Sat Oct 26 10:28:41 UTC 2024 I: starting to build r-bioc-biocsingular/trixie/amd64 on jenkins on '2024-10-26 10:28' Sat Oct 26 10:28:41 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_38/31783/console.log Sat Oct 26 10:28:41 UTC 2024 I: Downloading source for trixie/r-bioc-biocsingular=1.20.0+ds-1 --2024-10-26 10:28:41-- http://deb.debian.org/debian/pool/main/r/r-bioc-biocsingular/r-bioc-biocsingular_1.20.0%2bds-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2387 (2.3K) [text/prs.lines.tag] Saving to: ‘r-bioc-biocsingular_1.20.0+ds-1.dsc’ 0K .. 100% 278M=0s 2024-10-26 10:28:41 (278 MB/s) - ‘r-bioc-biocsingular_1.20.0+ds-1.dsc’ saved [2387/2387] Sat Oct 26 10:28:41 UTC 2024 I: r-bioc-biocsingular_1.20.0+ds-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: r-bioc-biocsingular Binary: r-bioc-biocsingular Architecture: any Version: 1.20.0+ds-1 Maintainer: Debian R Packages Maintainers Uploaders: Steffen Moeller Homepage: https://bioconductor.org/packages/BiocSingular/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-biocsingular Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-biocsingular.git Testsuite: autopkgtest-pkg-r Build-Depends: debhelper-compat (= 13), architecture-is-64-bit, dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-cran-matrix, r-bioc-delayedarray (>= 0.30.1), r-bioc-biocparallel (>= 1.38.0), r-bioc-scaledmatrix (>= 1.12.0), r-cran-irlba, r-cran-rsvd, r-cran-rcpp, r-bioc-beachmat (>= 2.20.0) Package-List: r-bioc-biocsingular deb gnu-r optional arch=any Checksums-Sha1: d65de9fe23d8d2b9968f1ebd0407e533134263c0 21504 r-bioc-biocsingular_1.20.0+ds.orig.tar.xz f30ed0029791caa70f731266b4ca3669f66aa13c 2792 r-bioc-biocsingular_1.20.0+ds-1.debian.tar.xz Checksums-Sha256: 3601b2ba4080120b0ee5a48cbba50f6c45fd7256e805e16b7ad6c6962be88a03 21504 r-bioc-biocsingular_1.20.0+ds.orig.tar.xz 8acd95ca73b31cd1bb51862d415cc89335b17834a7a03c1f8e4057bd862494b7 2792 r-bioc-biocsingular_1.20.0+ds-1.debian.tar.xz Files: a57050bf43499ece2e5de64f592209a5 21504 r-bioc-biocsingular_1.20.0+ds.orig.tar.xz eabb9d9167f5557d849f6c263e9b5344 2792 r-bioc-biocsingular_1.20.0+ds-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmbA+IMACgkQPCZ2P2xn 5uK4zBAAzCjSNOQKF5uk4oMZC+EqUrgpGvr9cXk3dey7GpITpwDxr2inQy/Ocnxm Rc8n1u6bQB3cfVM/QTz3xKwmcgwnj0gLdXS6fWSXEJ1efSo8tm6nTASGAjz1PQR2 SDLgzA8VbfB5WebapB/rOiFewD4+IxfRR+/W4Es235We/GjWMpPeMe2SZf8piLsZ 6CO24I47/p+Bv69M6WWWc628E9iZE9m1LGyWs8hu/ZgwMDOhBTuom5ypkRuB64BE ldiYzB7T8iZYPhUL5A+LYIULGp0RbBs2mycQKTDhi/EliMSrqB0boP1aIa9/N85B wIMWF9PE+v+XBU/4CjzWatlzj3l95mjUEOnGQ3UbuIz3XIlRiv8fpayEzbQEZKss RpZqnQOaWFg+Xykc0mnc6dcw2rp3Bc0QTUVOhwY6iS00J3NCSTPORICRBYU77DtR 4rwffpt1a0lEbwNnvopZo+BJvwkZuylV871qFNZj77FhTkQjaSMDtG1nVWpJmHSU H7ur/H8pi79TNlJVpjyQIt6yIR9pWYxvqxE4DdOFjtZ8OLS1ntfDcJ2jbNctOE6m O8oXIAsjJQMrQk5YYr0BZQ8PfKb4ClL/RrZrIlXKz+YxQ0tQimWVZROz00Ss00rN f2aeuFyBRR3Q6Ia08jll7EZDC+1z0pnyXl8NPuqrN9f9qWJ90Dw= =i4eX -----END PGP SIGNATURE----- Sat Oct 26 10:28:41 UTC 2024 I: Checking whether the package is not for us Sat Oct 26 10:28:41 UTC 2024 I: Starting 1st build on remote node infom02-amd64.debian.net. Sat Oct 26 10:28:41 UTC 2024 I: Preparing to do remote build '1' on infom02-amd64.debian.net. Sat Oct 26 10:34:08 UTC 2024 I: Deleting $TMPDIR on infom02-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Nov 28 04:51:43 -12 2025 I: pbuilder-time-stamp: 1764348703 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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-bioc-biocsingular_1.20.0+ds-1.dsc] I: copying [./r-bioc-biocsingular_1.20.0+ds.orig.tar.xz] I: copying [./r-bioc-biocsingular_1.20.0+ds-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Aug 17 19:22:43 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./r-bioc-biocsingular_1.20.0+ds-1.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-biocsingular in r-bioc-biocsingular-1.20.0+ds dpkg-source: info: unpacking r-bioc-biocsingular_1.20.0+ds.orig.tar.xz dpkg-source: info: unpacking r-bioc-biocsingular_1.20.0+ds-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1710954/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='e2ed6bc4bc9843b0b5ebaf29bacde7ea' 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='1710954' 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.7RNbAYVc/pbuilderrc_OX79 --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.7RNbAYVc/b1 --logfile b1/build.log r-bioc-biocsingular_1.20.0+ds-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' I: uname -a Linux infom02-amd64 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1710954/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: amd64 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: debhelper-compat (= 13), architecture-is-64-bit, dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.50.0), r-bioc-s4vectors (>= 0.42.1), r-cran-matrix, r-bioc-delayedarray (>= 0.30.1), r-bioc-biocparallel (>= 1.38.0), r-bioc-scaledmatrix (>= 1.12.0), r-cran-irlba, r-cran-rsvd, r-cran-rcpp, r-bioc-beachmat (>= 2.20.0) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 21880 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 debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics (>= 0.50.0); however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-s4vectors (>= 0.42.1); however: Package r-bioc-s4vectors is not installed. pbuilder-satisfydepends-dummy depends on r-cran-matrix; however: Package r-cran-matrix is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-delayedarray (>= 0.30.1); however: Package r-bioc-delayedarray is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocparallel (>= 1.38.0); however: Package r-bioc-biocparallel is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-scaledmatrix (>= 1.12.0); however: Package r-bioc-scaledmatrix is not installed. pbuilder-satisfydepends-dummy depends on r-cran-irlba; however: Package r-cran-irlba is not installed. pbuilder-satisfydepends-dummy depends on r-cran-rsvd; however: Package r-cran-rsvd is not installed. pbuilder-satisfydepends-dummy depends on r-cran-rcpp; however: Package r-cran-rcpp is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-beachmat (>= 2.20.0); however: Package r-bioc-beachmat 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: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-x86-64-linux-gnu{a} gfortran-x86-64-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libboost-dev{a} libboost1.83-dev{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-14-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} littler{a} m4{a} man-db{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-bioc-beachmat{a} r-bioc-biocgenerics{a} r-bioc-biocparallel{a} r-bioc-delayedarray{a} r-bioc-iranges{a} r-bioc-matrixgenerics{a} r-bioc-s4arrays{a} r-bioc-s4vectors{a} r-bioc-scaledmatrix{a} r-bioc-sparsearray{a} r-bioc-xvector{a} r-bioc-zlibbioc{a} r-cran-abind{a} r-cran-bh{a} r-cran-codetools{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-formatr{a} r-cran-futile.logger{a} r-cran-futile.options{a} r-cran-irlba{a} r-cran-lambda.r{a} r-cran-lattice{a} r-cran-littler{a} r-cran-matrix{a} r-cran-matrixstats{a} r-cran-pkgkitten{a} r-cran-rcpp{a} r-cran-rsvd{a} r-cran-snow{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx publicsuffix r-cran-base64enc r-cran-bench r-cran-brio r-cran-callr r-cran-cli r-cran-covr r-cran-decor r-cran-desc r-cran-ggplot2 r-cran-glue r-cran-knitr r-cran-lobstr r-cran-markdown r-cran-microbenchmark r-cran-mockery r-cran-plyr r-cran-progress r-cran-r.devices r-cran-r.rsp r-cran-rmarkdown r-cran-rstudioapi r-cran-scales r-cran-shiny r-cran-survival r-cran-testit r-cran-testthat r-cran-tibble r-cran-vctrs r-cran-withr r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 219 newly installed, 0 to remove and 0 not upgraded. Need to get 140 MB of archives. After unpacking 543 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024a-4 [255 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.3.2-1 [1381 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.2-9 [97.2 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 architecture-properties amd64 0.2.3 [2184 B] Get: 17 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-7 [517 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 29 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.191-2 [188 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.20 [915 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 zip amd64 3.0-14 [233 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 unzip amd64 6.0-28 [166 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libpaper1 amd64 1.1.29+b1 [12.9 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libpaper-utils amd64 1.1.29+b1 [9176 B] Get: 41 http://deb.debian.org/debian trixie/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.3-1 [105 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2 [115 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 66 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.63.0-1 [74.8 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.10.1-2 [352 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.1-1 [1499 kB] Get: 78 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get: 79 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-6 [836 kB] Get: 80 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get: 81 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1 [463 kB] Get: 82 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get: 83 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get: 84 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get: 85 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 86 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3 [37.7 kB] Get: 87 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2 [49.1 kB] Get: 88 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.54.0+ds-3 [223 kB] Get: 89 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-3 [54.2 kB] Get: 90 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-3 [35.2 kB] Get: 91 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 92 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1042 kB] Get: 93 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get: 94 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get: 95 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get: 96 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get: 97 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 98 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 99 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get: 100 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b1 [54.2 kB] Get: 101 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get: 102 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b1 [17.0 kB] Get: 103 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.15-1 [791 kB] Get: 104 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.0.10-1+b1 [56.7 kB] Get: 105 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.3-1+b1 [33.6 kB] Get: 106 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2 [187 kB] Get: 107 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.1-3 [28.3 MB] Get: 108 http://deb.debian.org/debian trixie/main amd64 libgfortran-14-dev amd64 14.2.0-6 [879 kB] Get: 109 http://deb.debian.org/debian trixie/main amd64 gfortran-14-x86-64-linux-gnu amd64 14.2.0-6 [11.7 MB] Get: 110 http://deb.debian.org/debian trixie/main amd64 gfortran-14 amd64 14.2.0-6 [11.9 kB] Get: 111 http://deb.debian.org/debian trixie/main amd64 gfortran-x86-64-linux-gnu amd64 4:14.2.0-1 [1284 B] Get: 112 http://deb.debian.org/debian trixie/main amd64 gfortran amd64 4:14.2.0-1 [1436 B] Get: 113 http://deb.debian.org/debian trixie/main amd64 libblas-dev amd64 3.12.0-3 [159 kB] Get: 114 http://deb.debian.org/debian trixie/main amd64 liblapack-dev amd64 3.12.0-3 [4880 kB] Get: 115 http://deb.debian.org/debian trixie/main amd64 libncurses6 amd64 6.5-2 [104 kB] Get: 116 http://deb.debian.org/debian trixie/main amd64 libncurses-dev amd64 6.5-2 [349 kB] Get: 117 http://deb.debian.org/debian trixie/main amd64 libreadline-dev amd64 8.2-5 [153 kB] Get: 118 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3 [290 kB] Get: 119 http://deb.debian.org/debian trixie/main amd64 libjpeg-dev amd64 1:2.1.5-3 [71.9 kB] Get: 120 http://deb.debian.org/debian trixie/main amd64 libpcre2-16-0 amd64 10.42-4+b1 [246 kB] Get: 121 http://deb.debian.org/debian trixie/main amd64 libpcre2-32-0 amd64 10.42-4+b1 [234 kB] Get: 122 http://deb.debian.org/debian trixie/main amd64 libpcre2-posix3 amd64 10.42-4+b1 [55.8 kB] Get: 123 http://deb.debian.org/debian trixie/main amd64 libpcre2-dev amd64 10.42-4+b1 [755 kB] Get: 124 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get: 125 http://deb.debian.org/debian trixie/main amd64 libpng-dev amd64 1.6.44-2 [366 kB] Get: 126 http://deb.debian.org/debian trixie/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 127 http://deb.debian.org/debian trixie/main amd64 liblzma-dev amd64 5.6.2-2 [299 kB] Get: 128 http://deb.debian.org/debian trixie/main amd64 icu-devtools amd64 72.1-5 [207 kB] Get: 129 http://deb.debian.org/debian trixie/main amd64 libicu-dev amd64 72.1-5 [10.4 MB] Get: 130 http://deb.debian.org/debian trixie/main amd64 libxmuu1 amd64 2:1.1.3-3+b2 [21.9 kB] Get: 131 http://deb.debian.org/debian trixie/main amd64 xauth amd64 1:1.1.2-1 [36.0 kB] Get: 132 http://deb.debian.org/debian trixie/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 133 http://deb.debian.org/debian trixie/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 134 http://deb.debian.org/debian trixie/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 135 http://deb.debian.org/debian trixie/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [189 kB] Get: 136 http://deb.debian.org/debian trixie/main amd64 libdeflate-dev amd64 1.22-1 [55.8 kB] Get: 137 http://deb.debian.org/debian trixie/main amd64 r-base-dev all 4.4.1-3 [4512 B] Get: 138 http://deb.debian.org/debian trixie/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 139 http://deb.debian.org/debian trixie/main amd64 libswitch-perl all 2.17-3 [20.3 kB] Get: 140 http://deb.debian.org/debian trixie/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 141 http://deb.debian.org/debian trixie/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 142 http://deb.debian.org/debian trixie/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 143 http://deb.debian.org/debian trixie/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 144 http://deb.debian.org/debian trixie/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 145 http://deb.debian.org/debian trixie/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 146 http://deb.debian.org/debian trixie/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 147 http://deb.debian.org/debian trixie/main amd64 libhttp-message-perl all 7.00-2 [79.8 kB] Get: 148 http://deb.debian.org/debian trixie/main amd64 libparams-util-perl amd64 1.102-3+b1 [24.4 kB] Get: 149 http://deb.debian.org/debian trixie/main amd64 libsub-install-perl all 0.929-1 [10.5 kB] Get: 150 http://deb.debian.org/debian trixie/main amd64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get: 151 http://deb.debian.org/debian trixie/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 152 http://deb.debian.org/debian trixie/main amd64 libdynaloader-functions-perl all 0.004-1 [12.1 kB] Get: 153 http://deb.debian.org/debian trixie/main amd64 libdevel-callchecker-perl amd64 0.009-1+b1 [16.2 kB] Get: 154 http://deb.debian.org/debian trixie/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 155 http://deb.debian.org/debian trixie/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 156 http://deb.debian.org/debian trixie/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 157 http://deb.debian.org/debian trixie/main amd64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get: 158 http://deb.debian.org/debian trixie/main amd64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get: 159 http://deb.debian.org/debian trixie/main amd64 libclass-load-perl all 0.25-2 [15.3 kB] Get: 160 http://deb.debian.org/debian trixie/main amd64 libclass-load-xs-perl amd64 0.10-2+b4 [14.2 kB] Get: 161 http://deb.debian.org/debian trixie/main amd64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get: 162 http://deb.debian.org/debian trixie/main amd64 libdevel-globaldestruction-perl all 0.14-4 [7144 B] Get: 163 http://deb.debian.org/debian trixie/main amd64 libalgorithm-c3-perl all 0.11-2 [10.8 kB] Get: 164 http://deb.debian.org/debian trixie/main amd64 libclass-c3-perl all 0.35-2 [21.0 kB] Get: 165 http://deb.debian.org/debian trixie/main amd64 libmro-compat-perl all 0.15-2 [11.8 kB] Get: 166 http://deb.debian.org/debian trixie/main amd64 libdevel-overloadinfo-perl all 0.007-1 [7896 B] Get: 167 http://deb.debian.org/debian trixie/main amd64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get: 168 http://deb.debian.org/debian trixie/main amd64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get: 169 http://deb.debian.org/debian trixie/main amd64 libeval-closure-perl all 0.14-3 [11.2 kB] Get: 170 http://deb.debian.org/debian trixie/main amd64 libdist-checkconflicts-perl all 0.11-2 [10.5 kB] Get: 171 http://deb.debian.org/debian trixie/main amd64 libmodule-runtime-conflicts-perl all 0.003-2 [7356 B] Get: 172 http://deb.debian.org/debian trixie/main amd64 libpackage-deprecationmanager-perl all 0.18-1 [17.6 kB] Get: 173 http://deb.debian.org/debian trixie/main amd64 libpackage-stash-xs-perl amd64 0.30-1+b4 [20.9 kB] Get: 174 http://deb.debian.org/debian trixie/main amd64 libmoose-perl amd64 2.2207-1+b2 [766 kB] Get: 175 http://deb.debian.org/debian trixie/main amd64 libvariable-magic-perl amd64 0.64-1+b1 [44.9 kB] Get: 176 http://deb.debian.org/debian trixie/main amd64 libb-hooks-endofscope-perl all 0.28-1 [17.5 kB] Get: 177 http://deb.debian.org/debian trixie/main amd64 libsub-identify-perl amd64 0.14-3+b3 [11.3 kB] Get: 178 http://deb.debian.org/debian trixie/main amd64 libsub-name-perl amd64 0.27-1+b3 [12.5 kB] Get: 179 http://deb.debian.org/debian trixie/main amd64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get: 180 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.4.0-1 [63.1 kB] Get: 181 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get: 182 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get: 183 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.10.1-2 [360 kB] Get: 184 http://deb.debian.org/debian trixie/main amd64 libwww-curl-perl amd64 4.17-10+b3 [58.0 kB] Get: 185 http://deb.debian.org/debian trixie/main amd64 libwww-curl-simple-perl all 0.100191-3 [12.6 kB] Get: 186 http://deb.debian.org/debian trixie/main amd64 dh-r all 20231212 [42.2 kB] Get: 187 http://deb.debian.org/debian trixie/main amd64 libboost1.83-dev amd64 1.83.0-3.2 [10.6 MB] Get: 188 http://deb.debian.org/debian trixie/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get: 189 http://deb.debian.org/debian trixie/main amd64 r-cran-littler amd64 0.3.20-1 [102 kB] Get: 190 http://deb.debian.org/debian trixie/main amd64 littler all 0.3.20-1 [16.0 kB] Get: 191 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocgenerics all 0.50.0-2 [607 kB] Get: 192 http://deb.debian.org/debian trixie/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get: 193 http://deb.debian.org/debian trixie/main amd64 r-cran-matrix amd64 1.7-1-1 [4138 kB] Get: 194 http://deb.debian.org/debian trixie/main amd64 r-cran-matrixstats amd64 1.4.1-1 [510 kB] Get: 195 http://deb.debian.org/debian trixie/main amd64 r-bioc-matrixgenerics all 1.16.0-2 [423 kB] Get: 196 http://deb.debian.org/debian trixie/main amd64 r-bioc-s4vectors amd64 0.42.1+dfsg-2 [1894 kB] Get: 197 http://deb.debian.org/debian trixie/main amd64 r-bioc-iranges amd64 2.38.1-1 [2305 kB] Get: 198 http://deb.debian.org/debian trixie/main amd64 r-cran-abind all 1.4-8-1 [68.1 kB] Get: 199 http://deb.debian.org/debian trixie/main amd64 r-cran-crayon all 1.5.2-1 [165 kB] Get: 200 http://deb.debian.org/debian trixie/main amd64 r-bioc-s4arrays amd64 1.4.1+dfsg-1 [524 kB] Get: 201 http://deb.debian.org/debian trixie/main amd64 r-bioc-zlibbioc all 1.50.0+dfsg-2 [9876 B] Get: 202 http://deb.debian.org/debian trixie/main amd64 r-bioc-xvector amd64 0.44.0-1 [622 kB] Get: 203 http://deb.debian.org/debian trixie/main amd64 r-bioc-sparsearray amd64 1.4.8+dfsg-1 [1254 kB] Get: 204 http://deb.debian.org/debian trixie/main amd64 r-bioc-delayedarray amd64 0.30.1+dfsg-1 [1847 kB] Get: 205 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgkitten all 0.2.4-1 [29.1 kB] Get: 206 http://deb.debian.org/debian trixie/main amd64 r-cran-rcpp amd64 1.0.13-1 [2082 kB] Get: 207 http://deb.debian.org/debian trixie/main amd64 r-bioc-beachmat amd64 2.20.0+ds-1 [1386 kB] Get: 208 http://deb.debian.org/debian trixie/main amd64 r-cran-formatr all 1.14-2 [152 kB] Get: 209 http://deb.debian.org/debian trixie/main amd64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get: 210 http://deb.debian.org/debian trixie/main amd64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get: 211 http://deb.debian.org/debian trixie/main amd64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get: 212 http://deb.debian.org/debian trixie/main amd64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get: 213 http://deb.debian.org/debian trixie/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get: 214 http://deb.debian.org/debian trixie/main amd64 r-cran-bh all 1.84.0-1 [5912 B] Get: 215 http://deb.debian.org/debian trixie/main amd64 r-cran-cpp11 all 0.5.0-1 [213 kB] Get: 216 http://deb.debian.org/debian trixie/main amd64 r-bioc-biocparallel amd64 1.38.0-2 [1325 kB] Get: 217 http://deb.debian.org/debian trixie/main amd64 r-bioc-scaledmatrix all 1.12.0+dfsg-1 [325 kB] Get: 218 http://deb.debian.org/debian trixie/main amd64 r-cran-irlba amd64 2.3.5.1-4 [296 kB] Get: 219 http://deb.debian.org/debian trixie/main amd64 r-cran-rsvd all 1.0.5-1 [3589 kB] Fetched 140 MB in 2s (74.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package tzdata. (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 ... 21880 files and directories currently installed.) Preparing to unpack .../000-tzdata_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package readline-common. Preparing to unpack .../001-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.24_all.deb ... 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Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../069-libldap-2.5-0_2.5.18+dfsg-3+b1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../070-libnghttp2-14_1.63.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.63.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../071-libpsl5t64_0.21.2-1.1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../072-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../073-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:amd64. 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libtcl8.6:amd64. Preparing to unpack .../091-libtcl8.6_8.6.15+dfsg-2_amd64.deb ... Unpacking libtcl8.6:amd64 (8.6.15+dfsg-2) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../092-libjbig0_2.1-6.1+b1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-6.1+b1) ... Selecting previously unselected package liblerc4:amd64. 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Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Selecting previously unselected package libxft2:amd64. Preparing to unpack .../099-libxft2_2.3.6-1+b1_amd64.deb ... Unpacking libxft2:amd64 (2.3.6-1+b1) ... Selecting previously unselected package x11-common. Preparing to unpack .../100-x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) ... Selecting previously unselected package libxss1:amd64. Preparing to unpack .../101-libxss1_1%3a1.2.3-1+b1_amd64.deb ... Unpacking libxss1:amd64 (1:1.2.3-1+b1) ... Selecting previously unselected package libtk8.6:amd64. Preparing to unpack .../102-libtk8.6_8.6.15-1_amd64.deb ... Unpacking libtk8.6:amd64 (8.6.15-1) ... Selecting previously unselected package libice6:amd64. 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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:amd64 (1.18.2-2) ... Setting up libtirpc-dev:amd64 (1.3.4+ds-1.3) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up libxt6t64:amd64 (1:1.2.1-1.2) ... Setting up libdist-checkconflicts-perl (0.11-2) ... Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up debhelper (13.20) ... Setting up libmodule-runtime-conflicts-perl (0.003-2) ... Setting up libclass-load-perl (0.25-2) ... Setting up r-base-core (4.4.1-3) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.2-1) ... Setting up r-cran-futile.options (1.0.1-3) ... 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Setting up r-cran-futile.logger (1.4.3-4) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up r-cran-matrix (1.7-1-1) ... Setting up r-cran-irlba (2.3.5.1-4) ... Setting up r-bioc-iranges (2.38.1-1) ... Setting up r-bioc-s4arrays (1.4.1+dfsg-1) ... Setting up r-bioc-biocparallel (1.38.0-2) ... Setting up libwww-curl-simple-perl (0.100191-3) ... Setting up r-cran-rsvd (1.0.5-1) ... Setting up r-bioc-xvector (0.44.0-1) ... Setting up dh-r (20231212) ... Setting up r-bioc-sparsearray (1.4.8+dfsg-1) ... Setting up r-bioc-delayedarray (0.30.1+dfsg-1) ... Setting up r-bioc-beachmat (2.20.0+ds-1) ... Setting up r-bioc-scaledmatrix (1.12.0+dfsg-1) ... Processing triggers for libc-bin (2.40-3) ... 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. 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 I: Building the package I: Running cd /build/reproducible-path/r-bioc-biocsingular-1.20.0+ds/ && 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-bioc-biocsingular_1.20.0+ds-1_source.changes dpkg-buildpackage: info: source package r-bioc-biocsingular dpkg-buildpackage: info: source version 1.20.0+ds-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem R dh_auto_clean -O--buildsystem=R dh_autoreconf_clean -O--buildsystem=R dh_clean -O--buildsystem=R debian/rules binary dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R dh_auto_install --destdir=debian/r-bioc-biocsingular/ -O--buildsystem=R I: R Package: BiocSingular Version: 1.20.0 I: Building using R version 4.4.1-3 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Sat, 17 Aug 2024 21:22:21 +0200 mkdir -p /build/reproducible-path/r-bioc-biocsingular-1.20.0\+ds/debian/r-bioc-biocsingular/usr/lib/R/site-library R CMD INSTALL -l /build/reproducible-path/r-bioc-biocsingular-1.20.0\+ds/debian/r-bioc-biocsingular/usr/lib/R/site-library --clean . "--built-timestamp='Sat, 17 Aug 2024 21:22:21 +0200'" * installing *source* package 'BiocSingular' ... ** using staged installation ** libs using C++ compiler: 'g++ (Debian 14.2.0-6) 14.2.0' using C++17 make[1]: Entering directory '/build/reproducible-path/r-bioc-biocsingular-1.20.0+ds/src' g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -I'/usr/lib/R/site-library/beachmat/include' -fpic -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rcpp/include' -I'/usr/lib/R/site-library/beachmat/include' -fpic -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -c compute_scale.cpp -o compute_scale.o g++ -std=gnu++17 -shared -L/usr/lib/R/lib -Wl,-z,relro -o BiocSingular.so RcppExports.o compute_scale.o -L/usr/lib/R/lib -lR make[1]: Leaving directory '/build/reproducible-path/r-bioc-biocsingular-1.20.0+ds/src' make[1]: Entering directory '/build/reproducible-path/r-bioc-biocsingular-1.20.0+ds/src' make[1]: Leaving directory '/build/reproducible-path/r-bioc-biocsingular-1.20.0+ds/src' installing to /build/reproducible-path/r-bioc-biocsingular-1.20.0+ds/debian/r-bioc-biocsingular/usr/lib/R/site-library/00LOCK-r-bioc-biocsingular-1.20.0+ds/00new/BiocSingular/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocSingular) I: Using r-cran-testthat for Suggests:testthat I: Using r-bioc-biocstyle for Suggests:BiocStyle I: Using r-cran-knitr for Suggests:knitr I: Using r-cran-rmarkdown for Suggests:rmarkdown I: Using r-bioc-residualmatrix for Suggests:ResidualMatrix I: Using r-bioc-biocgenerics for Imports:BiocGenerics I: Using r-bioc-s4vectors for Imports:S4Vectors I: Using r-cran-matrix by changing version to for Imports:Matrix I: Using r-bioc-delayedarray for Imports:DelayedArray I: Using r-bioc-biocparallel for Imports:BiocParallel I: Using r-bioc-scaledmatrix for Imports:ScaledMatrix I: Using r-cran-irlba for Imports:irlba I: Using r-cran-rsvd for Imports:rsvd I: Using r-cran-rcpp for Imports:Rcpp I: Using r-bioc-beachmat for Imports:beachmat I: Using r-cran-rcpp for LinkingTo:Rcpp I: Using r-bioc-beachmat for LinkingTo:beachmat I: BioConductor API version: r-api-bioc-3.19 I: Use r-bioc-biocsingular as Debian binary package for variables substitution dh_installdocs -O--buildsystem=R dh_installchangelogs -O--buildsystem=R dh_installsystemduser -O--buildsystem=R dh_perl -O--buildsystem=R dh_link -O--buildsystem=R dh_strip_nondeterminism -O--buildsystem=R dh_compress -O--buildsystem=R dh_fixperms -O--buildsystem=R dh_missing -O--buildsystem=R dh_dwz -a -O--buildsystem=R dh_strip -a -O--buildsystem=R dh_makeshlibs -a -O--buildsystem=R dh_shlibdeps -a -O--buildsystem=R dh_installdeb -O--buildsystem=R dh_gencontrol -O--buildsystem=R dh_md5sums -O--buildsystem=R dh_builddeb -O--buildsystem=R dpkg-deb: building package 'r-bioc-biocsingular' in '../r-bioc-biocsingular_1.20.0+ds-1_amd64.deb'. dpkg-deb: building package 'r-bioc-biocsingular-dbgsym' in '../r-bioc-biocsingular-dbgsym_1.20.0+ds-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo dpkg-genchanges --build=binary -O../r-bioc-biocsingular_1.20.0+ds-1_amd64.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: not including original 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/1710954 and its subdirectories I: Current time: Fri Nov 28 04:57:06 -12 2025 I: pbuilder-time-stamp: 1764349026 Sat Oct 26 10:34:08 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom01-amd64.debian.net. Sat Oct 26 10:34:08 UTC 2024 I: Preparing to do remote build '2' on infom01-amd64.debian.net. Sat Oct 26 10:39:04 UTC 2024 I: Deleting $TMPDIR on infom01-amd64.debian.net. Sat Oct 26 10:39:04 UTC 2024 I: r-bioc-biocsingular_1.20.0+ds-1_amd64.changes: Format: 1.8 Date: Sat, 17 Aug 2024 21:22:21 +0200 Source: r-bioc-biocsingular Binary: r-bioc-biocsingular r-bioc-biocsingular-dbgsym Architecture: amd64 Version: 1.20.0+ds-1 Distribution: unstable Urgency: medium Maintainer: Debian R Packages Maintainers Changed-By: Michael R. Crusoe Description: r-bioc-biocsingular - Singular Value Decomposition for Bioconductor Packages Changes: r-bioc-biocsingular (1.20.0+ds-1) unstable; urgency=medium . * Team upload. * Upload to unstable Checksums-Sha1: f604fdaad2edbe177c8a9b6bb9a69715dea1ac69 680888 r-bioc-biocsingular-dbgsym_1.20.0+ds-1_amd64.deb 04fed9770bffc66a7e3f67593c650e58426f47dd 11198 r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo f2255b19d3da3ca4eedf63dae371677e3ab8450e 353376 r-bioc-biocsingular_1.20.0+ds-1_amd64.deb Checksums-Sha256: 0a5d085850fb69218f969375431d73c399c322b05968c9b7e4a7349ed843525a 680888 r-bioc-biocsingular-dbgsym_1.20.0+ds-1_amd64.deb 53f53acdba5b762202d926e4ec8670383224433ad76c897214342d53a1014972 11198 r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo 83d13a75b1584d019738d34403a5318fca63756c39782686fc137c534bce1b41 353376 r-bioc-biocsingular_1.20.0+ds-1_amd64.deb Files: 55a4ac08f103ea2e8bc75fc3dbd059a6 680888 debug optional r-bioc-biocsingular-dbgsym_1.20.0+ds-1_amd64.deb 4ff79eb957b34d0f808738dd9aab148a 11198 gnu-r optional r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo 204c016a3a4f4820731a3cfae464dbde 353376 gnu-r optional r-bioc-biocsingular_1.20.0+ds-1_amd64.deb Sat Oct 26 10:39:05 UTC 2024 I: diffoscope 282 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_38-31783.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.7RNbAYVc/r-bioc-biocsingular_1.20.0+ds-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.7RNbAYVc/r-bioc-biocsingular_1.20.0+ds-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.7RNbAYVc/r-bioc-biocsingular_1.20.0+ds-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.7RNbAYVc/b1/r-bioc-biocsingular_1.20.0+ds-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.7RNbAYVc/b2/r-bioc-biocsingular_1.20.0+ds-1_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.465s) 0.465s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.028s) 0.028s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 815ms CPU time consumed: 779ms Sat Oct 26 10:39:07 UTC 2024 I: diffoscope 282 found no differences in the changes files, and a .buildinfo file also exists. Sat Oct 26 10:39:07 UTC 2024 I: r-bioc-biocsingular from trixie built successfully and reproducibly on amd64. Sat Oct 26 10:39:08 UTC 2024 I: Submitting .buildinfo files to external archives: Sat Oct 26 10:39:08 UTC 2024 I: Submitting 12K b1/r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo.asc Sat Oct 26 10:39:12 UTC 2024 I: Submitting 12K b2/r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo.asc Sat Oct 26 10:39:20 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Oct 26 10:39:20 UTC 2024 I: Done submitting .buildinfo files. Sat Oct 26 10:39:20 UTC 2024 I: Removing signed r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo.asc files: removed './b1/r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo.asc' removed './b2/r-bioc-biocsingular_1.20.0+ds-1_amd64.buildinfo.asc'