [521] Underfull \vbox (badness 10000) has occurred while \output is active [522] [523] [524] [525] [526] [527] [528] [529] Underfull \hbox (badness 1655) in paragraph at lines 34467--34469 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] Underfull \hbox (badness 2261) in paragraph at lines 35670--35675 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] Underfull \hbox (badness 3668) in paragraph at lines 36705--36709 []\T1/zi4/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use with [565] Underfull \hbox (badness 10000) in paragraph at lines 36796--36807 \T1/zi4/m/n/10 / / learn . microsoft . com / en-[]us / cpp / c-[]language / par sing-[]c-[]command-[]line-[]arguments ? [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] [584] [585] [586] [587] [588] [589] [590] Underfull \hbox (badness 10000) in paragraph at lines 38428--38430 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 2913) in paragraph at lines 38846--38850 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [598] [599] [600] Underfull \hbox (badness 1072) in paragraph at lines 39092--39096 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by [601] Underfull \hbox (badness 10000) in paragraph at lines 39097--39101 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 39152--39159 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [602] [603] [604] [605] Underfull \hbox (badness 2644) in paragraph at lines 39387--39391 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626] [627] [628] [629] Underfull \hbox (badness 1158) in paragraph at lines 40915--40917 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [630] [631] [632] [633] [634] [635] [636] [637] [638] [639] Underfull \hbox (badness 1137) in paragraph at lines 41515--41521 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails Underfull \hbox (badness 4967) in paragraph at lines 41533--41538 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [640] [641] Underfull \hbox (badness 1616) in paragraph at lines 41653--41658 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [642] [643] [644] [645] Underfull \vbox (badness 3803) has occurred while \output is active [646] [647] [648] [649] [650] Underfull \hbox (badness 1472) in paragraph at lines 42199--42202 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [651] [652] [653] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 42411. [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 10000) in paragraph at lines 43150--43154 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/sl/10 bin []\T1/ptm/m/n/10 ca n have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4 /m/sl/10 length(bin) > [666] [667] [668] [669] [670] Underfull \hbox (badness 10000) in paragraph at lines 43509--43512 [][][]\T1/zi4/m/sl/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [][]$https : / / developer . r-[]project . org / [671] [672] [673] Underfull \hbox (badness 10000) in paragraph at lines 43693--43697 [][][]\T1/zi4/m/sl/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 taskCallb ackManager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/sl/10 https : / / developer . [674] [675] [676] [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 10000) in paragraph at lines 44341--44344 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Time _ zone$[] [] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/sl/10 https : / / data . iana . org / time -[]zones / [684] [685] [686] [687] [688] [689] Underfull \vbox (badness 10000) has occurred while \output is active [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 1990) in paragraph at lines 45257--45265 []\T1/zi4/m/sl/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps an y er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 45257--45265 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/sl/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] Underfull \hbox (badness 1014) in paragraph at lines 46694--46697 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [720] [721] Underfull \hbox (badness 2401) in paragraph at lines 46827--46831 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/sl/10 options[][][](" warn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [722] [723] Underfull \hbox (badness 3492) in paragraph at lines 46953--46955 []\T1/zi4/m/sl/10 weekdays []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 months []\T1/ ptm/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [724] [725] Underfull \hbox (badness 2111) in paragraph at lines 47039--47044 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/sl/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [726] [727] [728] Underfull \hbox (badness 4001) in paragraph at lines 47287--47289 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/sl/10 https : / / developer . [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 5417) in paragraph at lines 47688--47692 []\T1/zi4/m/sl/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-re ntly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [736] Underfull \hbox (badness 10000) in paragraph at lines 47749--47753 []\T1/zi4/m/sl/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-d ard' reg-exps, in-clud-ing el-e-ments named [737]) (./compiler-pkg.tex [738] Chapter 2. [739] [740] [741] [742]) (./datasets-pkg.tex Chapter 3. [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] Underfull \hbox (badness 1097) in paragraph at lines 1034--1038 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] Overfull \hbox (2.27475pt too wide) in paragraph at lines 3524--3524 []\T1/zi4/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [802] [803] [804] [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] [825]) (./grDevices-pkg.tex [826] Chapter 4. [827] [828] [829] [830] [831] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/sl/10 c(mi, ma, n.)[] \T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 297--302 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/sl/10 axisTicks[][][]() []\T1 /ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/sl/10 CreateAtVector() []\T1 /ptm/m/n/10 in [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 1424) in paragraph at lines 899--901 [][][]\T1/zi4/m/sl/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) a nd []\T1/zi4/m/sl/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also b e spec-i-fied as [841] [842] [843] [844] [845] [846] Underfull \hbox (badness 5175) in paragraph at lines 1227--1229 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [847] [848] Underfull \hbox (badness 2512) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/sl/10 https : / / web . ar chive . org / web / 20190613001950 / http : / / efg2 . com / [849] [850] [851] [852] [853] Underfull \hbox (badness 1490) in paragraph at lines 1646--1651 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/sl/10 rasterImage[][][] []\T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues [] \T1/zi4/m/sl/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1659--1663 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [854] [855] [856] [857] [858] [859] Underfull \hbox (badness 1325) in paragraph at lines 2074--2084 []\T1/zi4/m/sl/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "pngmono"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "png alpha"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/ m/sl/10 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp32b"[]\T1/ptm /m/n/10 , [860] [861] Underfull \hbox (badness 10000) in paragraph at lines 2186--2188 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [862] [863] [864] Underfull \hbox (badness 6758) in paragraph at lines 2374--2377 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \hbox (badness 10000) in paragraph at lines 3130--3131 [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] Underfull \vbox (badness 3803) has occurred while \output is active [889] [890] [891] [892] Underfull \vbox (badness 10000) has occurred while \output is active [893] [894] [895] [896] Underfull \hbox (badness 1418) in paragraph at lines 4407--4414 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "H elvetica-Narrow"[]\T1/ptm/m/n/10 , [897] [898] [899] [900] [901] [902] [903] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4872 \aliasA{symbol}{plotmath}{symbol} [904] [905] [906] [907] Underfull \vbox (badness 3803) has occurred while \output is active [908] [909] Underfull \hbox (badness 1584) in paragraph at lines 5265--5267 []\T1/ptm/m/n/10 For type []\T1/zi4/m/sl/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1 /zi4/m/sl/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 5269--5276 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [910] [911] [912] [913] Underfull \hbox (badness 1377) in paragraph at lines 5571--5576 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [914] [915] Underfull \hbox (badness 1377) in paragraph at lines 5675--5680 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/sl/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [916] Underfull \hbox (badness 7344) in paragraph at lines 5744--5746 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [917] [918] Underfull \hbox (badness 2035) in paragraph at lines 5883--5892 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 \T1/ptm/m/n/10 vided: []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Helveti ca-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 []\T1/zi4/m/sl/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "P alatino" []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 "Times"[]\T1/ptm/m/n/10 ; []\T1 /zi4/m/sl/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "URWBookman"[]\T1/ ptm/m/n/10 , [919] Underfull \hbox (badness 10000) in paragraph at lines 5950--5955 []\T1/zi4/m/sl/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/ zi4/m/sl/10 https : / / ftp . gnu . org / pub / non-[]gnu / [920] [921] [922] Underfull \hbox (badness 1546) in paragraph at lines 6090--6098 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/sl/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 title[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 encoding[]\T1/ptm/m/n /10 , []\T1/zi4/m/sl/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 fg[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 width[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928] Underfull \hbox (badness 6625) in paragraph at lines 6534--6537 []\T1/ptm/m/n/10 Murrell, P., Ooms, J., Al-laire, J.J. (2015), "Record-ing and Re-play-ing the Graph- [929] [930] Underfull \hbox (badness 10000) in paragraph at lines 6638--6641 []\T1/zi4/m/sl/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space ( red/green/blue) into HSV space [931] [932] [933] [934] Overfull \hbox (9.73488pt too wide) in paragraph at lines 6875--6875 []\T1/zi4/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 continuous=TRUE\TS1/zi4/m/n/9 '\T1/ zi4/m/n/9 ):[] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Underfull \hbox (badness 1189) in paragraph at lines 7503--7505 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [945] Underfull \hbox (badness 10000) in paragraph at lines 7608--7610 []\T1/zi4/m/sl/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for C JK lan-guages and [946] [947] [948] [949] [950] Underfull \hbox (badness 3780) in paragraph at lines 7923--7929 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/s l/10 "AvantGarde"[]\T1/ptm/m/n/10 , [951] [952] [953] [954] [955] [956]) (./graphics-pkg.tex Chapter 5. [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \vbox (badness 3803) has occurred while \output is active [968] [969] [970] [971] [972] [973] Overfull \hbox (12.71341pt too wide) in paragraph at lines 1037--1037 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [974] [975] [976] [977] [978] [979] Underfull \hbox (badness 4634) in paragraph at lines 1410--1413 [][][]\T1/zi4/m/sl/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready wor ks nowa-days with data.frames; [][][]\T1/zi4/m/sl/10 boxplot.formula[][][][]\T1 /ptm/m/n/10 , [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 1728) in paragraph at lines 2388--2390 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/sl/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [997] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] Underfull \vbox (badness 10000) has occurred while \output is active [1021] Underfull \vbox (badness 10000) has occurred while \output is active [1022] [1023] [1024] [1025] [1026] [1027] Underfull \vbox (badness 3803) has occurred while \output is active [1028] [1029] [1030] [1031] [1032] [1033] [1034] Underfull \hbox (badness 3229) in paragraph at lines 4733--4738 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1035] [1036] [1037] [1038] [1039] Underfull \hbox (badness 1107) in paragraph at lines 5233--5239 []\T1/ptm/m/n/10 is []\T1/zi4/m/sl/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sc aled to user co-or-di-nates. Note that []\T1/zi4/m/sl/10 c([][]strwidth[][][](c h), [1040] [1041] Underfull \hbox (badness 10000) in paragraph at lines 5362--5365 [1042 ] Underfull \hbox (badness 10000) in paragraph at lines 5423--5425 [1043 ] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6097 \aliasA{plot}{plot.default}{plot} [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6997--6998 [][] [1068 ] [1069] Underfull \vbox (badness 3803) has occurred while \output is active [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 4954) in paragraph at lines 9109--9111 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /sl/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 9111--9113 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/sl/10 pa r(c("font.lab", "cex.lab", [1103] [1104] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} [1105] [1106] [1107] [1108]) (./grid-pkg.tex Chapter 6. [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] Underfull \hbox (badness 2680) in paragraph at lines 551--554 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/sl/10 preDrawDetails []\T1/ptm/m/n/10 an d []\T1/zi4/m/sl/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal -cu-la-tion of [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] Underfull \hbox (badness 4279) in paragraph at lines 1188--1197 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/sl/10 pushViewport[][][][]\T1/ ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T 1/zi4/m/sl/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 seekVi ewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 upViewport[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/sl/10 unit[][][][]\T1/ptm/m/n/10 , [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] Underfull \hbox (badness 10000) in paragraph at lines 3103--3105 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] Underfull \vbox (badness 10000) has occurred while \output is active [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 1067) in paragraph at lines 4842--4845 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1191] [1192] [1193] [1194] [1195] [1196] Underfull \hbox (badness 7256) in paragraph at lines 5193--5195 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1197] [1198] [1199] [1200] [1201] [1202] [1203] Underfull \hbox (badness 2142) in paragraph at lines 5647--5651 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/sl/10 gridGTreeCoords []\T1/ptm/m/n/ 10 a list of ei-ther []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1204] [1205] Underfull \hbox (badness 4699) in paragraph at lines 5729--5734 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 o b-ject (a list of lists with com-po-nents []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 y[]\T1/ptm/m/n/10 ) or a [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237]) (./methods-pkg.tex [1238] Chapter 7. [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] Underfull \vbox (badness 10000) has occurred while \output is active [1247] Underfull \vbox (badness 10000) has occurred while \output is active [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] Underfull \hbox (badness 2237) in paragraph at lines 1384--1386 []\T1/ptm/m/n/10 The class []\T1/zi4/m/sl/10 "className" []\T1/ptm/m/n/10 ex-te nds []\T1/zi4/m/sl/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/s l/10 "package"[]\T1/ptm/m/n/10 , also of class [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] Underfull \hbox (badness 10000) in paragraph at lines 1980--1985 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/m/n /10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1980--1985 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/ m/n/10 it calls []\T1/zi4/m/sl/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1267] [1268] [1269] Underfull \hbox (badness 2213) in paragraph at lines 2212--2217 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/sl/10 where = [1270] [1271] [1272] [1273] [1274] Underfull \hbox (badness 10000) in paragraph at lines 2572--2575 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/sl/10 setGeneric[][][] [] \T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 cre-ate ob-jects of class [1275] [1276] Underfull \hbox (badness 1132) in paragraph at lines 2712--2716 []\T1/ptm/m/n/10 In []\T1/zi4/m/sl/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi 4/m/sl/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/sl/10 package []\T1/ptm/m/n/10 slot of the re-turned re-sult is in [1277] Underfull \hbox (badness 1033) in paragraph at lines 2744--2749 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/sl/10 removeGeneric []\T1/ptm/m/n/10 re-moves the func-tion it-self; []\T1/zi4/m/sl/10 removeMethods []\T1/ptm/m/n/1 0 re-stores the [1278] [1279] [1280] [1281] [1282] [1283] [1284] Underfull \hbox (badness 1102) in paragraph at lines 3301--3303 []\T1/zi4/m/sl/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1285] [1286] [1287] [1288] [1289] Underfull \hbox (badness 10000) in paragraph at lines 3638--3647 []\T1/ptm/m/n/10 The [1290] [1291] Underfull \hbox (badness 10000) in paragraph at lines 3758--3759 [] \T1/zi4/m/sl/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longi tude = "numeric", [1292] Underfull \hbox (badness 10000) in paragraph at lines 3842--3843 []\T1/zi4/m/sl/10 Currency <- setClass("Currency", slots = c(unit = "character" ), contains = [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] Underfull \hbox (badness 1769) in paragraph at lines 4473--4479 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/sl/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4473--4479 []\T1/zi4/m/sl/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [ ][][]\T1/zi4/m/sl/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion u sed by [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] Underfull \vbox (badness 10000) has occurred while \output is active [1313] [1314] [1315] Underfull \hbox (badness 4036) in paragraph at lines 5438--5441 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/sl/10 "PossibleMethod" []\T1/ptm/m /n/10 the method to use in re-sponse to a [1316] [1317] Underfull \hbox (badness 3803) in paragraph at lines 5513--5515 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1318] [1319] [1320] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/sl/10 externalRe fMethod(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1330] [1331] [1332] [1333] Underfull \vbox (badness 10000) has occurred while \output is active [1334] [1335] [1336] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6972 \aliasA{S4}{S3Part}{S4} [1337] [1338] [1339] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7228 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7230 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7231 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7233 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7234 \aliasA{Summary}{S4groupGeneric}{Summary} [1340] Underfull \hbox (badness 2050) in paragraph at lines 7295--7299 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1341] [1342] [1343] Underfull \hbox (badness 1286) in paragraph at lines 7483--7485 []\T1/ptm/m/n/10 for []\T1/zi4/m/sl/10 .selectSuperClasses() []\T1/ptm/m/n/10 o nly, a [][][]\T1/zi4/m/sl/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cally [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] Underfull \vbox (badness 10000) has occurred while \output is active [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] Underfull \hbox (badness 1158) in paragraph at lines 10490--10493 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/zi4/m/sl/10 https : / / johnmchambers . su . domains / [1385] Underfull \hbox (badness 1852) in paragraph at lines 10568--10572 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1386] [1387] [1388] [1389]) (./parallel-pkg.tex [1390] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/sl/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [] []RNG[][][]: see [1391] [1392] [1393] [1394] [1395] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1396] [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 3386) in paragraph at lines 1400--1403 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/sl/10 .Random.seed []\T1/ptm/m/n/10 when the [1413] [1414]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/sl/10 \T1/ptm /m/n/10 and William N. Ven-ables [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430]) (./stats-pkg.tex Chapter 10. [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] Underfull \hbox (badness 1412) in paragraph at lines 901--903 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/sl/10 lm []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 aov[]\T1/ptm/m/n/10 , or a for-mula fo r [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] Underfull \hbox (badness 2503) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2503) in paragraph at lines 3557--3560 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1487] [1488] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3670. [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 3989) in paragraph at lines 4816--4823 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 2556) in paragraph at lines 5470--5473 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/sl/10 "circular"[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "filter"[]\T1/ptm/m/n/10 . For [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \hbox (badness 2503) in paragraph at lines 5882--5886 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 7081) in paragraph at lines 6674--6677 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/sl/10 "hclust" []\T1/ptm/m/n/10 c an be con-verted to class []\T1/zi4/m/sl/10 "dendrogram" []\T1/ptm/m/n/10 us-in g method Underfull \hbox (badness 10000) in paragraph at lines 6678--6680 []\T1/zi4/m/sl/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro- gram []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1537] [1538] [1539] [1540] [1541] [1542] Underfull \vbox (badness 10000) has occurred while \output is active [1543] [1544] [1545] Underfull \vbox (badness 10000) has occurred while \output is active [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 10000) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/sl/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1551] [1552] [1553] [1554] [1555] [1556] Underfull \vbox (badness 3803) has occurred while \output is active [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] Underfull \vbox (badness 3803) has occurred while \output is active [1573] [1574] [1575] [1576] [1577] [1578] Underfull \hbox (badness 2626) in paragraph at lines 9271--9274 []\T1/ptm/m/n/10 Either []\T1/zi4/m/sl/10 "convolution" []\T1/ptm/m/n/10 or []\ T1/zi4/m/sl/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1579] Underfull \hbox (badness 2503) in paragraph at lines 9378--9382 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 4518) in paragraph at lines 10733--10738 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2142) in paragraph at lines 11095--11098 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1606] Underfull \hbox (badness 1253) in paragraph at lines 11114--11117 []\T1/ptm/m/n/10 When []\T1/zi4/m/sl/10 trace []\T1/ptm/m/n/10 is true, calls t o [][][]\T1/zi4/m/sl/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for eac h IWLS it-er-a-tion. Hence, [1607] Underfull \hbox (badness 1708) in paragraph at lines 11176--11180 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1694) in paragraph at lines 11572--11575 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12053 \aliasA{hat}{influence.measures}{hat} [1622] [1623] Underfull \hbox (badness 1484) in paragraph at lines 12198--12200 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/sl/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1624] Underfull \vbox (badness 3803) has occurred while \output is active [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] Underfull \hbox (badness 10000) in paragraph at lines 12785--12787 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/sl/10 solve.d efault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/sl/10 SSinit = [1634] [1635] [1636] [1637] [1638] Underfull \hbox (badness 2894) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1639] [1640] [1641] [1642] [1643] [1644] [1645] Underfull \hbox (badness 1496) in paragraph at lines 13555--13561 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1646] [1647] [1648] [1649] [1650] [1651] Underfull \hbox (badness 4518) in paragraph at lines 13958--13963 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] Underfull \hbox (badness 4518) in paragraph at lines 14620--14625 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1662] [1663] [1664] Underfull \hbox (badness 6412) in paragraph at lines 14760--14764 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/sl/10 (surface = "int erpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14767--14769 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/sl/10 family []\T1/ptm/m/n/10 is [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] Underfull \hbox (badness 2503) in paragraph at lines 15843--15847 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] Underfull \hbox (badness 10000) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 model. response(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/sl/10 model.offset []\ T1/ptm/m/n/10 sums any terms [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] [1716] [1717] Underfull \hbox (badness 1158) in paragraph at lines 18014--18017 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/sl/10 nls []\T 1/ptm/m/n/10 as the data ar-gu-ment. The ac- [1718] [1719] Underfull \vbox (badness 10000) has occurred while \output is active [1720] Underfull \vbox (badness 10000) has occurred while \output is active [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 1377) in paragraph at lines 19057--19062 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 19062--19065 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 19075--19079 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 19075--19079 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/sl/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 19083--19087 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/sl/10 "BFGS"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 "SANN" []\T1/ptm/m/n/10 meth-ods if [1735] [1736] [1737] Underfull \vbox (badness 10000) has occurred while \output is active [1738] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19308--19308 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19311--19311 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \hbox (badness 1337) in paragraph at lines 19773--19776 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] Underfull \hbox (badness 10000) in paragraph at lines 20242--20248 \T1/zi4/m/sl/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 s distance", lty = cook.lty, col = cook.col, text.col [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 1194) in paragraph at lines 20669--20672 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1762] [1763] [1764] [1765] [1766] [1767] Underfull \hbox (badness 2503) in paragraph at lines 21047--21050 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 21074--21076 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/sl/10 "Exact Poisson test" []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 "Comparison of Poisson [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 10000) in paragraph at lines 22152--22158 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/sl/10 predict.ar [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 predict.Arima[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/sl/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 1337) in paragraph at lines 23628--23634 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] Underfull \hbox (badness 1436) in paragraph at lines 24118--24121 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/sl/10 max(2, [1819] Underfull \hbox (badness 10000) in paragraph at lines 24256--24257 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . o rg / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] Underfull \hbox (badness 1824) in paragraph at lines 25226--25232 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 25226--25232 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1836] Underfull \hbox (badness 10000) in paragraph at lines 25247--25250 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/sl/10 y = runmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/sl/10 y[j] = [1837] [1838] [1839] [1840] [1841] [1842] [1843] [1844] [1845] Underfull \hbox (badness 2165) in paragraph at lines 25822--25827 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/sl/10 "selfStart" []\T 1/ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/sl/10 SSasymp[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1846] [1847] [1848] [1849] Underfull \hbox (badness 1867) in paragraph at lines 26032--26034 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 26048--26052 []\T1/ptm/m/n/10 where []\T1/zi4/m/sl/10 NN <- [][]nobs[][][](object, use.fallb ack = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 PP <- [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \vbox (badness 10000) has occurred while \output is active [1875] [1876] Underfull \hbox (badness 3514) in paragraph at lines 27700--27705 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1877] [1878] [1879] [1880] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27934--27934 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27970--27976 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1881] Overfull \hbox (14.22568pt too wide) in paragraph at lines 28030--28030 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1882] [1883] [1884] [1885] Underfull \hbox (badness 3514) in paragraph at lines 28203--28208 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1886] Underfull \hbox (badness 3514) in paragraph at lines 28290--28295 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1887] Underfull \hbox (badness 3514) in paragraph at lines 28355--28360 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1888] [1889] Underfull \hbox (badness 3514) in paragraph at lines 28449--28454 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1890] [1891] Underfull \hbox (badness 6691) in paragraph at lines 28541--28546 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 x[] \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 4024) in paragraph at lines 29028--29031 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] [1908] [1909] Underfull \hbox (badness 5431) in paragraph at lines 29631--29633 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1910] [1911] [1912] Underfull \hbox (badness 5431) in paragraph at lines 29841--29844 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1913] [1914] [1915] [1916] [1917] [1918] Underfull \hbox (badness 1337) in paragraph at lines 30156--30160 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1919] [1920] Underfull \hbox (badness 1127) in paragraph at lines 30293--30296 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for []\T1/zi4/m/sl/10 rt()[]\T1/ptm/m/n/10 , ac-cu-rate only for [1921] [1922] [1923] Underfull \hbox (badness 1616) in paragraph at lines 30499--30502 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944] Underfull \hbox (badness 3557) in paragraph at lines 31726--31730 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/sl/10 extendInt []\T1/ptm/m/n/10 to a non- []\T1/zi4/m/sl/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-re ct []\T1/zi4/m/sl/10 interval = [1945] [1946] [1947] Underfull \vbox (badness 10000) has occurred while \output is active [1948] [1949] [1950] Underfull \hbox (badness 1337) in paragraph at lines 32093--32097 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] Underfull \hbox (badness 1337) in paragraph at lines 32621--32625 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1960] [1961] [1962] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32829--32829 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1963] [1964] [1965] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32990--32990 [] \T1/zi4/m/sl/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.ep s = getOption("ts.eps"), ...)[] [1966] [1967] [1968] [1969] [1970]) (./stats4-pkg.tex Chapter 11. [1971] [1972] [1973] Underfull \vbox (badness 10000) has occurred while \output is active [1974] Underfull \vbox (badness 10000) has occurred while \output is active [1975] [1976] [1977] [1978] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1979] [1980] [1981]) (./tcltk-pkg.tex [1982] Chapter 12. [1983] [1984] [1985] [1986] [1987] [1988] [1989] Underfull \vbox (badness 10000) has occurred while \output is active [1990] Underfull \vbox (badness 10000) has occurred while \output is active [1991] Underfull \hbox (badness 1546) in paragraph at lines 672--679 []\T1/zi4/m/sl/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call- ing any Tk or Tcl com-mand by sim-ply run-ning [1992] [1993] [1994] [1995] [1996] Underfull \vbox (badness 10000) has occurred while \output is active [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004]) (./tools-pkg.tex Chapter 13. [2005] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [2006] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/sl/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing wil l be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [2007] [2008] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/sl/10 b ibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 format InProceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatManual[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatPhdthesi s[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 formatTechreport []\T1/ptm/m/n/10 and [2009] [2010] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gi ne to use. Over-rides any [2011] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [2012] [2013] [2014] [2015] [2016] [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] Underfull \hbox (badness 1014) in paragraph at lines 1220--1222 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1226--1228 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [2025] Underfull \hbox (badness 10000) in paragraph at lines 1263--1266 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1263--1266 []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [2026] [2027] [2028] [2029] [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 1637--1640 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/sl/10 CRAN_aliases_db[]\T1/ptm /m/n/10 , []\T1/zi4/m/sl/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 CRAN_current_db []\T1/ptm/m/n/10 and [2032] [2033] Underfull \hbox (badness 4096) in paragraph at lines 1756--1764 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1766--1768 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 for all known trees (see [2034] [2035] [2036] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1967 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.1968 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2037] [2038] [2039] [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 3386) in paragraph at lines 2442--2445 []\T1/ptm/m/n/10 The de-fault method of []\T1/zi4/m/sl/10 as.Rconcordance []\T1 /ptm/m/n/10 searches for strings match-ing the pat-tern of [2045] [2046] Underfull \hbox (badness 4096) in paragraph at lines 2582--2590 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1424) in paragraph at lines 3516--3518 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] [2072] Underfull \hbox (badness 10000) in paragraph at lines 4232--4234 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 4388--4391 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/sl/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/sl/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2076] [2077] [2078] [2079] [2080] Underfull \hbox (badness 1796) in paragraph at lines 4745--4750 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/sl/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/sl/10 type = = [2081] [2082] Underfull \hbox (badness 1838) in paragraph at lines 4831--4837 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4831--4837 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2083] [2084] [2085] [2086] Underfull \hbox (badness 2197) in paragraph at lines 5112--5122 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/sl/10 available.packages[][][][]\T1/ptm/m/n/10 : [2087] Underfull \hbox (badness 1571) in paragraph at lines 5178--5182 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2088] [2089] [2090] [2091]) (./utils-pkg.tex [2092] Chapter 14. [2093] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/sl/10 insertions[]\T1/ptm/m/n/10 ', [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] Underfull \hbox (badness 10000) in paragraph at lines 728--734 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/sl/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/sl/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 728--734 []\T1/zi4/m/sl/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2104] [2105] [2106] Underfull \hbox (badness 3861) in paragraph at lines 934--939 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/sl/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 1139--1141 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2110] [2111] [2112] Underfull \vbox (badness 10000) has occurred while \output is active [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1371) in paragraph at lines 1666--1668 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 2057) in paragraph at lines 2386--2388 []\T1/ptm/m/n/10 None for []\T1/zi4/m/sl/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2130] Underfull \hbox (badness 2150) in paragraph at lines 2461--2468 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/zi4/m/sl/10 citation() []\T1 /ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2461--2468 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2131] [2132] [2133] Underfull \vbox (badness 3803) has occurred while \output is active [2134] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2738 ... the Clipboard in MS Windows}{clipboard} [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] Underfull \hbox (badness 6842) in paragraph at lines 4048--4053 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/sl/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2156] Underfull \hbox (badness 1430) in paragraph at lines 4111--4115 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/sl/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2157] Underfull \hbox (badness 1184) in paragraph at lines 4182--4198 []\T1/ptm/m/n/10 On Win-dows with []\T1/zi4/m/sl/10 method = "libcurl"[]\T1/ptm /m/n/10 , the CA root cer-tifi-cates are pro-vided by the OS Underfull \hbox (badness 1019) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 con-tain-ing `[]\T1/zi4/m/sl/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-ment vari- Underfull \hbox (badness 1668) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 able []\T1/zi4/m/sl/10 CURL_CA_BUNDLE []\T1/ptm/m/n/10 must be s et to a path to a cer-tifi-cate bun-dle file, usu-ally named [2158] [2159] Underfull \hbox (badness 10000) in paragraph at lines 4332--4334 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/sl/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2160] [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] Underfull \hbox (badness 1622) in paragraph at lines 5634--5638 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2181] [2182] [2183] [2184] [2185] [2186] Underfull \hbox (badness 1448) in paragraph at lines 6019--6024 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] Underfull \hbox (badness 1371) in paragraph at lines 6567--6569 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2195] [2196] Underfull \hbox (badness 1502) in paragraph at lines 6656--6662 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6656--6662 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2197] [2198] Underfull \hbox (badness 10000) in paragraph at lines 6833--6842 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 3354) in paragraph at lines 6833--6842 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R_DOC_DIR\T1/zi4/m/sl/10 /html/packages.html\T1 /ptm/m/n/10 ', which can be re-made by [][][]\T1/zi4/m/sl/10 make.packages.html [][][]()[]\T1/ptm/m/n/10 . [2199] Underfull \hbox (badness 2150) in paragraph at lines 6895--6898 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2200] [2201] Underfull \hbox (badness 3118) in paragraph at lines 7034--7036 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2202] [2203] [2204] Underfull \hbox (badness 1325) in paragraph at lines 7213--7217 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/sl/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2205] Underfull \hbox (badness 1424) in paragraph at lines 7305--7308 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2206] Underfull \hbox (badness 3219) in paragraph at lines 7377--7384 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/s l/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7377--7384 [][][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7385--7388 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/sl/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2207] [2208] Underfull \hbox (badness 1024) in paragraph at lines 7514--7517 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/sl/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 , ] []\T1/ ptm/m/n/10 will Underfull \hbox (badness 10000) in paragraph at lines 7547--7552 [][][]\T1/zi4/m/sl/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2209] Underfull \hbox (badness 5133) in paragraph at lines 7606--7610 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 10000) in paragraph at lines 8270--8272 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/sl/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2221] [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Underfull \hbox (badness 2310) in paragraph at lines 9057--9062 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2234] [2235] [2236] [2237] [2238] [2239] [2240] [2241] [2242] Underfull \hbox (badness 1248) in paragraph at lines 9628--9632 []\T1/zi4/m/sl/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. 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Transcript written on fullrefman.log. This is makeindex, version 2.17 [TeX Live 2025/dev] (kpathsea + Thai support). Scanning input file fullrefman.idx...................done (15179 entries accepted, 39 rejected). Sorting entries.........................................................................................................................................................................done (247513 comparisons). Generating output file fullrefman.ind..................done (15169 lines written, 52 warnings). Output written in fullrefman.ind. Transcript written in fullrefman.ilg. 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 149--157 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 149--157 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 337--340 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 572--578 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13{/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [24] [25] [26] [27] [28] [29] [30] Underfull \vbox (badness 3803) has occurred while \output is active [31] [32] [33] [34] [35] [36] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2261--2261 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] Underfull \hbox (badness 1721) in paragraph at lines 2926--2930 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [47] [48] [49] [50] [51] [52] [53] Underfull \hbox (badness 2538) in paragraph at lines 3404--3407 []\T1/zi4/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[] [][] ver-sion of []\T1/zi4/m/n/10 balancePOSIXlt(x, fill.only=TRUE, [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Underfull \hbox (badness 10000) in paragraph at lines 4200--4202 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] Underfull \hbox (badness 2521) in paragraph at lines 5551--5553 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6834--6834 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] Underfull \hbox (badness 1303) in paragraph at lines 7730--7737 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [120] Underfull \hbox (badness 2261) in paragraph at lines 7741--7746 \T1/zi4/m/n/10 / / github . com / astrand / xclip$[][]\T1/ptm/m/n/10 ) or []\T1 /zi4/m/n/10 xsel []\T1/ptm/m/n/10 ([][]$\T1/zi4/m/n/10 https : / / www . vergen et . net / ~conrad / software / [121] [122] Underfull \vbox (badness 10000) has occurred while \output is active [123] [124] [125] [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 2096) in paragraph at lines 8474--8478 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [132] [133] Underfull \hbox (badness 2351) in paragraph at lines 8589--8592 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [134] [135] [136] [137] [138] Underfull \hbox (badness 4479) in paragraph at lines 8906--8917 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [139] [140] [141] [142] [143] [144] Underfull \hbox (badness 1629) in paragraph at lines 9327--9339 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 9327--9339 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] Underfull \hbox (badness 1178) in paragraph at lines 10193--10197 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] Underfull \hbox (badness 2744) in paragraph at lines 12533--12535 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [194] [195] [196] [197] [198] [199] [200] [201] Underfull \vbox (badness 10000) has occurred while \output is active [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223] [224] [225] [226] Underfull \hbox (badness 2253) in paragraph at lines 14737--14739 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 14772--14775 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [227] Underfull \hbox (badness 1565) in paragraph at lines 14854--14858 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and [228] Underfull \hbox (badness 4927) in paragraph at lines 14905--14907 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [229] [230] [231] Underfull \hbox (badness 1466) in paragraph at lines 15056--15059 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [232] Underfull \hbox (badness 10000) in paragraph at lines 15187--15191 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15198--15201 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [233] [234] [235] [236] [237] Underfull \hbox (badness 3965) in paragraph at lines 15493--15497 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [238] [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 5260) in paragraph at lines 15995--15995 []\T1/zi4/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/zi4/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 decimal.mark[]\T1/ptm/m/n/10 , [246] [247] [248] [249] Underfull \hbox (badness 4429) in paragraph at lines 16285--16288 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [250] [251] Underfull \hbox (badness 10000) in paragraph at lines 16392--16394 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [252] Underfull \hbox (badness 2035) in paragraph at lines 16465--16469 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [253] Underfull \vbox (badness 10000) has occurred while \output is active [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 2452) in paragraph at lines 17088--17092 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 17088--17092 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [263] [264] [265] Underfull \hbox (badness 1092) in paragraph at lines 17262--17267 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [266] [267] [268] Underfull \hbox (badness 6741) in paragraph at lines 17515--17519 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \vbox (badness 3803) has occurred while \output is active [280] Underfull \vbox (badness 10000) has occurred while \output is active [281] [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1769) in paragraph at lines 18988--18991 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19297--19299 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 19303--19312 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] Underfull \hbox (badness 1442) in paragraph at lines 19911--19913 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [306] Underfull \hbox (badness 2452) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/zi4/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.vector[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 5726) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.call[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.en vironment[][][] [][]is.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.ma trix[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.na[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 anyNA[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.nan [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.finite[][][] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1248) in paragraph at lines 20405--20408 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [313] [314] [315] [316] [317] Underfull \hbox (badness 4739) in paragraph at lines 20672--20674 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] Underfull \hbox (badness 2469) in paragraph at lines 21830--21835 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [337] Underfull \hbox (badness 1675) in paragraph at lines 21917--21926 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21927--21940 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the [338] Underfull \hbox (badness 10000) in paragraph at lines 21975--21978 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21975--21978 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [339] [340] Underfull \hbox (badness 1014) in paragraph at lines 22109--22114 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 1264) in paragraph at lines 22956--22964 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 22991--22994 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] Underfull \hbox (badness 5231) in paragraph at lines 23809--23811 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [367] [368] [369] [370] [371] [372] [373] [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] Underfull \hbox (badness 6380) in paragraph at lines 24919--24925 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Data _ compress ion$[][] \T1/ptm/m/n/10 for back-ground on data com-pres- Underfull \hbox (badness 1472) in paragraph at lines 24919--24925 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / XZ _ Utils$[][] [384] [385] [386] [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 2790) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [393] [394] [395] [396] [397] Underfull \hbox (badness 1194) in paragraph at lines 25760--25763 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [398] [399] [400] Underfull \hbox (badness 2368) in paragraph at lines 25967--25973 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [401] [402] [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26357--26360 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 26985--26987 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 2443) in paragraph at lines 27476--27484 \T1/ptm/m/n/10 suit-able char-ac-ter vec-tors as above, or nu-meric ver-sion ob -jects. For [424] [425] [426] [427] [428] [429] [430] Underfull \hbox (badness 1881) in paragraph at lines 27906--27909 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27931--27933 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [431] [432] Underfull \hbox (badness 2142) in paragraph at lines 28072--28076 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 28129--28134 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [433] [434] [435] [436] Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 5878) in paragraph at lines 28438--28441 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/p tm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 28464--28466 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28510--28515 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [437] Underfull \hbox (badness 2529) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 28528--28531 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [438] [439] [440] [441] [442] Underfull \vbox (badness 10000) has occurred while \output is active [443] Underfull \hbox (badness 10000) in paragraph at lines 28946--28950 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [444] [445] Underfull \hbox (badness 10000) in paragraph at lines 29093--29096 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [446] Underfull \hbox (badness 7925) in paragraph at lines 29174--29178 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 29174--29178 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 29179--29188 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [447] [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] Underfull \hbox (badness 2726) in paragraph at lines 30193--30196 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] [481] Underfull \vbox (badness 3803) has occurred while \output is active [482] [483] [484] [485] [486] [487] [488] [489] [490] Underfull \hbox (badness 1533) in paragraph at lines 32001--32004 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [491] [492] [493] Underfull \hbox (badness 1163) in paragraph at lines 32172--32183 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [494] [495] [496] [497] [498] [499] [500] Underfull \vbox (badness 3803) has occurred while \output is active [501] [502] Underfull \hbox (badness 6300) in paragraph at lines 32718--32720 []\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr it-ing R Ex-ten-sions' man-ual: [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 10000) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 33862--33864 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 33865--33869 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [520] [521] Underfull \vbox (badness 10000) has occurred while \output is active [522] [523] [524] [525] [526] [527] [528] [529] Underfull \hbox (badness 1655) in paragraph at lines 34467--34469 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] Underfull \hbox (badness 2261) in paragraph at lines 35670--35675 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] Underfull \hbox (badness 3668) in paragraph at lines 36705--36709 []\T1/zi4/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use with [565] Underfull \hbox (badness 10000) in paragraph at lines 36796--36807 \T1/zi4/m/n/10 / / learn . microsoft . com / en-[]us / cpp / c-[]language / par sing-[]c-[]command-[]line-[]arguments ? [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] [584] [585] [586] [587] [588] [589] [590] Underfull \hbox (badness 10000) in paragraph at lines 38428--38430 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 2913) in paragraph at lines 38846--38850 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [598] [599] [600] Underfull \hbox (badness 1072) in paragraph at lines 39092--39096 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by [601] Underfull \hbox (badness 10000) in paragraph at lines 39097--39101 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 39152--39159 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [602] [603] [604] [605] Underfull \hbox (badness 2644) in paragraph at lines 39387--39391 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626] [627] [628] [629] Underfull \hbox (badness 1158) in paragraph at lines 40915--40917 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [630] [631] [632] [633] [634] [635] [636] [637] [638] [639] Underfull \hbox (badness 1137) in paragraph at lines 41515--41521 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails Underfull \hbox (badness 4967) in paragraph at lines 41533--41538 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [640] [641] Underfull \hbox (badness 1616) in paragraph at lines 41653--41658 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [642] [643] [644] [645] Underfull \vbox (badness 3803) has occurred while \output is active [646] [647] [648] [649] [650] Underfull \hbox (badness 1472) in paragraph at lines 42199--42202 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [651] [652] [653] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 42411. [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 10000) in paragraph at lines 43150--43154 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/sl/10 bin []\T1/ptm/m/n/10 ca n have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4 /m/sl/10 length(bin) > [666] [667] [668] [669] [670] Underfull \hbox (badness 10000) in paragraph at lines 43509--43512 [][][]\T1/zi4/m/sl/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [][]$https : / / developer . r-[]project . org / [671] [672] [673] Underfull \hbox (badness 10000) in paragraph at lines 43693--43697 [][][]\T1/zi4/m/sl/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 taskCallb ackManager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/sl/10 https : / / developer . [674] [675] [676] [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 10000) in paragraph at lines 44341--44344 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Time _ zone$[] [] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/sl/10 https : / / data . iana . org / time -[]zones / [684] [685] [686] [687] [688] [689] Underfull \vbox (badness 10000) has occurred while \output is active [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 1990) in paragraph at lines 45257--45265 []\T1/zi4/m/sl/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps an y er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 45257--45265 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/sl/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] Underfull \hbox (badness 1014) in paragraph at lines 46694--46697 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [720] [721] Underfull \hbox (badness 2401) in paragraph at lines 46827--46831 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/sl/10 options[][][](" warn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [722] [723] Underfull \hbox (badness 3492) in paragraph at lines 46953--46955 []\T1/zi4/m/sl/10 weekdays []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 months []\T1/ ptm/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [724] [725] Underfull \hbox (badness 2111) in paragraph at lines 47039--47044 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/sl/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [726] [727] [728] Underfull \hbox (badness 4001) in paragraph at lines 47287--47289 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/sl/10 https : / / developer . [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 5417) in paragraph at lines 47688--47692 []\T1/zi4/m/sl/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-re ntly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [736] Underfull \hbox (badness 10000) in paragraph at lines 47749--47753 []\T1/zi4/m/sl/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-d ard' reg-exps, in-clud-ing el-e-ments named [737]) (./compiler-pkg.tex [738] Chapter 2. [739] [740] [741] [742]) (./datasets-pkg.tex Chapter 3. [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] Underfull \hbox (badness 1097) in paragraph at lines 1034--1038 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] Overfull \hbox (2.27475pt too wide) in paragraph at lines 3524--3524 []\T1/zi4/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [802] [803] [804] [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] [825]) (./grDevices-pkg.tex [826] Chapter 4. [827] [828] [829] [830] [831] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/sl/10 c(mi, ma, n.)[] \T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 297--302 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/sl/10 axisTicks[][][]() []\T1 /ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/sl/10 CreateAtVector() []\T1 /ptm/m/n/10 in [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 1424) in paragraph at lines 899--901 [][][]\T1/zi4/m/sl/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) a nd []\T1/zi4/m/sl/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also b e spec-i-fied as [841] [842] [843] [844] [845] [846] Underfull \hbox (badness 5175) in paragraph at lines 1227--1229 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [847] [848] Underfull \hbox (badness 2512) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/sl/10 https : / / web . ar chive . org / web / 20190613001950 / http : / / efg2 . com / [849] [850] [851] [852] [853] Underfull \hbox (badness 1490) in paragraph at lines 1646--1651 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/sl/10 rasterImage[][][] []\T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues [] \T1/zi4/m/sl/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1659--1663 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [854] [855] [856] [857] [858] [859] Underfull \hbox (badness 1325) in paragraph at lines 2074--2084 []\T1/zi4/m/sl/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "pngmono"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "png alpha"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/ m/sl/10 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp32b"[]\T1/ptm /m/n/10 , [860] [861] Underfull \hbox (badness 10000) in paragraph at lines 2186--2188 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [862] [863] [864] Underfull \hbox (badness 6758) in paragraph at lines 2374--2377 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \hbox (badness 10000) in paragraph at lines 3130--3131 [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] Underfull \vbox (badness 3803) has occurred while \output is active [889] [890] [891] [892] Underfull \vbox (badness 10000) has occurred while \output is active [893] [894] [895] [896] Underfull \hbox (badness 1418) in paragraph at lines 4407--4414 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "H elvetica-Narrow"[]\T1/ptm/m/n/10 , [897] [898] [899] [900] [901] [902] [903] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4872 \aliasA{symbol}{plotmath}{symbol} [904] [905] [906] [907] Underfull \vbox (badness 3803) has occurred while \output is active [908] [909] Underfull \hbox (badness 1584) in paragraph at lines 5265--5267 []\T1/ptm/m/n/10 For type []\T1/zi4/m/sl/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1 /zi4/m/sl/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 5269--5276 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [910] [911] [912] [913] Underfull \hbox (badness 1377) in paragraph at lines 5571--5576 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [914] [915] Underfull \hbox (badness 1377) in paragraph at lines 5675--5680 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/sl/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [916] Underfull \hbox (badness 7344) in paragraph at lines 5744--5746 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [917] [918] Underfull \hbox (badness 2035) in paragraph at lines 5883--5892 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 \T1/ptm/m/n/10 vided: []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Helveti ca-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 []\T1/zi4/m/sl/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "P alatino" []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 "Times"[]\T1/ptm/m/n/10 ; []\T1 /zi4/m/sl/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "URWBookman"[]\T1/ ptm/m/n/10 , [919] Underfull \hbox (badness 10000) in paragraph at lines 5950--5955 []\T1/zi4/m/sl/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/ zi4/m/sl/10 https : / / ftp . gnu . org / pub / non-[]gnu / [920] [921] [922] Underfull \hbox (badness 1546) in paragraph at lines 6090--6098 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/sl/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 title[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 encoding[]\T1/ptm/m/n /10 , []\T1/zi4/m/sl/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 fg[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 width[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928] Underfull \hbox (badness 6625) in paragraph at lines 6534--6537 []\T1/ptm/m/n/10 Murrell, P., Ooms, J., Al-laire, J.J. (2015), "Record-ing and Re-play-ing the Graph- [929] [930] Underfull \hbox (badness 10000) in paragraph at lines 6638--6641 []\T1/zi4/m/sl/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space ( red/green/blue) into HSV space [931] [932] [933] [934] Overfull \hbox (9.73488pt too wide) in paragraph at lines 6875--6875 []\T1/zi4/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 continuous=TRUE\TS1/zi4/m/n/9 '\T1/ zi4/m/n/9 ):[] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Underfull \hbox (badness 1189) in paragraph at lines 7503--7505 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [945] Underfull \hbox (badness 10000) in paragraph at lines 7608--7610 []\T1/zi4/m/sl/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for C JK lan-guages and [946] [947] [948] [949] [950] Underfull \hbox (badness 3780) in paragraph at lines 7923--7929 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/s l/10 "AvantGarde"[]\T1/ptm/m/n/10 , [951] [952] [953] [954] [955] [956]) (./graphics-pkg.tex Chapter 5. [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \vbox (badness 3803) has occurred while \output is active [968] [969] [970] [971] [972] [973] Overfull \hbox (12.71341pt too wide) in paragraph at lines 1037--1037 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [974] [975] [976] [977] [978] [979] Underfull \hbox (badness 4634) in paragraph at lines 1410--1413 [][][]\T1/zi4/m/sl/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready wor ks nowa-days with data.frames; [][][]\T1/zi4/m/sl/10 boxplot.formula[][][][]\T1 /ptm/m/n/10 , [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 1728) in paragraph at lines 2388--2390 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/sl/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [997] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] Underfull \vbox (badness 10000) has occurred while \output is active [1021] Underfull \vbox (badness 10000) has occurred while \output is active [1022] [1023] [1024] [1025] [1026] [1027] Underfull \vbox (badness 3803) has occurred while \output is active [1028] [1029] [1030] [1031] [1032] [1033] [1034] Underfull \hbox (badness 3229) in paragraph at lines 4733--4738 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1035] [1036] [1037] [1038] [1039] Underfull \hbox (badness 1107) in paragraph at lines 5233--5239 []\T1/ptm/m/n/10 is []\T1/zi4/m/sl/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sc aled to user co-or-di-nates. Note that []\T1/zi4/m/sl/10 c([][]strwidth[][][](c h), [1040] [1041] Underfull \hbox (badness 10000) in paragraph at lines 5362--5365 [1042 ] Underfull \hbox (badness 10000) in paragraph at lines 5423--5425 [1043 ] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6097 \aliasA{plot}{plot.default}{plot} [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6997--6998 [][] [1068 ] [1069] Underfull \vbox (badness 3803) has occurred while \output is active [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 4954) in paragraph at lines 9109--9111 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /sl/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 9111--9113 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/sl/10 pa r(c("font.lab", "cex.lab", [1103] [1104] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} [1105] [1106] [1107] [1108]) (./grid-pkg.tex Chapter 6. [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] Underfull \hbox (badness 2680) in paragraph at lines 551--554 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/sl/10 preDrawDetails []\T1/ptm/m/n/10 an d []\T1/zi4/m/sl/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal -cu-la-tion of [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] Underfull \hbox (badness 4279) in paragraph at lines 1188--1197 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/sl/10 pushViewport[][][][]\T1/ ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T 1/zi4/m/sl/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 seekVi ewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 upViewport[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/sl/10 unit[][][][]\T1/ptm/m/n/10 , [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] Underfull \hbox (badness 10000) in paragraph at lines 3103--3105 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] Underfull \vbox (badness 10000) has occurred while \output is active [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 1067) in paragraph at lines 4842--4845 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1191] [1192] [1193] [1194] [1195] [1196] Underfull \hbox (badness 7256) in paragraph at lines 5193--5195 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1197] [1198] [1199] [1200] [1201] [1202] [1203] Underfull \hbox (badness 2142) in paragraph at lines 5647--5651 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/sl/10 gridGTreeCoords []\T1/ptm/m/n/ 10 a list of ei-ther []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1204] [1205] Underfull \hbox (badness 4699) in paragraph at lines 5729--5734 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 o b-ject (a list of lists with com-po-nents []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 y[]\T1/ptm/m/n/10 ) or a [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237]) (./methods-pkg.tex [1238] Chapter 7. [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] Underfull \vbox (badness 10000) has occurred while \output is active [1247] Underfull \vbox (badness 10000) has occurred while \output is active [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] Underfull \hbox (badness 2237) in paragraph at lines 1384--1386 []\T1/ptm/m/n/10 The class []\T1/zi4/m/sl/10 "className" []\T1/ptm/m/n/10 ex-te nds []\T1/zi4/m/sl/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/s l/10 "package"[]\T1/ptm/m/n/10 , also of class [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] Underfull \hbox (badness 10000) in paragraph at lines 1980--1985 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/m/n /10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1980--1985 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/ m/n/10 it calls []\T1/zi4/m/sl/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1267] [1268] [1269] Underfull \hbox (badness 2213) in paragraph at lines 2212--2217 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/sl/10 where = [1270] [1271] [1272] [1273] [1274] Underfull \hbox (badness 10000) in paragraph at lines 2572--2575 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/sl/10 setGeneric[][][] [] \T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 cre-ate ob-jects of class [1275] [1276] Underfull \hbox (badness 1132) in paragraph at lines 2712--2716 []\T1/ptm/m/n/10 In []\T1/zi4/m/sl/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi 4/m/sl/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/sl/10 package []\T1/ptm/m/n/10 slot of the re-turned re-sult is in [1277] Underfull \hbox (badness 1033) in paragraph at lines 2744--2749 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/sl/10 removeGeneric []\T1/ptm/m/n/10 re-moves the func-tion it-self; []\T1/zi4/m/sl/10 removeMethods []\T1/ptm/m/n/1 0 re-stores the [1278] [1279] [1280] [1281] [1282] [1283] [1284] Underfull \hbox (badness 1102) in paragraph at lines 3301--3303 []\T1/zi4/m/sl/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1285] [1286] [1287] [1288] [1289] Underfull \hbox (badness 10000) in paragraph at lines 3638--3647 []\T1/ptm/m/n/10 The [1290] [1291] Underfull \hbox (badness 10000) in paragraph at lines 3758--3759 [] \T1/zi4/m/sl/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longi tude = "numeric", [1292] Underfull \hbox (badness 10000) in paragraph at lines 3842--3843 []\T1/zi4/m/sl/10 Currency <- setClass("Currency", slots = c(unit = "character" ), contains = [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] Underfull \hbox (badness 1769) in paragraph at lines 4473--4479 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/sl/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4473--4479 []\T1/zi4/m/sl/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [ ][][]\T1/zi4/m/sl/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion u sed by [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] Underfull \vbox (badness 10000) has occurred while \output is active [1313] [1314] [1315] Underfull \hbox (badness 4036) in paragraph at lines 5438--5441 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/sl/10 "PossibleMethod" []\T1/ptm/m /n/10 the method to use in re-sponse to a [1316] [1317] Underfull \hbox (badness 3803) in paragraph at lines 5513--5515 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1318] [1319] [1320] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/sl/10 externalRe fMethod(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1330] [1331] [1332] [1333] Underfull \vbox (badness 10000) has occurred while \output is active [1334] [1335] [1336] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6972 \aliasA{S4}{S3Part}{S4} [1337] [1338] [1339] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7228 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7230 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7231 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7233 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7234 \aliasA{Summary}{S4groupGeneric}{Summary} [1340] Underfull \hbox (badness 2050) in paragraph at lines 7295--7299 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1341] [1342] [1343] Underfull \hbox (badness 1286) in paragraph at lines 7483--7485 []\T1/ptm/m/n/10 for []\T1/zi4/m/sl/10 .selectSuperClasses() []\T1/ptm/m/n/10 o nly, a [][][]\T1/zi4/m/sl/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cally [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] Underfull \vbox (badness 10000) has occurred while \output is active [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] Underfull \hbox (badness 1158) in paragraph at lines 10490--10493 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/zi4/m/sl/10 https : / / johnmchambers . su . domains / [1385] Underfull \hbox (badness 1852) in paragraph at lines 10568--10572 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1386] [1387] [1388] [1389]) (./parallel-pkg.tex [1390] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/sl/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [] []RNG[][][]: see [1391] [1392] [1393] [1394] [1395] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1396] [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 3386) in paragraph at lines 1400--1403 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/sl/10 .Random.seed []\T1/ptm/m/n/10 when the [1413] [1414]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/sl/10 \T1/ptm /m/n/10 and William N. Ven-ables [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430]) (./stats-pkg.tex Chapter 10. [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] Underfull \hbox (badness 1412) in paragraph at lines 901--903 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/sl/10 lm []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 aov[]\T1/ptm/m/n/10 , or a for-mula fo r [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] Underfull \hbox (badness 2503) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2503) in paragraph at lines 3557--3560 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1487] [1488] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3670. [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 3989) in paragraph at lines 4816--4823 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 2556) in paragraph at lines 5470--5473 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/sl/10 "circular"[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "filter"[]\T1/ptm/m/n/10 . For [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \hbox (badness 2503) in paragraph at lines 5882--5886 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 7081) in paragraph at lines 6674--6677 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/sl/10 "hclust" []\T1/ptm/m/n/10 c an be con-verted to class []\T1/zi4/m/sl/10 "dendrogram" []\T1/ptm/m/n/10 us-in g method Underfull \hbox (badness 10000) in paragraph at lines 6678--6680 []\T1/zi4/m/sl/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro- gram []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1537] [1538] [1539] [1540] [1541] [1542] Underfull \vbox (badness 10000) has occurred while \output is active [1543] [1544] [1545] Underfull \vbox (badness 10000) has occurred while \output is active [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 10000) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/sl/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1551] [1552] [1553] [1554] [1555] [1556] Underfull \vbox (badness 3803) has occurred while \output is active [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] Underfull \vbox (badness 3803) has occurred while \output is active [1573] [1574] [1575] [1576] [1577] [1578] Underfull \hbox (badness 2626) in paragraph at lines 9271--9274 []\T1/ptm/m/n/10 Either []\T1/zi4/m/sl/10 "convolution" []\T1/ptm/m/n/10 or []\ T1/zi4/m/sl/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1579] Underfull \hbox (badness 2503) in paragraph at lines 9378--9382 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 4518) in paragraph at lines 10733--10738 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2142) in paragraph at lines 11095--11098 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1606] Underfull \hbox (badness 1253) in paragraph at lines 11114--11117 []\T1/ptm/m/n/10 When []\T1/zi4/m/sl/10 trace []\T1/ptm/m/n/10 is true, calls t o [][][]\T1/zi4/m/sl/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for eac h IWLS it-er-a-tion. Hence, [1607] Underfull \hbox (badness 1708) in paragraph at lines 11176--11180 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1694) in paragraph at lines 11572--11575 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12053 \aliasA{hat}{influence.measures}{hat} [1622] [1623] Underfull \hbox (badness 1484) in paragraph at lines 12198--12200 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/sl/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1624] Underfull \vbox (badness 3803) has occurred while \output is active [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] Underfull \hbox (badness 10000) in paragraph at lines 12785--12787 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/sl/10 solve.d efault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/sl/10 SSinit = [1634] [1635] [1636] [1637] [1638] Underfull \hbox (badness 2894) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1639] [1640] [1641] [1642] [1643] [1644] [1645] Underfull \hbox (badness 1496) in paragraph at lines 13555--13561 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1646] [1647] [1648] [1649] [1650] [1651] Underfull \hbox (badness 4518) in paragraph at lines 13958--13963 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] Underfull \hbox (badness 4518) in paragraph at lines 14620--14625 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1662] [1663] [1664] Underfull \hbox (badness 6412) in paragraph at lines 14760--14764 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/sl/10 (surface = "int erpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14767--14769 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/sl/10 family []\T1/ptm/m/n/10 is [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] Underfull \hbox (badness 2503) in paragraph at lines 15843--15847 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] Underfull \hbox (badness 10000) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 model. response(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/sl/10 model.offset []\ T1/ptm/m/n/10 sums any terms [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] [1716] [1717] Underfull \hbox (badness 1158) in paragraph at lines 18014--18017 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/sl/10 nls []\T 1/ptm/m/n/10 as the data ar-gu-ment. The ac- [1718] [1719] Underfull \vbox (badness 10000) has occurred while \output is active [1720] Underfull \vbox (badness 10000) has occurred while \output is active [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 1377) in paragraph at lines 19057--19062 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 19062--19065 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 19075--19079 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 19075--19079 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/sl/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 19083--19087 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/sl/10 "BFGS"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 "SANN" []\T1/ptm/m/n/10 meth-ods if [1735] [1736] [1737] Underfull \vbox (badness 10000) has occurred while \output is active [1738] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19308--19308 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19311--19311 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \hbox (badness 1337) in paragraph at lines 19773--19776 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] Underfull \hbox (badness 10000) in paragraph at lines 20242--20248 \T1/zi4/m/sl/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 s distance", lty = cook.lty, col = cook.col, text.col [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 1194) in paragraph at lines 20669--20672 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1762] [1763] [1764] [1765] [1766] [1767] Underfull \hbox (badness 2503) in paragraph at lines 21047--21050 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 21074--21076 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/sl/10 "Exact Poisson test" []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 "Comparison of Poisson [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 10000) in paragraph at lines 22152--22158 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/sl/10 predict.ar [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 predict.Arima[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/sl/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 1337) in paragraph at lines 23628--23634 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] Underfull \hbox (badness 1436) in paragraph at lines 24118--24121 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/sl/10 max(2, [1819] Underfull \hbox (badness 10000) in paragraph at lines 24256--24257 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . o rg / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] Underfull \hbox (badness 1824) in paragraph at lines 25226--25232 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 25226--25232 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1836] Underfull \hbox (badness 10000) in paragraph at lines 25247--25250 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/sl/10 y = runmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/sl/10 y[j] = [1837] [1838] [1839] [1840] [1841] [1842] [1843] [1844] [1845] Underfull \hbox (badness 2165) in paragraph at lines 25822--25827 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/sl/10 "selfStart" []\T 1/ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/sl/10 SSasymp[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1846] [1847] [1848] [1849] Underfull \hbox (badness 1867) in paragraph at lines 26032--26034 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 26048--26052 []\T1/ptm/m/n/10 where []\T1/zi4/m/sl/10 NN <- [][]nobs[][][](object, use.fallb ack = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 PP <- [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \vbox (badness 10000) has occurred while \output is active [1875] [1876] Underfull \hbox (badness 3514) in paragraph at lines 27700--27705 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1877] [1878] [1879] [1880] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27934--27934 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27970--27976 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1881] Overfull \hbox (14.22568pt too wide) in paragraph at lines 28030--28030 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1882] [1883] [1884] [1885] Underfull \hbox (badness 3514) in paragraph at lines 28203--28208 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1886] Underfull \hbox (badness 3514) in paragraph at lines 28290--28295 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1887] Underfull \hbox (badness 3514) in paragraph at lines 28355--28360 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1888] [1889] Underfull \hbox (badness 3514) in paragraph at lines 28449--28454 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1890] [1891] Underfull \hbox (badness 6691) in paragraph at lines 28541--28546 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 x[] \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 4024) in paragraph at lines 29028--29031 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] [1908] [1909] Underfull \hbox (badness 5431) in paragraph at lines 29631--29633 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1910] [1911] [1912] Underfull \hbox (badness 5431) in paragraph at lines 29841--29844 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1913] [1914] [1915] [1916] [1917] [1918] Underfull \hbox (badness 1337) in paragraph at lines 30156--30160 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1919] [1920] Underfull \hbox (badness 1127) in paragraph at lines 30293--30296 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for []\T1/zi4/m/sl/10 rt()[]\T1/ptm/m/n/10 , ac-cu-rate only for [1921] [1922] [1923] Underfull \hbox (badness 1616) in paragraph at lines 30499--30502 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944] Underfull \hbox (badness 3557) in paragraph at lines 31726--31730 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/sl/10 extendInt []\T1/ptm/m/n/10 to a non- []\T1/zi4/m/sl/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-re ct []\T1/zi4/m/sl/10 interval = [1945] [1946] [1947] Underfull \vbox (badness 10000) has occurred while \output is active [1948] [1949] [1950] Underfull \hbox (badness 1337) in paragraph at lines 32093--32097 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] Underfull \hbox (badness 1337) in paragraph at lines 32621--32625 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1960] [1961] [1962] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32829--32829 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1963] [1964] [1965] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32990--32990 [] \T1/zi4/m/sl/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.ep s = getOption("ts.eps"), ...)[] [1966] [1967] [1968] [1969] [1970]) (./stats4-pkg.tex Chapter 11. [1971] [1972] [1973] Underfull \vbox (badness 10000) has occurred while \output is active [1974] Underfull \vbox (badness 10000) has occurred while \output is active [1975] [1976] [1977] [1978] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1979] [1980] [1981]) (./tcltk-pkg.tex [1982] Chapter 12. [1983] [1984] [1985] [1986] [1987] [1988] [1989] Underfull \vbox (badness 10000) has occurred while \output is active [1990] Underfull \vbox (badness 10000) has occurred while \output is active [1991] Underfull \hbox (badness 1546) in paragraph at lines 672--679 []\T1/zi4/m/sl/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call- ing any Tk or Tcl com-mand by sim-ply run-ning [1992] [1993] [1994] [1995] [1996] Underfull \vbox (badness 10000) has occurred while \output is active [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004]) (./tools-pkg.tex Chapter 13. [2005] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [2006] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/sl/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing wil l be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [2007] [2008] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/sl/10 b ibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 format InProceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatManual[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatPhdthesi s[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 formatTechreport []\T1/ptm/m/n/10 and [2009] [2010] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gi ne to use. Over-rides any [2011] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [2012] [2013] [2014] [2015] [2016] [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] Underfull \hbox (badness 1014) in paragraph at lines 1220--1222 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1226--1228 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [2025] Underfull \hbox (badness 10000) in paragraph at lines 1263--1266 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1263--1266 []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [2026] [2027] [2028] [2029] [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 1637--1640 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/sl/10 CRAN_aliases_db[]\T1/ptm /m/n/10 , []\T1/zi4/m/sl/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 CRAN_current_db []\T1/ptm/m/n/10 and [2032] [2033] Underfull \hbox (badness 4096) in paragraph at lines 1756--1764 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1766--1768 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 for all known trees (see [2034] [2035] [2036] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1967 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.1968 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2037] [2038] [2039] [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 3386) in paragraph at lines 2442--2445 []\T1/ptm/m/n/10 The de-fault method of []\T1/zi4/m/sl/10 as.Rconcordance []\T1 /ptm/m/n/10 searches for strings match-ing the pat-tern of [2045] [2046] Underfull \hbox (badness 4096) in paragraph at lines 2582--2590 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1424) in paragraph at lines 3516--3518 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] [2072] Underfull \hbox (badness 10000) in paragraph at lines 4232--4234 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 4388--4391 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/sl/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/sl/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2076] [2077] [2078] [2079] [2080] Underfull \hbox (badness 1796) in paragraph at lines 4745--4750 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/sl/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/sl/10 type = = [2081] [2082] Underfull \hbox (badness 1838) in paragraph at lines 4831--4837 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4831--4837 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2083] [2084] [2085] [2086] Underfull \hbox (badness 2197) in paragraph at lines 5112--5122 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/sl/10 available.packages[][][][]\T1/ptm/m/n/10 : [2087] Underfull \hbox (badness 1571) in paragraph at lines 5178--5182 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2088] [2089] [2090] [2091]) (./utils-pkg.tex [2092] Chapter 14. [2093] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/sl/10 insertions[]\T1/ptm/m/n/10 ', [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] Underfull \hbox (badness 10000) in paragraph at lines 728--734 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/sl/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/sl/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 728--734 []\T1/zi4/m/sl/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2104] [2105] [2106] Underfull \hbox (badness 3861) in paragraph at lines 934--939 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/sl/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 1139--1141 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2110] [2111] [2112] Underfull \vbox (badness 10000) has occurred while \output is active [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1371) in paragraph at lines 1666--1668 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 2057) in paragraph at lines 2386--2388 []\T1/ptm/m/n/10 None for []\T1/zi4/m/sl/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2130] Underfull \hbox (badness 2150) in paragraph at lines 2461--2468 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/zi4/m/sl/10 citation() []\T1 /ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2461--2468 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2131] [2132] [2133] Underfull \vbox (badness 3803) has occurred while \output is active [2134] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2738 ... the Clipboard in MS Windows}{clipboard} [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] Underfull \hbox (badness 6842) in paragraph at lines 4048--4053 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/sl/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2156] Underfull \hbox (badness 1430) in paragraph at lines 4111--4115 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/sl/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2157] Underfull \hbox (badness 1184) in paragraph at lines 4182--4198 []\T1/ptm/m/n/10 On Win-dows with []\T1/zi4/m/sl/10 method = "libcurl"[]\T1/ptm /m/n/10 , the CA root cer-tifi-cates are pro-vided by the OS Underfull \hbox (badness 1019) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 con-tain-ing `[]\T1/zi4/m/sl/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-ment vari- Underfull \hbox (badness 1668) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 able []\T1/zi4/m/sl/10 CURL_CA_BUNDLE []\T1/ptm/m/n/10 must be s et to a path to a cer-tifi-cate bun-dle file, usu-ally named [2158] [2159] Underfull \hbox (badness 10000) in paragraph at lines 4332--4334 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/sl/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2160] [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] Underfull \hbox (badness 1622) in paragraph at lines 5634--5638 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2181] [2182] [2183] [2184] [2185] [2186] Underfull \hbox (badness 1448) in paragraph at lines 6019--6024 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] Underfull \hbox (badness 1371) in paragraph at lines 6567--6569 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2195] [2196] Underfull \hbox (badness 1502) in paragraph at lines 6656--6662 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6656--6662 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2197] [2198] Underfull \hbox (badness 10000) in paragraph at lines 6833--6842 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 3354) in paragraph at lines 6833--6842 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R_DOC_DIR\T1/zi4/m/sl/10 /html/packages.html\T1 /ptm/m/n/10 ', which can be re-made by [][][]\T1/zi4/m/sl/10 make.packages.html [][][]()[]\T1/ptm/m/n/10 . [2199] Underfull \hbox (badness 2150) in paragraph at lines 6895--6898 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2200] [2201] Underfull \hbox (badness 3118) in paragraph at lines 7034--7036 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2202] [2203] [2204] Underfull \hbox (badness 1325) in paragraph at lines 7213--7217 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/sl/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2205] Underfull \hbox (badness 1424) in paragraph at lines 7305--7308 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2206] Underfull \hbox (badness 3219) in paragraph at lines 7377--7384 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/s l/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7377--7384 [][][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7385--7388 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/sl/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2207] [2208] Underfull \hbox (badness 1024) in paragraph at lines 7514--7517 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/sl/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 , ] []\T1/ ptm/m/n/10 will Underfull \hbox (badness 10000) in paragraph at lines 7547--7552 [][][]\T1/zi4/m/sl/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2209] Underfull \hbox (badness 5133) in paragraph at lines 7606--7610 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 10000) in paragraph at lines 8270--8272 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/sl/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2221] [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Underfull \hbox (badness 2310) in paragraph at lines 9057--9062 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2234] [2235] [2236] [2237] [2238] [2239] [2240] [2241] [2242] Underfull \hbox (badness 1248) in paragraph at lines 9628--9632 []\T1/zi4/m/sl/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 149--157 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 149--157 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 149--157 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 337--340 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 572--578 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13{/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [24] [25] [26] [27] [28] [29] [30] Underfull \vbox (badness 3803) has occurred while \output is active [31] [32] [33] [34] [35] [36] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2261--2261 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] Underfull \hbox (badness 1721) in paragraph at lines 2926--2930 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [47] [48] [49] [50] [51] [52] [53] Underfull \hbox (badness 2538) in paragraph at lines 3404--3407 []\T1/zi4/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[] [][] ver-sion of []\T1/zi4/m/n/10 balancePOSIXlt(x, fill.only=TRUE, [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Underfull \hbox (badness 10000) in paragraph at lines 4200--4202 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] Underfull \hbox (badness 2521) in paragraph at lines 5551--5553 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6834--6834 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] Underfull \hbox (badness 1303) in paragraph at lines 7730--7737 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [120] Underfull \hbox (badness 2261) in paragraph at lines 7741--7746 \T1/zi4/m/n/10 / / github . com / astrand / xclip$[][]\T1/ptm/m/n/10 ) or []\T1 /zi4/m/n/10 xsel []\T1/ptm/m/n/10 ([][]$\T1/zi4/m/n/10 https : / / www . vergen et . net / ~conrad / software / [121] [122] Underfull \vbox (badness 10000) has occurred while \output is active [123] [124] [125] [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 2096) in paragraph at lines 8474--8478 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [132] [133] Underfull \hbox (badness 2351) in paragraph at lines 8589--8592 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [134] [135] [136] [137] [138] Underfull \hbox (badness 4479) in paragraph at lines 8906--8917 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [139] [140] [141] [142] [143] [144] Underfull \hbox (badness 1629) in paragraph at lines 9327--9339 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 9327--9339 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] Underfull \hbox (badness 1178) in paragraph at lines 10193--10197 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] Underfull \hbox (badness 2744) in paragraph at lines 12533--12535 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [194] [195] [196] [197] [198] [199] [200] [201] Underfull \vbox (badness 10000) has occurred while \output is active [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223] [224] [225] [226] Underfull \hbox (badness 2253) in paragraph at lines 14737--14739 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 14772--14775 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [227] Underfull \hbox (badness 1565) in paragraph at lines 14854--14858 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and [228] Underfull \hbox (badness 4927) in paragraph at lines 14905--14907 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [229] [230] [231] Underfull \hbox (badness 1466) in paragraph at lines 15056--15059 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [232] Underfull \hbox (badness 10000) in paragraph at lines 15187--15191 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15198--15201 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [233] [234] [235] [236] [237] Underfull \hbox (badness 3965) in paragraph at lines 15493--15497 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [238] [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 5260) in paragraph at lines 15995--15995 []\T1/zi4/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/zi4/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 decimal.mark[]\T1/ptm/m/n/10 , [246] [247] [248] [249] Underfull \hbox (badness 4429) in paragraph at lines 16285--16288 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [250] [251] Underfull \hbox (badness 10000) in paragraph at lines 16392--16394 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [252] Underfull \hbox (badness 2035) in paragraph at lines 16465--16469 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [253] Underfull \vbox (badness 10000) has occurred while \output is active [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 2452) in paragraph at lines 17088--17092 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 17088--17092 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [263] [264] [265] Underfull \hbox (badness 1092) in paragraph at lines 17262--17267 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [266] [267] [268] Underfull \hbox (badness 6741) in paragraph at lines 17515--17519 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \vbox (badness 3803) has occurred while \output is active [280] Underfull \vbox (badness 10000) has occurred while \output is active [281] [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1769) in paragraph at lines 18988--18991 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19297--19299 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 19303--19312 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [296] [297] [298] [299] [300] [301] [302] [303] [304] [305] Underfull \hbox (badness 1442) in paragraph at lines 19911--19913 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [306] Underfull \hbox (badness 2452) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/zi4/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.vector[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 5726) in paragraph at lines 20007--20033 [][][]\T1/zi4/m/n/10 as.call[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 as.en vironment[][][] [][]is.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.ma trix[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.na[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 anyNA[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.nan [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 is.finite[][][] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 1248) in paragraph at lines 20405--20408 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [313] [314] [315] [316] [317] Underfull \hbox (badness 4739) in paragraph at lines 20672--20674 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] Underfull \hbox (badness 2469) in paragraph at lines 21830--21835 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [337] Underfull \hbox (badness 1675) in paragraph at lines 21917--21926 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21927--21940 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the [338] Underfull \hbox (badness 10000) in paragraph at lines 21975--21978 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21975--21978 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [339] [340] Underfull \hbox (badness 1014) in paragraph at lines 22109--22114 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 1264) in paragraph at lines 22956--22964 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: Underfull \hbox (badness 4441) in paragraph at lines 22991--22994 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] Underfull \hbox (badness 5231) in paragraph at lines 23809--23811 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [367] [368] [369] [370] [371] [372] [373] [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] Underfull \hbox (badness 6380) in paragraph at lines 24919--24925 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Data _ compress ion$[][] \T1/ptm/m/n/10 for back-ground on data com-pres- Underfull \hbox (badness 1472) in paragraph at lines 24919--24925 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / XZ _ Utils$[][] [384] [385] [386] [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 2790) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 25432--25435 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [393] [394] [395] [396] [397] Underfull \hbox (badness 1194) in paragraph at lines 25760--25763 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [398] [399] [400] Underfull \hbox (badness 2368) in paragraph at lines 25967--25973 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [401] [402] [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26357--26360 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 26985--26987 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 2443) in paragraph at lines 27476--27484 \T1/ptm/m/n/10 suit-able char-ac-ter vec-tors as above, or nu-meric ver-sion ob -jects. For [424] [425] [426] [427] [428] [429] [430] Underfull \hbox (badness 1881) in paragraph at lines 27906--27909 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27931--27933 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [431] [432] Underfull \hbox (badness 2142) in paragraph at lines 28072--28076 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 28129--28134 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [433] [434] [435] [436] Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 28425--28431 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 5878) in paragraph at lines 28438--28441 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/p tm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 28464--28466 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28510--28515 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly [437] Underfull \hbox (badness 2529) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 28516--28527 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 28528--28531 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [438] [439] [440] [441] [442] Underfull \vbox (badness 10000) has occurred while \output is active [443] Underfull \hbox (badness 10000) in paragraph at lines 28946--28950 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [444] [445] Underfull \hbox (badness 10000) in paragraph at lines 29093--29096 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [446] Underfull \hbox (badness 7925) in paragraph at lines 29174--29178 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 29174--29178 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 29179--29188 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [447] [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] [460] [461] [462] Underfull \hbox (badness 2726) in paragraph at lines 30193--30196 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] [481] Underfull \vbox (badness 3803) has occurred while \output is active [482] [483] [484] [485] [486] [487] [488] [489] [490] Underfull \hbox (badness 1533) in paragraph at lines 32001--32004 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [491] [492] [493] Underfull \hbox (badness 1163) in paragraph at lines 32172--32183 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [494] [495] [496] [497] [498] [499] [500] Underfull \vbox (badness 3803) has occurred while \output is active [501] [502] Underfull \hbox (badness 6300) in paragraph at lines 32718--32720 []\T1/ptm/m/n/10 The sec-tion `Pro-cess-ing doc-u-men-ta-tion files' in the `Wr it-ing R Ex-ten-sions' man-ual: [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 10000) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 33841--33845 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 33862--33864 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 33865--33869 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [520] [521] Underfull \vbox (badness 10000) has occurred while \output is active [522] [523] [524] [525] [526] [527] [528] [529] Underfull \hbox (badness 1655) in paragraph at lines 34467--34469 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] Underfull \hbox (badness 2261) in paragraph at lines 35670--35675 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] Underfull \hbox (badness 3668) in paragraph at lines 36705--36709 []\T1/zi4/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use with [565] Underfull \hbox (badness 10000) in paragraph at lines 36796--36807 \T1/zi4/m/n/10 / / learn . microsoft . com / en-[]us / cpp / c-[]language / par sing-[]c-[]command-[]line-[]arguments ? [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] [582] [583] [584] [585] [586] [587] [588] [589] [590] Underfull \hbox (badness 10000) in paragraph at lines 38428--38430 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 2913) in paragraph at lines 38846--38850 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [598] [599] [600] Underfull \hbox (badness 1072) in paragraph at lines 39092--39096 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by [601] Underfull \hbox (badness 10000) in paragraph at lines 39097--39101 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 39137--39143 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 39152--39159 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 39152--39159 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [602] [603] [604] [605] Underfull \hbox (badness 2644) in paragraph at lines 39387--39391 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626] [627] [628] [629] Underfull \hbox (badness 1158) in paragraph at lines 40915--40917 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [630] [631] [632] [633] [634] [635] [636] [637] [638] [639] Underfull \hbox (badness 1137) in paragraph at lines 41515--41521 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails Underfull \hbox (badness 4967) in paragraph at lines 41533--41538 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [640] [641] Underfull \hbox (badness 1616) in paragraph at lines 41653--41658 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [642] [643] [644] [645] Underfull \vbox (badness 3803) has occurred while \output is active [646] [647] [648] [649] [650] Underfull \hbox (badness 1472) in paragraph at lines 42199--42202 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [651] [652] [653] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 42411. [654] [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 10000) in paragraph at lines 43150--43154 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/sl/10 bin []\T1/ptm/m/n/10 ca n have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4 /m/sl/10 length(bin) > [666] [667] [668] [669] [670] Underfull \hbox (badness 10000) in paragraph at lines 43509--43512 [][][]\T1/zi4/m/sl/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [][]$https : / / developer . r-[]project . org / [671] [672] [673] Underfull \hbox (badness 10000) in paragraph at lines 43693--43697 [][][]\T1/zi4/m/sl/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 taskCallb ackManager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/sl/10 https : / / developer . [674] [675] [676] [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 10000) in paragraph at lines 44341--44344 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Time _ zone$[] [] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/sl/10 https : / / data . iana . org / time -[]zones / [684] [685] [686] [687] [688] [689] Underfull \vbox (badness 10000) has occurred while \output is active [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 1990) in paragraph at lines 45257--45265 []\T1/zi4/m/sl/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps an y er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 45257--45265 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/sl/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [698] [699] [700] [701] [702] [703] [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] Underfull \hbox (badness 1014) in paragraph at lines 46694--46697 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [720] [721] Underfull \hbox (badness 2401) in paragraph at lines 46827--46831 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/sl/10 options[][][](" warn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [722] [723] Underfull \hbox (badness 3492) in paragraph at lines 46953--46955 []\T1/zi4/m/sl/10 weekdays []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 months []\T1/ ptm/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [724] [725] Underfull \hbox (badness 2111) in paragraph at lines 47039--47044 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/sl/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [726] [727] [728] Underfull \hbox (badness 4001) in paragraph at lines 47287--47289 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/sl/10 https : / / developer . [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 5417) in paragraph at lines 47688--47692 []\T1/zi4/m/sl/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-re ntly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [736] Underfull \hbox (badness 10000) in paragraph at lines 47749--47753 []\T1/zi4/m/sl/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-d ard' reg-exps, in-clud-ing el-e-ments named [737]) (./compiler-pkg.tex [738] Chapter 2. [739] [740] [741] [742]) (./datasets-pkg.tex Chapter 3. [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] Underfull \hbox (badness 1097) in paragraph at lines 1034--1038 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] Overfull \hbox (2.27475pt too wide) in paragraph at lines 3524--3524 []\T1/zi4/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] [802] [803] [804] [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] [825]) (./grDevices-pkg.tex [826] Chapter 4. [827] [828] [829] [830] [831] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/sl/10 c(mi, ma, n.)[] \T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 297--302 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/sl/10 axisTicks[][][]() []\T1 /ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/sl/10 CreateAtVector() []\T1 /ptm/m/n/10 in [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 1424) in paragraph at lines 899--901 [][][]\T1/zi4/m/sl/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) a nd []\T1/zi4/m/sl/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also b e spec-i-fied as [841] [842] [843] [844] [845] [846] Underfull \hbox (badness 5175) in paragraph at lines 1227--1229 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [847] [848] Underfull \hbox (badness 2512) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/sl/10 https : / / web . ar chive . org / web / 20190613001950 / http : / / efg2 . com / [849] [850] [851] [852] [853] Underfull \hbox (badness 1490) in paragraph at lines 1646--1651 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/sl/10 rasterImage[][][] []\T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues [] \T1/zi4/m/sl/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1659--1663 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [854] [855] [856] [857] [858] [859] Underfull \hbox (badness 1325) in paragraph at lines 2074--2084 []\T1/zi4/m/sl/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "pngmono"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "png alpha"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/ m/sl/10 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "bmp32b"[]\T1/ptm /m/n/10 , [860] [861] Underfull \hbox (badness 10000) in paragraph at lines 2186--2188 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [862] [863] [864] Underfull \hbox (badness 6758) in paragraph at lines 2374--2377 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \hbox (badness 10000) in paragraph at lines 3130--3131 [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] Underfull \vbox (badness 3803) has occurred while \output is active [889] [890] [891] [892] Underfull \vbox (badness 10000) has occurred while \output is active [893] [894] [895] [896] Underfull \hbox (badness 1418) in paragraph at lines 4407--4414 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/pt m/m/n/10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "H elvetica-Narrow"[]\T1/ptm/m/n/10 , [897] [898] [899] [900] [901] [902] [903] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4872 \aliasA{symbol}{plotmath}{symbol} [904] [905] [906] [907] Underfull \vbox (badness 3803) has occurred while \output is active [908] [909] Underfull \hbox (badness 1584) in paragraph at lines 5265--5267 []\T1/ptm/m/n/10 For type []\T1/zi4/m/sl/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1 /zi4/m/sl/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 5269--5276 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [910] [911] [912] [913] Underfull \hbox (badness 1377) in paragraph at lines 5571--5576 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [914] [915] Underfull \hbox (badness 1377) in paragraph at lines 5675--5680 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/sl/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [916] Underfull \hbox (badness 7344) in paragraph at lines 5744--5746 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [917] [918] Underfull \hbox (badness 2035) in paragraph at lines 5883--5892 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 \T1/ptm/m/n/10 vided: []\T1/zi4/m/sl/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Courier"[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "Helveti ca-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5883--5892 []\T1/zi4/m/sl/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "P alatino" []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 "Times"[]\T1/ptm/m/n/10 ; []\T1 /zi4/m/sl/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "URWBookman"[]\T1/ ptm/m/n/10 , [919] Underfull \hbox (badness 10000) in paragraph at lines 5950--5955 []\T1/zi4/m/sl/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/ zi4/m/sl/10 https : / / ftp . gnu . org / pub / non-[]gnu / [920] [921] [922] Underfull \hbox (badness 1546) in paragraph at lines 6090--6098 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/sl/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi 4/m/sl/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 title[]\T1/ptm/m/n/10 , [] \T1/zi4/m/sl/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 encoding[]\T1/ptm/m/n /10 , []\T1/zi4/m/sl/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 fg[]\T1/ptm/m/n/ 10 , []\T1/zi4/m/sl/10 width[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928] Underfull \hbox (badness 6625) in paragraph at lines 6534--6537 []\T1/ptm/m/n/10 Murrell, P., Ooms, J., Al-laire, J.J. (2015), "Record-ing and Re-play-ing the Graph- [929] [930] Underfull \hbox (badness 10000) in paragraph at lines 6638--6641 []\T1/zi4/m/sl/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space ( red/green/blue) into HSV space [931] [932] [933] [934] Overfull \hbox (9.73488pt too wide) in paragraph at lines 6875--6875 []\T1/zi4/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 continuous=TRUE\TS1/zi4/m/n/9 '\T1/ zi4/m/n/9 ):[] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Underfull \hbox (badness 1189) in paragraph at lines 7503--7505 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [945] Underfull \hbox (badness 10000) in paragraph at lines 7608--7610 []\T1/zi4/m/sl/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for C JK lan-guages and [946] [947] [948] [949] [950] Underfull \hbox (badness 3780) in paragraph at lines 7923--7929 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/s l/10 "AvantGarde"[]\T1/ptm/m/n/10 , [951] [952] [953] [954] [955] [956]) (./graphics-pkg.tex Chapter 5. [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \vbox (badness 3803) has occurred while \output is active [968] [969] [970] [971] [972] [973] Overfull \hbox (12.71341pt too wide) in paragraph at lines 1037--1037 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [974] [975] [976] [977] [978] [979] Underfull \hbox (badness 4634) in paragraph at lines 1410--1413 [][][]\T1/zi4/m/sl/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready wor ks nowa-days with data.frames; [][][]\T1/zi4/m/sl/10 boxplot.formula[][][][]\T1 /ptm/m/n/10 , [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 1728) in paragraph at lines 2388--2390 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/sl/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [997] Underfull \hbox (badness 1009) in paragraph at lines 2481--2488 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [998] [999] [1000] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] Underfull \vbox (badness 10000) has occurred while \output is active [1021] Underfull \vbox (badness 10000) has occurred while \output is active [1022] [1023] [1024] [1025] [1026] [1027] Underfull \vbox (badness 3803) has occurred while \output is active [1028] [1029] [1030] [1031] [1032] [1033] [1034] Underfull \hbox (badness 3229) in paragraph at lines 4733--4738 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1035] [1036] [1037] [1038] [1039] Underfull \hbox (badness 1107) in paragraph at lines 5233--5239 []\T1/ptm/m/n/10 is []\T1/zi4/m/sl/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sc aled to user co-or-di-nates. Note that []\T1/zi4/m/sl/10 c([][]strwidth[][][](c h), [1040] [1041] Underfull \hbox (badness 10000) in paragraph at lines 5362--5365 [1042 ] Underfull \hbox (badness 10000) in paragraph at lines 5423--5425 [1043 ] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6097 \aliasA{plot}{plot.default}{plot} [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6997--6998 [][] [1068 ] [1069] Underfull \vbox (badness 3803) has occurred while \output is active [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Underfull \hbox (badness 4954) in paragraph at lines 9109--9111 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /sl/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 9111--9113 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/sl/10 pa r(c("font.lab", "cex.lab", [1103] [1104] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9191 \HeaderA{units}{Graphical Units}{units} [1105] [1106] [1107] [1108]) (./grid-pkg.tex Chapter 6. [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] Underfull \hbox (badness 2680) in paragraph at lines 551--554 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/sl/10 preDrawDetails []\T1/ptm/m/n/10 an d []\T1/zi4/m/sl/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal -cu-la-tion of [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] Underfull \hbox (badness 4279) in paragraph at lines 1188--1197 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/sl/10 pushViewport[][][][]\T1/ ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T 1/zi4/m/sl/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 seekVi ewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 upViewport[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/sl/10 unit[][][][]\T1/ptm/m/n/10 , [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] Underfull \hbox (badness 10000) in paragraph at lines 3103--3105 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] Underfull \vbox (badness 10000) has occurred while \output is active [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 1067) in paragraph at lines 4842--4845 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1191] [1192] [1193] [1194] [1195] [1196] Underfull \hbox (badness 7256) in paragraph at lines 5193--5195 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1197] [1198] [1199] [1200] [1201] [1202] [1203] Underfull \hbox (badness 2142) in paragraph at lines 5647--5651 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/sl/10 gridGTreeCoords []\T1/ptm/m/n/ 10 a list of ei-ther []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1204] [1205] Underfull \hbox (badness 4699) in paragraph at lines 5729--5734 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/sl/10 "GridGrobCoords" []\T1/ptm/m/n/10 o b-ject (a list of lists with com-po-nents []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 y[]\T1/ptm/m/n/10 ) or a [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] [1235] [1236] [1237]) (./methods-pkg.tex [1238] Chapter 7. [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] Underfull \vbox (badness 10000) has occurred while \output is active [1247] Underfull \vbox (badness 10000) has occurred while \output is active [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] Underfull \hbox (badness 2237) in paragraph at lines 1384--1386 []\T1/ptm/m/n/10 The class []\T1/zi4/m/sl/10 "className" []\T1/ptm/m/n/10 ex-te nds []\T1/zi4/m/sl/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/s l/10 "package"[]\T1/ptm/m/n/10 , also of class [1258] [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] Underfull \hbox (badness 10000) in paragraph at lines 1980--1985 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/m/n /10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1980--1985 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/sl/10 insertSource []\T1/ptm/ m/n/10 it calls []\T1/zi4/m/sl/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1267] [1268] [1269] Underfull \hbox (badness 2213) in paragraph at lines 2212--2217 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/sl/10 where = [1270] [1271] [1272] [1273] [1274] Underfull \hbox (badness 10000) in paragraph at lines 2572--2575 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/sl/10 setGeneric[][][] [] \T1/ptm/m/n/10 and [][][]\T1/zi4/m/sl/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 cre-ate ob-jects of class [1275] [1276] Underfull \hbox (badness 1132) in paragraph at lines 2712--2716 []\T1/ptm/m/n/10 In []\T1/zi4/m/sl/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi 4/m/sl/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/sl/10 package []\T1/ptm/m/n/10 slot of the re-turned re-sult is in [1277] Underfull \hbox (badness 1033) in paragraph at lines 2744--2749 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/sl/10 removeGeneric []\T1/ptm/m/n/10 re-moves the func-tion it-self; []\T1/zi4/m/sl/10 removeMethods []\T1/ptm/m/n/1 0 re-stores the [1278] [1279] [1280] [1281] [1282] [1283] [1284] Underfull \hbox (badness 1102) in paragraph at lines 3301--3303 []\T1/zi4/m/sl/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1285] [1286] [1287] [1288] [1289] Underfull \hbox (badness 10000) in paragraph at lines 3638--3647 []\T1/ptm/m/n/10 The [1290] [1291] Underfull \hbox (badness 10000) in paragraph at lines 3758--3759 [] \T1/zi4/m/sl/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longi tude = "numeric", [1292] Underfull \hbox (badness 10000) in paragraph at lines 3842--3843 []\T1/zi4/m/sl/10 Currency <- setClass("Currency", slots = c(unit = "character" ), contains = [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] Underfull \hbox (badness 1769) in paragraph at lines 4473--4479 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/sl/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4473--4479 []\T1/zi4/m/sl/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [ ][][]\T1/zi4/m/sl/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion u sed by [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] Underfull \vbox (badness 10000) has occurred while \output is active [1313] [1314] [1315] Underfull \hbox (badness 4036) in paragraph at lines 5438--5441 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/sl/10 "PossibleMethod" []\T1/ptm/m /n/10 the method to use in re-sponse to a [1316] [1317] Underfull \hbox (badness 3803) in paragraph at lines 5513--5515 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1318] [1319] [1320] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/sl/10 externalRe fMethod(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1330] [1331] [1332] [1333] Underfull \vbox (badness 10000) has occurred while \output is active [1334] [1335] [1336] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6972 \aliasA{S4}{S3Part}{S4} [1337] [1338] [1339] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7228 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7230 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7231 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7233 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7234 \aliasA{Summary}{S4groupGeneric}{Summary} [1340] Underfull \hbox (badness 2050) in paragraph at lines 7295--7299 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1341] [1342] [1343] Underfull \hbox (badness 1286) in paragraph at lines 7483--7485 []\T1/ptm/m/n/10 for []\T1/zi4/m/sl/10 .selectSuperClasses() []\T1/ptm/m/n/10 o nly, a [][][]\T1/zi4/m/sl/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cally [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] Underfull \vbox (badness 10000) has occurred while \output is active [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] Underfull \hbox (badness 1158) in paragraph at lines 10490--10493 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/zi4/m/sl/10 https : / / johnmchambers . su . domains / [1385] Underfull \hbox (badness 1852) in paragraph at lines 10568--10572 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1386] [1387] [1388] [1389]) (./parallel-pkg.tex [1390] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/sl/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [] []RNG[][][]: see [1391] [1392] [1393] [1394] [1395] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1396] [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 3386) in paragraph at lines 1400--1403 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/sl/10 .Random.seed []\T1/ptm/m/n/10 when the [1413] [1414]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/sl/10 \T1/ptm /m/n/10 and William N. Ven-ables [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430]) (./stats-pkg.tex Chapter 10. [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] Underfull \hbox (badness 1412) in paragraph at lines 901--903 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/sl/10 lm []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 aov[]\T1/ptm/m/n/10 , or a for-mula fo r [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] Underfull \hbox (badness 2503) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2503) in paragraph at lines 3557--3560 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1487] [1488] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3670. [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 3989) in paragraph at lines 4816--4823 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] Underfull \hbox (badness 2556) in paragraph at lines 5470--5473 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/sl/10 "circular"[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "filter"[]\T1/ptm/m/n/10 . For [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \hbox (badness 2503) in paragraph at lines 5882--5886 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] Underfull \hbox (badness 7081) in paragraph at lines 6674--6677 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/sl/10 "hclust" []\T1/ptm/m/n/10 c an be con-verted to class []\T1/zi4/m/sl/10 "dendrogram" []\T1/ptm/m/n/10 us-in g method Underfull \hbox (badness 10000) in paragraph at lines 6678--6680 []\T1/zi4/m/sl/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro- gram []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1537] [1538] [1539] [1540] [1541] [1542] Underfull \vbox (badness 10000) has occurred while \output is active [1543] [1544] [1545] Underfull \vbox (badness 10000) has occurred while \output is active [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 10000) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/sl/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1551] [1552] [1553] [1554] [1555] [1556] Underfull \vbox (badness 3803) has occurred while \output is active [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] Underfull \vbox (badness 3803) has occurred while \output is active [1573] [1574] [1575] [1576] [1577] [1578] Underfull \hbox (badness 2626) in paragraph at lines 9271--9274 []\T1/ptm/m/n/10 Either []\T1/zi4/m/sl/10 "convolution" []\T1/ptm/m/n/10 or []\ T1/zi4/m/sl/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1579] Underfull \hbox (badness 2503) in paragraph at lines 9378--9382 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] Underfull \hbox (badness 4518) in paragraph at lines 10733--10738 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2142) in paragraph at lines 11095--11098 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1606] Underfull \hbox (badness 1253) in paragraph at lines 11114--11117 []\T1/ptm/m/n/10 When []\T1/zi4/m/sl/10 trace []\T1/ptm/m/n/10 is true, calls t o [][][]\T1/zi4/m/sl/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for eac h IWLS it-er-a-tion. Hence, [1607] Underfull \hbox (badness 1708) in paragraph at lines 11176--11180 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1694) in paragraph at lines 11572--11575 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12053 \aliasA{hat}{influence.measures}{hat} [1622] [1623] Underfull \hbox (badness 1484) in paragraph at lines 12198--12200 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/sl/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1624] Underfull \vbox (badness 3803) has occurred while \output is active [1625] [1626] [1627] [1628] [1629] [1630] [1631] [1632] [1633] Underfull \hbox (badness 10000) in paragraph at lines 12785--12787 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/sl/10 solve.d efault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/sl/10 SSinit = [1634] [1635] [1636] [1637] [1638] Underfull \hbox (badness 2894) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1639] [1640] [1641] [1642] [1643] [1644] [1645] Underfull \hbox (badness 1496) in paragraph at lines 13555--13561 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1646] [1647] [1648] [1649] [1650] [1651] Underfull \hbox (badness 4518) in paragraph at lines 13958--13963 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] Underfull \hbox (badness 4518) in paragraph at lines 14620--14625 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1662] [1663] [1664] Underfull \hbox (badness 6412) in paragraph at lines 14760--14764 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/sl/10 (surface = "int erpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14767--14769 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/sl/10 family []\T1/ptm/m/n/10 is [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] Underfull \hbox (badness 2503) in paragraph at lines 15843--15847 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] Underfull \hbox (badness 10000) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16356--16362 []\T1/zi4/m/sl/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 model. response(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/sl/10 model.offset []\ T1/ptm/m/n/10 sums any terms [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] [1716] [1717] Underfull \hbox (badness 1158) in paragraph at lines 18014--18017 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/sl/10 nls []\T 1/ptm/m/n/10 as the data ar-gu-ment. The ac- [1718] [1719] Underfull \vbox (badness 10000) has occurred while \output is active [1720] Underfull \vbox (badness 10000) has occurred while \output is active [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 1377) in paragraph at lines 19057--19062 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 19062--19065 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 19075--19079 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 19075--19079 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/sl/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 19083--19087 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/sl/10 "BFGS"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/s l/10 "SANN" []\T1/ptm/m/n/10 meth-ods if [1735] [1736] [1737] Underfull \vbox (badness 10000) has occurred while \output is active [1738] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19308--19308 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19311--19311 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1739] [1740] [1741] [1742] [1743] [1744] [1745] Underfull \hbox (badness 1337) in paragraph at lines 19773--19776 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] Underfull \hbox (badness 10000) in paragraph at lines 20242--20248 \T1/zi4/m/sl/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/sl/10 s distance", lty = cook.lty, col = cook.col, text.col [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 1194) in paragraph at lines 20669--20672 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1762] [1763] [1764] [1765] [1766] [1767] Underfull \hbox (badness 2503) in paragraph at lines 21047--21050 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/sl/10 "two.sided"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 21074--21076 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/sl/10 "Exact Poisson test" []\T1/ptm/m/n/10 or []\T1/zi4/m/sl/10 "Comparison of Poisson [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] [1780] [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 10000) in paragraph at lines 22152--22158 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/sl/10 predict.ar [][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 predict.Arima[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/sl/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 1337) in paragraph at lines 23628--23634 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] Underfull \hbox (badness 1436) in paragraph at lines 24118--24121 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/sl/10 max(2, [1819] Underfull \hbox (badness 10000) in paragraph at lines 24256--24257 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . o rg / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] Underfull \hbox (badness 1824) in paragraph at lines 25226--25232 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/sl/10 x []\T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 25226--25232 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1836] Underfull \hbox (badness 10000) in paragraph at lines 25247--25250 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/sl/10 y = runmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/sl/10 y[j] = [1837] [1838] [1839] [1840] [1841] [1842] [1843] [1844] [1845] Underfull \hbox (badness 2165) in paragraph at lines 25822--25827 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/sl/10 "selfStart" []\T 1/ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/sl/10 SSasymp[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1846] [1847] [1848] [1849] Underfull \hbox (badness 1867) in paragraph at lines 26032--26034 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 26048--26052 []\T1/ptm/m/n/10 where []\T1/zi4/m/sl/10 NN <- [][]nobs[][][](object, use.fallb ack = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 PP <- [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \vbox (badness 10000) has occurred while \output is active [1875] [1876] Underfull \hbox (badness 3514) in paragraph at lines 27700--27705 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1877] [1878] [1879] [1880] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27934--27934 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27970--27976 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1881] Overfull \hbox (14.22568pt too wide) in paragraph at lines 28030--28030 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1882] [1883] [1884] [1885] Underfull \hbox (badness 3514) in paragraph at lines 28203--28208 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1886] Underfull \hbox (badness 3514) in paragraph at lines 28290--28295 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1887] Underfull \hbox (badness 3514) in paragraph at lines 28355--28360 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1888] [1889] Underfull \hbox (badness 3514) in paragraph at lines 28449--28454 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 inp ut[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1890] [1891] Underfull \hbox (badness 6691) in paragraph at lines 28541--28546 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/sl/10 x[] \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 4024) in paragraph at lines 29028--29031 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] [1908] [1909] Underfull \hbox (badness 5431) in paragraph at lines 29631--29633 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1910] [1911] [1912] Underfull \hbox (badness 5431) in paragraph at lines 29841--29844 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/sl/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1913] [1914] [1915] [1916] [1917] [1918] Underfull \hbox (badness 1337) in paragraph at lines 30156--30160 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1919] [1920] Underfull \hbox (badness 1127) in paragraph at lines 30293--30296 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for []\T1/zi4/m/sl/10 rt()[]\T1/ptm/m/n/10 , ac-cu-rate only for [1921] [1922] [1923] Underfull \hbox (badness 1616) in paragraph at lines 30499--30502 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1924] [1925] [1926] [1927] [1928] [1929] [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944] Underfull \hbox (badness 3557) in paragraph at lines 31726--31730 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/sl/10 extendInt []\T1/ptm/m/n/10 to a non- []\T1/zi4/m/sl/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-re ct []\T1/zi4/m/sl/10 interval = [1945] [1946] [1947] Underfull \vbox (badness 10000) has occurred while \output is active [1948] [1949] [1950] Underfull \hbox (badness 1337) in paragraph at lines 32093--32097 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] Underfull \hbox (badness 1337) in paragraph at lines 32621--32625 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1960] [1961] [1962] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32829--32829 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1963] [1964] [1965] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32990--32990 [] \T1/zi4/m/sl/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.ep s = getOption("ts.eps"), ...)[] [1966] [1967] [1968] [1969] [1970]) (./stats4-pkg.tex Chapter 11. [1971] [1972] [1973] Underfull \vbox (badness 10000) has occurred while \output is active [1974] Underfull \vbox (badness 10000) has occurred while \output is active [1975] [1976] [1977] [1978] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1979] [1980] [1981]) (./tcltk-pkg.tex [1982] Chapter 12. [1983] [1984] [1985] [1986] [1987] [1988] [1989] Underfull \vbox (badness 10000) has occurred while \output is active [1990] Underfull \vbox (badness 10000) has occurred while \output is active [1991] Underfull \hbox (badness 1546) in paragraph at lines 672--679 []\T1/zi4/m/sl/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call- ing any Tk or Tcl com-mand by sim-ply run-ning [1992] [1993] [1994] [1995] [1996] Underfull \vbox (badness 10000) has occurred while \output is active [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004]) (./tools-pkg.tex Chapter 13. [2005] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [2006] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/sl/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing wil l be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [2007] [2008] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/sl/10 b ibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 format InProceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatManual[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/sl/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatPhdthesi s[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 formatTechreport []\T1/ptm/m/n/10 and [2009] [2010] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gi ne to use. Over-rides any [2011] Underfull \hbox (badness 1142) in paragraph at lines 464--468 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [2012] [2013] [2014] [2015] [2016] [2017] [2018] [2019] [2020] [2021] [2022] [2023] [2024] Underfull \hbox (badness 1014) in paragraph at lines 1220--1222 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1226--1228 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [2025] Underfull \hbox (badness 10000) in paragraph at lines 1263--1266 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1263--1266 []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [2026] [2027] [2028] [2029] [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 1637--1640 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/sl/10 CRAN_aliases_db[]\T1/ptm /m/n/10 , []\T1/zi4/m/sl/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 CRAN_current_db []\T1/ptm/m/n/10 and [2032] [2033] Underfull \hbox (badness 4096) in paragraph at lines 1756--1764 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1766--1768 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 for all known trees (see [2034] [2035] [2036] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1967 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.1968 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2037] [2038] [2039] [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 3386) in paragraph at lines 2442--2445 []\T1/ptm/m/n/10 The de-fault method of []\T1/zi4/m/sl/10 as.Rconcordance []\T1 /ptm/m/n/10 searches for strings match-ing the pat-tern of [2045] [2046] Underfull \hbox (badness 4096) in paragraph at lines 2582--2590 \T1/zi4/m/sl/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2047] [2048] [2049] [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1424) in paragraph at lines 3516--3518 []\T1/zi4/m/sl/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] [2072] Underfull \hbox (badness 10000) in paragraph at lines 4232--4234 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 4388--4391 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/sl/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/sl/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2076] [2077] [2078] [2079] [2080] Underfull \hbox (badness 1796) in paragraph at lines 4745--4750 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/sl/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/sl/10 type = = [2081] [2082] Underfull \hbox (badness 1838) in paragraph at lines 4831--4837 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4831--4837 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2083] [2084] [2085] [2086] Underfull \hbox (badness 2197) in paragraph at lines 5112--5122 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/sl/10 available.packages[][][][]\T1/ptm/m/n/10 : [2087] Underfull \hbox (badness 1571) in paragraph at lines 5178--5182 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2088] [2089] [2090] [2091]) (./utils-pkg.tex [2092] Chapter 14. [2093] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/sl/10 insertions[]\T1/ptm/m/n/10 ', [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] Underfull \hbox (badness 10000) in paragraph at lines 728--734 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/sl/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/sl/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 728--734 []\T1/zi4/m/sl/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2104] [2105] [2106] Underfull \hbox (badness 3861) in paragraph at lines 934--939 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/sl/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/sl/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 1139--1141 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2110] [2111] [2112] Underfull \vbox (badness 10000) has occurred while \output is active [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1371) in paragraph at lines 1666--1668 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] [2129] Underfull \hbox (badness 2057) in paragraph at lines 2386--2388 []\T1/ptm/m/n/10 None for []\T1/zi4/m/sl/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2130] Underfull \hbox (badness 2150) in paragraph at lines 2461--2468 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/zi4/m/sl/10 citation() []\T1 /ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2461--2468 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2131] [2132] [2133] Underfull \vbox (badness 3803) has occurred while \output is active [2134] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2738 ... the Clipboard in MS Windows}{clipboard} [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] [2152] [2153] [2154] [2155] Underfull \hbox (badness 6842) in paragraph at lines 4048--4053 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/sl/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2156] Underfull \hbox (badness 1430) in paragraph at lines 4111--4115 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/sl/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2157] Underfull \hbox (badness 1184) in paragraph at lines 4182--4198 []\T1/ptm/m/n/10 On Win-dows with []\T1/zi4/m/sl/10 method = "libcurl"[]\T1/ptm /m/n/10 , the CA root cer-tifi-cates are pro-vided by the OS Underfull \hbox (badness 1019) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 con-tain-ing `[]\T1/zi4/m/sl/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron-ment vari- Underfull \hbox (badness 1668) in paragraph at lines 4182--4198 \T1/ptm/m/n/10 able []\T1/zi4/m/sl/10 CURL_CA_BUNDLE []\T1/ptm/m/n/10 must be s et to a path to a cer-tifi-cate bun-dle file, usu-ally named [2158] [2159] Underfull \hbox (badness 10000) in paragraph at lines 4332--4334 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/sl/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2160] [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5111 ...mat Unordered and Ordered Lists}{format} [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] Underfull \hbox (badness 1622) in paragraph at lines 5634--5638 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2181] [2182] [2183] [2184] [2185] [2186] Underfull \hbox (badness 1448) in paragraph at lines 6019--6024 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2187] [2188] [2189] [2190] [2191] [2192] [2193] [2194] Underfull \hbox (badness 1371) in paragraph at lines 6567--6569 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/sl/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/sl/10 ccaddress []\T1/ptm/m/n/10 to pass to [2195] [2196] Underfull \hbox (badness 1502) in paragraph at lines 6656--6662 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6656--6662 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2197] [2198] Underfull \hbox (badness 10000) in paragraph at lines 6833--6842 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, Underfull \hbox (badness 3354) in paragraph at lines 6833--6842 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R_DOC_DIR\T1/zi4/m/sl/10 /html/packages.html\T1 /ptm/m/n/10 ', which can be re-made by [][][]\T1/zi4/m/sl/10 make.packages.html [][][]()[]\T1/ptm/m/n/10 . [2199] Underfull \hbox (badness 2150) in paragraph at lines 6895--6898 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2200] [2201] Underfull \hbox (badness 3118) in paragraph at lines 7034--7036 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2202] [2203] [2204] Underfull \hbox (badness 1325) in paragraph at lines 7213--7217 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/sl/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2205] Underfull \hbox (badness 1424) in paragraph at lines 7305--7308 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2206] Underfull \hbox (badness 3219) in paragraph at lines 7377--7384 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/s l/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7377--7384 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7377--7384 [][][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7385--7388 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/sl/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2207] [2208] Underfull \hbox (badness 1024) in paragraph at lines 7514--7517 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/sl/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 , ] []\T1/ ptm/m/n/10 will Underfull \hbox (badness 10000) in paragraph at lines 7547--7552 [][][]\T1/zi4/m/sl/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/s l/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2209] Underfull \hbox (badness 5133) in paragraph at lines 7606--7610 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 10000) in paragraph at lines 8270--8272 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/sl/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2221] [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Underfull \hbox (badness 2310) in paragraph at lines 9057--9062 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2234] [2235] [2236] [2237] [2238] [2239] [2240] [2241] [2242] Underfull \hbox (badness 1248) in paragraph at lines 9628--9632 []\T1/zi4/m/sl/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2243] Underfull \hbox (badness 1789) in paragraph at lines 9706--9708 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2244] [2245] [2246] [2247] Underfull \hbox (badness 2600) in paragraph at lines 9930--9933 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic; de-faults to [2248] [2249] [2250] [2251] [2252] [2253] [2254] [2255] [2256] Underfull \hbox (badness 1097) in paragraph at lines 10567--10570 []\T1/ptm/m/n/10 The name []\T1/zi4/m/sl/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2257] [2258] Underfull \hbox (badness 3000) in paragraph at lines 10703--10708 [][][]\T1/zi4/m/sl/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ sl/10 read.table[][][][]\T1/ptm/m/n/10 ; [2259] [2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] Underfull \hbox (badness 2134) in paragraph at lines 11298--11303 [][][]\T1/zi4/m/sl/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ sl/10 write.table[][][][]\T1/ptm/m/n/10 ; [2268] Underfull \hbox (badness 10000) in paragraph at lines 11354--11359 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11354--11359 []\T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/sl/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/sl/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2269] [2270] [2271] [2272] [2273] [2274] [2275] [2276] Underfull \hbox (badness 1824) in paragraph at lines 11852--11856 \T1/zi4/m/sl/10 / / en . wikipedia . org / w / index . php ? title = Roman _ nu merals & oldid = 1188781837$[][]\T1/ptm/m/n/10 . Ac-cessed [2277] [2278] [2279] [2280] [2281] [2282] [2283] Underfull \hbox (badness 4060) in paragraph at lines 12297--12300 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/sl/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/sl/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12320--12320 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2284] [2285] [2286] [2287] Underfull \hbox (badness 2150) in paragraph at lines 12575--12577 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2288] [2289] [2290] [2291] Underfull \hbox (badness 10000) in paragraph at lines 12795--12799 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/sl/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12828--12834 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2292] Underfull \hbox (badness 2762) in paragraph at lines 12843--12849 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2293] [2294] Underfull \hbox (badness 1009) in paragraph at lines 13018--13030 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 13058--13060 []\T1/ptm/m/n/10 The file `\T1/zi4/m/sl/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/sl/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2295] Underfull \hbox (badness 1077) in paragraph at lines 13088--13095 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2296] [2297] [2298] [2299] [2300] [2301] Underfull \hbox (badness 3780) in paragraph at lines 13513--13519 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/sl/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via [2302] Underfull \hbox (badness 2635) in paragraph at lines 13531--13534 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/sl/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2303] [2304] [2305] Underfull \hbox (badness 2302) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2306] [2307] [2308] [2309] [2310] Underfull \hbox (badness 4441) in paragraph at lines 14040--14045 []\T1/ptm/m/n/10 logical; if []\T1/zi4/m/sl/10 TRUE []\T1/ptm/m/n/10 (de-fault) , [][][]\T1/zi4/m/sl/10 deparse[][][](control = \T1/ptm/m/sl/10 control\T1/zi4/ m/sl/10 ) []\T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 14049--14052 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2311] [2312] [2313] [2314] [2315] [2316] [2317] Underfull \hbox (badness 2932) in paragraph at lines 14480--14487 []\T1/ptm/m/n/10 If []\T1/zi4/m/sl/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fa ult) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 14480--14487 \T1/ptm/m/n/10 and se-lected if their []\T1/zi4/m/sl/10 extension []\T1/ptm/m/n /10 com-po-nent matches (as a reg-exp) the file name. Ob- [2318] [2319] [2320] Underfull \hbox (badness 1460) in paragraph at lines 14644--14653 \T1/ptm/m/n/10 drives can be in-cluded in filepaths). []\T1/zi4/m/sl/10 Rtools []\T1/ptm/m/n/10 4 and ear-lier in-cluded a []\T1/zi4/m/sl/10 tar []\T1/ptm/m/n /10 which used Underfull \hbox (badness 1019) in paragraph at lines 14662--14674 []\T1/ptm/m/n/10 For GNU []\T1/zi4/m/sl/10 tar[]\T1/ptm/m/n/10 , `[]\T1/zi4/m/s l/10 --format=ustar[]\T1/ptm/m/n/10 ' forces a more portable for-mat. 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See Underfull \hbox (badness 10000) in paragraph at lines 15539--15542 [][][]\T1/zi4/m/sl/10 install.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/ sl/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 download .packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/sl/10 installed.packages[][][ ][]\T1/ptm/m/n/10 , [2333] [2334] [2335] [2336] [2337] [2338] [2339] [2340] [2341] [2342] [2343] [2344] [2345] [2346] [2347] [2348]) (./fullrefman.ind [2349] [2350] [2351] [2352] [2353] [2354] [2355] [2356] [2357] [2358] [2359] [2360] [2361] [2362] [2363] [2364] [2365] [2366] [2367] [2368] [2369] [2370] [2371] [2372] [2373] [2374] [2375] [2376] [2377] [2378] [2379] [2380] [2381] [2382] [2383] [2384] [2385] [2386] [2387] [2388] [2389] [2390] [2391] [2392] [2393] [2394] [2395] [2396] [2397] [2398] [2399] [2400] [2401] [2402] [2403] [2404] [2405] [2406] Overfull \hbox (33.3567pt too wide) in paragraph at lines 10029--10031 []\T1/zi4/m/it/10 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'/build/reproducible-path/r-base-4.4.2/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' building package 'tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/compiler' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tools' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' building package 'utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/utils' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grDevices' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/graphics' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' building package 'stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/datasets' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' building package 'methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/methods' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' building package 'grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/grid' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' building package 'splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/splines' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/stats4' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk/src' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/tcltk' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[6]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[7]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[6]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel/src' make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/parallel' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library/base' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' building/updating vignettes for package 'grid' ... building/updating vignettes for package 'parallel' ... building/updating vignettes for package 'utils' ... building/updating vignettes for package 'stats' ... processing 'reshape.Rnw' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2' touch make-indep-stamp fakeroot debian/rules binary *** check *** xvfb-run make check-all make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests/Examples' Testing examples for package 'base' Testing examples for package 'tools' comparing 'tools-Ex.Rout' to 'tools-Ex.Rout.save' ... OK Testing examples for package 'utils' Testing examples for package 'grDevices' comparing 'grDevices-Ex.Rout' to 'grDevices-Ex.Rout.save' ... OK Testing examples for package 'graphics' comparing 'graphics-Ex.Rout' to 'graphics-Ex.Rout.save' ... OK Testing examples for package 'stats' comparing 'stats-Ex.Rout' to 'stats-Ex.Rout.save' ... NOTE 7529,7530c7529,7530 < Fisher's Exact Test for Count Data hybrid using asym.chisq. iff < (exp=5, perc=80, Emin=1) --- > Fisher's Exact Test for Count Data hybrid using asym.chisq. iff (exp=5, > perc=80, Emin=1) 14219,14220c14219 < 4-sample test for equality of proportions without continuity < correction --- > 4-sample test for equality of proportions without continuity correction 14249,14250c14248 < 4-sample test for equality of proportions without continuity < correction --- > 4-sample test for equality of proportions without continuity correction Testing examples for package 'datasets' comparing 'datasets-Ex.Rout' to 'datasets-Ex.Rout.save' ... OK Testing examples for package 'methods' Testing examples for package 'grid' comparing 'grid-Ex.Rout' to 'grid-Ex.Rout.save' ... OK Testing examples for package 'splines' comparing 'splines-Ex.Rout' to 'splines-Ex.Rout.save' ... OK Testing examples for package 'stats4' comparing 'stats4-Ex.Rout' to 'stats4-Ex.Rout.save' ... OK Testing examples for package 'tcltk' Testing examples for package 'compiler' Testing examples for package 'parallel' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests/Examples' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' running strict specific tests make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' running code in 'eval-etc.R' ... OK comparing 'eval-etc.Rout' to './eval-etc.Rout.save' ... OK running code in 'simple-true.R' ... OK comparing 'simple-true.Rout' to './simple-true.Rout.save' ... OK running code in 'arith-true.R' ... OK comparing 'arith-true.Rout' to './arith-true.Rout.save' ... OK running code in 'arith.R' ... OK comparing 'arith.Rout' to './arith.Rout.save' ... OK running code in 'lm-tests.R' ... OK comparing 'lm-tests.Rout' to './lm-tests.Rout.save' ... OK running code in 'ok-errors.R' ... OK comparing 'ok-errors.Rout' to './ok-errors.Rout.save' ... OK running code in 'method-dispatch.R' ... OK comparing 'method-dispatch.Rout' to './method-dispatch.Rout.save' ... OK running code in 'any-all.R' ... OK comparing 'any-all.Rout' to './any-all.Rout.save' ... OK running code in 'structure.R' ... OK comparing 'structure.Rout' to './structure.Rout.save' ... OK running code in 'd-p-q-r-tests.R' ... OK comparing 'd-p-q-r-tests.Rout' to './d-p-q-r-tests.Rout.save' ... OK make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' running sloppy specific tests make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' running code in 'complex.R' ... OK comparing 'complex.Rout' to './complex.Rout.save' ... OK running code in 'print-tests.R' ... OK comparing 'print-tests.Rout' to './print-tests.Rout.save' ... OK running code in 'lapack.R' ... OK comparing 'lapack.Rout' to './lapack.Rout.save' ... OK running code in 'datasets.R' ... OK comparing 'datasets.Rout' to './datasets.Rout.save' ... OK running code in 'datetime.R' ... OK comparing 'datetime.Rout' to './datetime.Rout.save' ...38c38 < [1] "1848-01-01 12:00:00 EST" --- > [1] "1848-01-01 12:00:00 LMT" 40c40 < [1] -3849922800 --- > [1] -3849923038 OK running code in 'iec60559.R' ... OK comparing 'iec60559.Rout' to './iec60559.Rout.save' ... OK make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' checking Sys.timezone ... make[5]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' running code in 'timezone.R' ... OK make[5]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' running regression tests ... make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' running code in 'array-subset.R' ... OK running code in 'classes-methods.R' ... OK running code in 'reg-tests-1a.R' ... OK running code in 'reg-tests-1b.R' ... OK running code in 'reg-tests-1c.R' ...make[4]: *** [Makefile.common:120: reg-tests-1c.Rout] Error 1 make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[3]: *** [Makefile.common:322: test-Reg] Error 2 make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[2]: *** [Makefile.common:193: test-all-basics] Error 1 make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[1]: *** [Makefile:310: check-all] Error 2 make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2' make: [debian/rules:409: check-stamp] Error 2 (ignored) touch check-stamp *** install-arch *** dh_testdir dh_testroot dh_prep -a dh_installdirs -A /build/reproducible-path/r-base-4.4.2/debian/r-base-core /usr/bin/make DESTDIR=/build/reproducible-path/r-base-4.4.2/debian/r-base-core install make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/m4' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tools' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc' installing doc ... mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/doc mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/man/man1 make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/html' installing doc/html ... mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/doc/html make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/html' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' installing doc/manual ... mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/doc/manual mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/doc/manual/images make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/etc' mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/etc installing etc ... make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/etc' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/share' installing share ... mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/R mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/dictionaries mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/encodings mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/java mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/licenses mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/make mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/Rd mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/Rd/macros mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/sh mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/texmf mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/texmf/bibtex/bib mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/texmf/bibtex/bst mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/texmf/tex/latex make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/share' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/scripts' mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/bin make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/scripts' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/include/R_ext make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include/R_ext' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/blas' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/blas' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tre' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/tzone' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/tzone' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/xdr' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/xdr' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/extra/intl' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra/intl' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/extra' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/appl' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/pkgconfig make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/bin/exec make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/main' mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/lib make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/main' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/modules make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/internet' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/lapack' make[4]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[4]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules/X11' make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/modules' make[3]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/library' mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/library installing packages ... building HTML index ... make[3]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/library' make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/tests' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/tests' make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2' (cd src/unix; \ rm -vf Rscript /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/bin/Rscript; \ /usr/bin/make CFLAGS="`DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CXXFLAGS` -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ CXXFLAGS="`DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CXXFLAGS` -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -mbranch-protection=standard -D_REENTRANT" \ CC=gcc \ CXX=g++ \ F77=gfortran \ RHOME=/usr/lib/R \ DESTDIR=/build/reproducible-path/r-base-4.4.2/debian/r-base-core \ install-Rscript ) removed 'Rscript' removed '/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/bin/Rscript' make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2/src/unix=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/unix' #ls -ltr /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/bin/ #strings src/unix/Rscript cp -vax src/unix/Rscript /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/bin/ 'src/unix/Rscript' -> '/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/bin/Rscript' #ls -ltr /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/bin/ #strings /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/bin/Rscript (cd src/nmath/standalone; \ /usr/bin/make DESTDIR=/build/reproducible-path/r-base-4.4.2/debian/r-base-core install ) make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/include' /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/include/Rmath.h is unchanged make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2/src/nmath/standalone' chmod a+x /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/share/sh/echo.sh rm -v /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/COPYING removed '/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/COPYING' (cd /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/; \ ln -s ../../share/common-licenses/GPL-2 COPYING) rm -v /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/doc/COPYING removed '/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/doc/COPYING' (cd /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/doc; \ ln -s ../../../share/common-licenses/GPL-2 COPYING) (cd /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/texmf/tex/latex && \ ln -s ../../../R/share/texmf R) dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html dh_movefiles --sourcedir=debian/r-base-core -pr-base-html make prefix=/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr \ rdocdir=/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/R/doc \ install-pdf make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' installing R manuals in PDF format ... make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2' make prefix=/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr \ infodir=/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info install-info make[1]: Entering directory '/build/reproducible-path/r-base-4.4.2' make[2]: Entering directory '/build/reproducible-path/r-base-4.4.2/doc/manual' mkdir -p -- /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info /usr/bin/install -c -m 644 "./dir" "/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info" installing R info pages ... updating '/build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/dir' ... you need to adjust /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/dir manually make[2]: Leaving directory '/build/reproducible-path/r-base-4.4.2/doc/manual' make[1]: Leaving directory '/build/reproducible-path/r-base-4.4.2' dh_movefiles --sourcedir=debian/r-base-core -pr-doc-pdf dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html gunzip -9v /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/*.gz /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-FAQ.info.gz: 67.4% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-FAQ.info /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-admin.info.gz: 68.2% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-admin.info /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-data.info.gz: 70.9% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-data.info /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-exts.info-1.gz: 66.8% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-exts.info-1 /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-exts.info-2.gz: 67.9% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-exts.info-2 /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-exts.info-3.gz: 76.7% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-exts.info-3 /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-exts.info.gz: 70.8% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-exts.info /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-intro.info.gz: 70.4% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-intro.info /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-ints.info.gz: 68.7% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-ints.info /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-lang.info.gz: 72.0% -- replaced with /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/info/R-lang.info dh_movefiles --sourcedir=debian/r-base-core -pr-doc-info rm -vf /build/reproducible-path/r-base-4.4.2/debian/r-doc-info/usr/share/info/dir \ /build/reproducible-path/r-base-4.4.2/debian/r-doc-info/usr/share/info/dir.old removed '/build/reproducible-path/r-base-4.4.2/debian/r-doc-info/usr/share/info/dir' touch install-indep-stamp dh_installdirs -pr-mathlib usr/include usr/lib \ usr/share/lintian/overrides \ usr/lib/pkgconfig dh_movefiles --sourcedir=debian/r-base-core -pr-mathlib (cd /build/reproducible-path/r-base-4.4.2/debian/r-mathlib/usr/lib; \ ls -l ; \ mv -v libRmath.so libRmath.so.1.0.0; \ ln -sv libRmath.so.1.0.0 libRmath.so.1; \ ln -sv libRmath.so.1 libRmath.so) total 2212 -rw-r--r-- 1 root root 1511054 Jan 21 03:25 libRmath.a -rwxr-xr-x 1 root root 751696 Jan 21 03:25 libRmath.so drwxr-xr-x 2 root root 60 Jan 21 03:25 pkgconfig renamed 'libRmath.so' -> 'libRmath.so.1.0.0' 'libRmath.so.1' -> 'libRmath.so.1.0.0' 'libRmath.so' -> 'libRmath.so.1' install -m 0644 src/include/Rmath.h \ /build/reproducible-path/r-base-4.4.2/debian/r-mathlib/usr/include install -m 0644 debian/Rprofile.site /build/reproducible-path/r-base-4.4.2/debian/r-base-core/etc/R install -m 0644 debian/Renviron.site /build/reproducible-path/r-base-4.4.2/debian/r-base-core/etc/R (cd /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/etc; \ mv Makeconf repositories ldpaths ../../../../etc/R/; \ mv Renviron Renviron.ucf; \ ln -s /etc/R/Makeconf .; \ ln -s /etc/R/Renviron .; \ ln -s /etc/R/Renviron.site .; \ ln -s /etc/R/Rprofile.site .; \ ln -s /etc/R/ldpaths .; \ ln -s /etc/R/repositories . ) dh_bash-completion # edd 12 Jan 2016 new location #install -m 0644 debian/R.bash-completion \ # debian/r-base-core/usr/share/bash-completion/completions/R (cd /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/; \ ln -sv R/lib/libR.so . ) './libR.so' -> 'R/lib/libR.so' (cd debian/icon-class-patch && munpack rlogo_icon.png.mpack) rlogo_icon.png (application/octet-stream) install -m 0644 debian/icon-class-patch/rlogo_icon.png \ debian/r-base-core/usr/share/icons/hicolor/48x48/apps install -m 0644 debian/icon-class-patch/Rlogo.svg \ debian/r-base-core/usr/share/icons/hicolor/scalable/apps/rlogo_icon.svg install -m 0644 debian/icon-class-patch/R.desktop \ debian/r-base-core/usr/share/applications rm debian/icon-class-patch/rlogo_icon.png touch install-arch-stamp *** binary-arch *** dh_testdir -a dh_testroot -a dh_installdocs -pr-base-core doc/NEWS.* README \ debian/README.Atlas \ debian/README.mathlib dh_installdocs -pr-mathlib doc/NEWS.* README \ debian/README.mathlib dh_installexamples -pr-mathlib src/nmath/standalone/test.c (cd /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../R/doc .) (cd /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/library .) install -p -m 0644 debian/r-base-core.lintian \ /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/share/lintian/overrides/r-base-core install -p -m 0644 debian/r-recommended.lintian \ /build/reproducible-path/r-base-4.4.2/debian/r-recommended/usr/share/lintian/overrides/r-recommended install -p -m 0644 debian/r-mathlib.lintian \ /build/reproducible-path/r-base-4.4.2/debian/r-mathlib/usr/share/lintian/overrides/r-mathlib dh_installchangelogs -a -k doc/NEWS dh_strip -a dh_compress -a dh_fixperms -a dh_link -a dh_makeshlibs -a dh_installdeb -a dh_perl -a dh_shlibdeps -a -l /build/reproducible-path/r-base-4.4.2/debian/r-base-core/usr/lib/R/lib dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dpkg-shlibdeps: warning: can't extract name and version from library name 'libtcl8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtk8.6.so' dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libtirpc3t64 from: /lib/aarch64-linux-gnu/libtirpc.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libtirpc3t64 to: /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libreadline8t64 from: /lib/aarch64-linux-gnu/libreadline.so.8 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libreadline8t64 to: /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged *** Getting graphics engine version from 'GraphicsEngine.h' header echo R_GE_version | cpp -I ./src/include/ -include R_ext/GraphicsEngine.h | tail -n1 | sed 's/^/graphicsengine:Version=/' >> debian/r-base-core.substvars libfakeroot internal error: payload not recognized! dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'r-base-core-dbgsym' in '../r-base-core-dbgsym_4.4.2-1_arm64.deb'. dpkg-deb: building package 'r-mathlib' in '../r-mathlib_4.4.2-1_arm64.deb'. dpkg-deb: building package 'r-mathlib-dbgsym' in '../r-mathlib-dbgsym_4.4.2-1_arm64.deb'. dpkg-deb: building package 'r-base-core' in '../r-base-core_4.4.2-1_arm64.deb'. *** binary-indep *** dh_testdir -i dh_testroot -i dh_link -i dh_installdocs -i dh_installdocs -v -pr-doc-html install -p -m0644 debian/copyright debian/r-doc-html/usr/share/doc/r-doc-html/copyright install -m0755 -d debian/r-doc-html/usr/share/doc-base/ install -p -m0644 debian/r-doc-html.doc-base.admin debian/r-doc-html/usr/share/doc-base/r-doc-html.r-admin install -p -m0644 debian/r-doc-html.doc-base.intro debian/r-doc-html/usr/share/doc-base/r-doc-html.r-intro install -p -m0644 debian/r-doc-html.doc-base.exts debian/r-doc-html/usr/share/doc-base/r-doc-html.r-extensions install -p -m0644 debian/r-doc-html.doc-base.data debian/r-doc-html/usr/share/doc-base/r-doc-html.r-data install -p -m0644 debian/r-doc-html.doc-base.lang debian/r-doc-html/usr/share/doc-base/r-doc-html.r-language install -p -m0644 debian/r-doc-html.doc-base.faq debian/r-doc-html/usr/share/doc-base/r-doc-html.r-faq install -p -m0644 debian/r-doc-html.doc-base.ints debian/r-doc-html/usr/share/doc-base/r-doc-html.r-ints dh_installchangelogs -i dh_installdirs -pr-base-dev usr/share/R/debian install -p -m 0755 debian/r-cran.mk \ /build/reproducible-path/r-base-4.4.2/debian/r-base-dev/usr/share/R/debian dh_compress -i dh_fixperms -i dh_installdeb -i dh_gencontrol -i dh_md5sums -i dh_builddeb -i dpkg-deb: building package 'r-base' in '../r-base_4.4.2-1_all.deb'. dpkg-deb: building package 'r-base-html' in '../r-base-html_4.4.2-1_all.deb'. dpkg-deb: building package 'r-doc-pdf' in '../r-doc-pdf_4.4.2-1_all.deb'. dpkg-deb: building package 'r-base-dev' in '../r-base-dev_4.4.2-1_all.deb'. dpkg-deb: building package 'r-doc-html' in '../r-doc-html_4.4.2-1_all.deb'. dpkg-deb: building package 'r-doc-info' in '../r-doc-info_4.4.2-1_all.deb'. dpkg-deb: building package 'r-recommended' in '../r-recommended_4.4.2-1_all.deb'. dpkg-genbuildinfo --build=binary -O../r-base_4.4.2-1_arm64.buildinfo dpkg-genchanges --build=binary -O../r-base_4.4.2-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3058229 and its subdirectories I: Current time: Wed Jan 21 03:25:51 -12 2026 I: pbuilder-time-stamp: 1769009151 Thu Dec 19 09:03:31 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink02-arm64.debian.net. Thu Dec 19 09:03:31 UTC 2024 I: Preparing to do remote build '2' on codethink02-arm64.debian.net. Thu Dec 19 09:22:17 UTC 2024 I: Deleting $TMPDIR on codethink02-arm64.debian.net. Thu Dec 19 09:22:18 UTC 2024 I: r-base_4.4.2-1_arm64.changes: Format: 1.8 Date: Thu, 31 Oct 2024 07:26:21 -0500 Source: r-base Binary: r-base r-base-core r-base-core-dbgsym r-base-dev r-base-html r-doc-html r-doc-info r-doc-pdf r-mathlib r-mathlib-dbgsym r-recommended Architecture: arm64 all Version: 4.4.2-1 Distribution: unstable Urgency: medium Maintainer: Dirk Eddelbuettel Changed-By: Dirk Eddelbuettel Description: r-base - GNU R statistical computation and graphics system r-base-core - GNU R core of statistical computation and graphics system r-base-dev - GNU R installation of auxiliary GNU R packages r-base-html - GNU R html docs for statistical computing system functions r-doc-html - GNU R html manuals for statistical computing system r-doc-info - GNU R info manuals statistical computing system r-doc-pdf - GNU R pdf manuals for statistical computing system r-mathlib - GNU R standalone mathematics library r-recommended - GNU R collection of recommended packages [metapackage] Changes: r-base (4.4.2-1) unstable; urgency=medium . * New upstream release Checksums-Sha1: f52cb7f9035e579298d004ef4d985791e2a4949f 6719000 r-base-core-dbgsym_4.4.2-1_arm64.deb e8fe2ab8964f9ebc04a9e2d0813e675ad0677dc8 28131564 r-base-core_4.4.2-1_arm64.deb 022eab3bec89a7c7f5c6215ff5f57a32cf78a2ec 4516 r-base-dev_4.4.2-1_all.deb dd82891697a0b31a9e9f83b69b2eafaefc55f568 62960 r-base-html_4.4.2-1_all.deb 7ab38ac2d2be9f5edafe3f42416be554b8e1de18 14664 r-base_4.4.2-1_all.deb f910033bc3d4fa6e35e78f39f2678baedc2cd1bc 19327 r-base_4.4.2-1_arm64.buildinfo 7702527a4b56d79b84cde90dbb4f065b84b18073 581572 r-doc-html_4.4.2-1_all.deb dea02d143ee6c59d637e8256d170349766a053d2 639692 r-doc-info_4.4.2-1_all.deb 33dcec19b9a281c874e2c1077d57d5ac29263691 9992472 r-doc-pdf_4.4.2-1_all.deb 710138ec80530094c100937a95742d93a1dbaf97 211304 r-mathlib-dbgsym_4.4.2-1_arm64.deb ecfe7f62a4d16b149e1de8b8e656dedb0d135b07 2582368 r-mathlib_4.4.2-1_arm64.deb a75f2ddad212e8ed0e542df3fd194f2f2a83c954 2768 r-recommended_4.4.2-1_all.deb Checksums-Sha256: 9de17135a0dc91ea35dc71122a5746640aede2500a8f4430d21613418245e6a3 6719000 r-base-core-dbgsym_4.4.2-1_arm64.deb fe2c5f5df8601dee6e91a939f76fd6628b1c806a6a5b5970a2d99e64a5132e7a 28131564 r-base-core_4.4.2-1_arm64.deb ae93faefedc03cb45dc11d29a422ed53a53be5da9356824d5da850ac4047bc5d 4516 r-base-dev_4.4.2-1_all.deb 46c95ee121e11f9ae0b192bbd32a3ca9d86ceffcb6834368cd8edc8b476378b6 62960 r-base-html_4.4.2-1_all.deb f6961426730fc752288430c832e36bae954150109b726b029f04327b941f5aa4 14664 r-base_4.4.2-1_all.deb b4196e573ed0ec243e60fed79e3f0fae7d03d809802beb72500bcb2f8f2fc9da 19327 r-base_4.4.2-1_arm64.buildinfo 101e4eed1a9ab2e84f7378a49b01bcb6e0aeb2f4ec0a5e603d8f7e5d35b91fc6 581572 r-doc-html_4.4.2-1_all.deb e200f360ca0d5caec1779de97f1c1a396903e45fa622bf47b5de67e90d234e1f 639692 r-doc-info_4.4.2-1_all.deb 0fc53b3299424b2a40fb0960bae628237a6907cd5bd4ae41fbf3bd7ee73078ea 9992472 r-doc-pdf_4.4.2-1_all.deb 4bfe8cad83dc4cdda5388a90346157f1e0d9ec92c019ec64f6ef8a94add201db 211304 r-mathlib-dbgsym_4.4.2-1_arm64.deb ab4ba9bdaa2096be181826c28a3cd926cc01a2c2899db4d6706c5453dd7cfd8a 2582368 r-mathlib_4.4.2-1_arm64.deb 17a81ceca18b1776c4287a9ede62aa9dd596bd3c4a31a445c9422d78bd7dad57 2768 r-recommended_4.4.2-1_all.deb Files: bb8ae30a725289c34009295c183d8567 6719000 debug optional r-base-core-dbgsym_4.4.2-1_arm64.deb ebaac8a87f2d82dd3da039550ae3bd44 28131564 gnu-r optional r-base-core_4.4.2-1_arm64.deb f0985e562f40077c922789e539280634 4516 gnu-r optional r-base-dev_4.4.2-1_all.deb d75fa82fed0cc4edff2c0c88e116793f 62960 doc optional r-base-html_4.4.2-1_all.deb 91bbd2fb89bd089562dfba2b6f26d1b8 14664 gnu-r optional r-base_4.4.2-1_all.deb fc0c9c025a73000f58fe7dc391a82c97 19327 gnu-r optional r-base_4.4.2-1_arm64.buildinfo 2f6ecd4c7507552ea5eecc7f14b85a77 581572 doc optional r-doc-html_4.4.2-1_all.deb af83f47e71c99b0738ebeb4ad7aed01f 639692 doc optional r-doc-info_4.4.2-1_all.deb f9f280350152194ef5cd88f2e300937a 9992472 doc optional r-doc-pdf_4.4.2-1_all.deb e14d2fed86333af56725159fc3137855 211304 debug optional r-mathlib-dbgsym_4.4.2-1_arm64.deb d755036589d8f2c6563a3f51ba2889e9 2582368 gnu-r optional r-mathlib_4.4.2-1_arm64.deb 47f462caf97d3ec55f2f53880ce3fef8 2768 gnu-r optional r-recommended_4.4.2-1_all.deb Thu Dec 19 09:22:19 UTC 2024 I: diffoscope 284 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_13-52507.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.pha4H7eF/r-base_4.4.2-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.pha4H7eF/r-base_4.4.2-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.pha4H7eF/r-base_4.4.2-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.pha4H7eF/b1/r-base_4.4.2-1_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.pha4H7eF/b2/r-base_4.4.2-1_arm64.changes ## close_archive (total time: 0.000s) 0.000s 36 calls diffoscope.comparators.gzip.GzipContainer 0.000s 10 calls diffoscope.comparators.xz.XzContainer 0.000s 8 calls diffoscope.comparators.tar.TarContainer 0.000s 2 calls diffoscope.comparators.deb.DebContainer 0.000s 2 calls diffoscope.comparators.deb.DebTarContainer ## command (total time: 19.346s) 7.247s 48 calls diff 5.694s 33 calls pdftotext 2.671s 12 calls xz 1.967s 10 calls xxd 1.542s 198 calls Rscript 0.074s 36 calls gzip 0.072s 9 calls cmp 0.071s 9 calls cmp (external) 0.007s 87 calls cmp (internal) ## compare_files (cumulative) (total time: 1024.192s) 204.598s 1 call abc.DotChangesFile 204.423s 2 calls abc.DebFile 204.088s 4 calls abc.XzFile 201.197s 2 calls abc.DebDataTarFile 178.037s 3 calls abc.PdfFile 11.962s 18 calls abc.GzipFile 11.746s 16 calls abc.RdsFile 7.443s 2 calls abc.RdbFile 0.499s 17 calls abc.TextFile 0.152s 2 calls abc.TarFile 0.047s 2 calls abc.Md5sumsFile ## container_extract (total time: 4.291s) 2.672s 12 calls diffoscope.comparators.xz.XzContainer 1.306s 2482 calls diffoscope.comparators.deb.DebTarContainer 0.222s 16 calls diffoscope.comparators.deb.DebContainer 0.075s 36 calls diffoscope.comparators.gzip.GzipContainer 0.016s 24 calls diffoscope.comparators.tar.TarContainer ## diff (total time: 0.620s) 0.620s 295 calls linediff ## has_same_content_as (total time: 0.088s) 0.030s 11 calls abc.DebFile 0.024s 2 calls abc.DebDataTarFile 0.022s 3 calls abc.PdfFile 0.005s 32 calls abc.TextFile 0.002s 21 calls diffoscope.comparators.utils.libarchive.LibarchiveSymlink 0.002s 16 calls abc.RdsFile 0.001s 18 calls abc.GzipFile 0.001s 4 calls abc.Md5sumsFile 0.000s 2 calls abc.TarFile 0.000s 2 calls abc.RdbFile 0.000s 1 call abc.DotChangesFile 0.000s 4 calls abc.XzFile ## main (total time: 209.263s) 209.208s 2 calls outputs 0.055s 1 call cleanup ## open_archive (total time: 0.001s) 0.000s 36 calls diffoscope.comparators.gzip.GzipContainer 0.000s 12 calls diffoscope.comparators.xz.XzContainer 0.000s 8 calls diffoscope.comparators.tar.TarContainer 0.000s 4 calls diffoscope.comparators.deb.DebTarContainer 0.000s 4 calls diffoscope.comparators.deb.DebContainer ## output (total time: 3.503s) 3.295s 1 call html 0.122s 1 call text 0.086s 1 call json ## recognizes (total time: 1.374s) 0.586s 12 calls diffoscope.comparators.binary.FilesystemFile 0.499s 4324 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.166s 2408 calls diffoscope.comparators.utils.archive.ArchiveMember 0.122s 594 calls diffoscope.comparators.debian.DebControlMember ## specialize (total time: 0.790s) 0.790s 116 calls specialize Finished with result: success Main processes terminated with: code=exited/status=1 Service runtime: 3min 30.833s CPU time consumed: 3min 36.343s Thu Dec 19 09:25:50 UTC 2024 W: Diffoscope claims the build is reproducible, but there is a diffoscope file. Please investigate. Thu Dec 19 09:25:50 UTC 2024 E: r-base failed to build reproducibly in unstable on arm64. Thu Dec 19 09:25:59 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Dec 19 09:25:59 UTC 2024 I: Submitting 20K b1/r-base_4.4.2-1_arm64.buildinfo.asc Thu Dec 19 09:26:00 UTC 2024 I: Submitting 20K b2/r-base_4.4.2-1_arm64.buildinfo.asc Thu Dec 19 09:26:00 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Dec 19 09:26:00 UTC 2024 I: Done submitting .buildinfo files. Thu Dec 19 09:26:00 UTC 2024 I: Removing signed r-base_4.4.2-1_arm64.buildinfo.asc files: removed './b1/r-base_4.4.2-1_arm64.buildinfo.asc' removed './b2/r-base_4.4.2-1_arm64.buildinfo.asc'