I: pbuilder: network access will be disabled during build I: Current time: Tue Nov 25 21:53:58 +14 2025 I: pbuilder-time-stamp: 1764057238 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 [librcsb-core-wrapper_1.005-12.dsc] I: copying [./librcsb-core-wrapper_1.005.orig.tar.gz] I: copying [./librcsb-core-wrapper_1.005-12.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Sep 21 14:21:52 2024 gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A gpgv: issuer "tchet@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./librcsb-core-wrapper_1.005-12.dsc: no acceptable signature found dpkg-source: info: extracting librcsb-core-wrapper in librcsb-core-wrapper-1.005 dpkg-source: info: unpacking librcsb-core-wrapper_1.005.orig.tar.gz dpkg-source: info: unpacking librcsb-core-wrapper_1.005-12.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying wrapper-module dpkg-source: info: applying rm-duplicate-module dpkg-source: info: applying bash dpkg-source: info: applying unistd dpkg-source: info: applying devnull-log dpkg-source: info: applying docs dpkg-source: info: applying objectfiles dpkg-source: info: applying parallel-build dpkg-source: info: applying setup.py.in dpkg-source: info: applying hardening dpkg-source: info: applying spelling dpkg-source: info: applying exit-in-shlib dpkg-source: info: applying make_test_target dpkg-source: info: applying regcomp_cert_fix.patch dpkg-source: info: applying platformcheck.patch dpkg-source: info: applying xerces32.patch dpkg-source: info: applying gcc-8.patch dpkg-source: info: applying python3.patch dpkg-source: info: applying generated-includes dpkg-source: info: applying INSTALL-is-cifinstall.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3200872/tmp/hooks/D01_modify_environment starting debug: Running on ionos5-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Nov 25 07:54 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/3200872/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3200872/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=c3cafccd0ae846e29dcd4101ae1021e6 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=3200872 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.karv4wEG/pbuilderrc_JBR6 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.karv4wEG/b2 --logfile b2/build.log librcsb-core-wrapper_1.005-12.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://213.165.73.152:3128 I: uname -a Linux i-capture-the-hostname 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/3200872/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: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), doxygen, graphviz, dh-sequence-python3, libboost-python-dev, libxerces-c-dev, python3-dev, python3-setuptools, libtool, libtool-bin, bison, flex dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19799 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 doxygen; however: Package doxygen is not installed. pbuilder-satisfydepends-dummy depends on graphviz; however: Package graphviz is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on libboost-python-dev; however: Package libboost-python-dev is not installed. pbuilder-satisfydepends-dummy depends on libxerces-c-dev; however: Package libxerces-c-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-dev; however: Package python3-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on libtool; however: Package libtool is not installed. pbuilder-satisfydepends-dummy depends on libtool-bin; however: Package libtool-bin is not installed. pbuilder-satisfydepends-dummy depends on bison; however: Package bison is not installed. pbuilder-satisfydepends-dummy depends on flex; however: Package flex 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: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bison{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} doxygen{a} dwz{a} file{a} flex{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} graphviz{a} groff-base{a} icu-devtools{a} intltool-debian{a} libabsl20230802{a} libann0{a} libaom3{a} libarchive-zip-perl{a} libavif16{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libcairo2{a} libcdt5{a} libcgraph6{a} libclang-cpp19{a} libclang1-19{a} libcom-err2{a} libcurl3t64-gnutls{a} libdatrie1{a} libdav1d7{a} libde265-0{a} libdebhelper-perl{a} libdeflate0{a} libedit2{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfmt9{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgav1-1{a} libgd3{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgts-0.7-5t64{a} libgvc6{a} libgvpr2{a} libharfbuzz0b{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libice6{a} libicu-dev{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblab-gamut1{a} libldap-2.5-0{a} liblerc4{a} libllvm19{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnsl2{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpathplan4{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpsl5t64{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libraqm0{a} librav1e0.7{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libsvtav1enc2{a} libthai-data{a} libthai0{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libtool-bin{a} libuchardet0{a} libwebp7{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxerces-c-dev{a} libxerces-c3.2t64{a} libxext6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6t64{a} libyuv0{a} libz3-4{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-autocommand{a} python3-dev{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} x11-common{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl fonts-liberation javascript-common krb5-locales libarchive-cpio-perl libfl-dev libglib2.0-data libgts-bin libheif-plugin-aomenc libheif-plugin-x265 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix shared-mime-info wget xdg-user-dirs 0 packages upgraded, 169 newly installed, 0 to remove and 0 not upgraded. Need to get 145 MB of archives. After unpacking 746 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 flex amd64 2.6.4-8.2+b2 [426 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 libpython3.12-minimal amd64 3.12.6-1 [814 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.3-1 [105 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 python3.12-minimal amd64 3.12.6-1 [2168 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.12.6-1 [26.7 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024a-4 [255 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get: 14 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libpython3.12-stdlib amd64 3.12.6-1 [1963 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 python3.12 amd64 3.12.6-1 [669 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.12.6-1 [9692 B] Get: 24 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.12.6-1 [27.8 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.2-9 [97.2 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 bison amd64 2:3.8.2+dfsg-1+b2 [1170 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-7 [517 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 46 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.191-2 [188 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.20 [915 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 python3-typeguard all 4.3.0-1 [36.5 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 60 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 74.1.2-2 [213 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 python3-zipp all 3.20.2-1 [10.3 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 python3-setuptools all 74.1.2-2 [736 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 dh-python all 6.20240824 [109 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 libz3-4 amd64 4.8.12-3.1+b2 [7346 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libllvm19 amd64 1:19.1.2-1 [26.0 MB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libclang-cpp19 amd64 1:19.1.2-1 [13.2 MB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libclang1-19 amd64 1:19.1.2-1 [7622 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libfmt9 amd64 9.1.0+ds1-2 [113 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 doxygen amd64 1.9.8+ds-2+b2 [5050 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get: 78 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get: 79 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1 [463 kB] Get: 80 http://deb.debian.org/debian trixie/main amd64 libann0 amd64 1.1.2+doc-9+b1 [25.1 kB] Get: 81 http://deb.debian.org/debian trixie/main amd64 libcdt5 amd64 2.42.4-2 [40.2 kB] Get: 82 http://deb.debian.org/debian trixie/main amd64 libcgraph6 amd64 2.42.4-2 [64.0 kB] Get: 83 http://deb.debian.org/debian trixie/main amd64 libaom3 amd64 3.9.1-1 [1864 kB] Get: 84 http://deb.debian.org/debian trixie/main amd64 libdav1d7 amd64 1.4.3-1 [551 kB] Get: 85 http://deb.debian.org/debian trixie/main amd64 libabsl20230802 amd64 20230802.1-4 [464 kB] Get: 86 http://deb.debian.org/debian trixie/main amd64 libgav1-1 amd64 0.19.0-2+b1 [351 kB] Get: 87 http://deb.debian.org/debian trixie/main amd64 librav1e0.7 amd64 0.7.1-7+b2 [936 kB] Get: 88 http://deb.debian.org/debian trixie/main amd64 libsvtav1enc2 amd64 2.2.1+dfsg-2 [2173 kB] Get: 89 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get: 90 http://deb.debian.org/debian trixie/main amd64 libyuv0 amd64 0.0.1888.20240710-3 [170 kB] Get: 91 http://deb.debian.org/debian trixie/main amd64 libavif16 amd64 1.1.1-1 [117 kB] Get: 92 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get: 93 http://deb.debian.org/debian trixie/main amd64 libheif-plugin-dav1d amd64 1.18.2-2 [10.9 kB] Get: 94 http://deb.debian.org/debian trixie/main amd64 libde265-0 amd64 1.0.15-1+b2 [189 kB] Get: 95 http://deb.debian.org/debian trixie/main amd64 libheif-plugin-libde265 amd64 1.18.2-2 [14.2 kB] Get: 96 http://deb.debian.org/debian trixie/main amd64 libheif1 amd64 1.18.2-2 [312 kB] Get: 97 http://deb.debian.org/debian trixie/main amd64 libimagequant0 amd64 2.18.0-1+b1 [35.3 kB] Get: 98 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get: 99 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.1-1 [1499 kB] Get: 100 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get: 101 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 9.0.0-1 [474 kB] Get: 102 http://deb.debian.org/debian trixie/main amd64 libraqm0 amd64 0.10.1-1+b1 [14.2 kB] Get: 103 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 104 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get: 105 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get: 106 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get: 107 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 108 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get: 109 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get: 110 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get: 111 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get: 112 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get: 113 http://deb.debian.org/debian trixie/main amd64 libxpm4 amd64 1:3.5.17-1+b1 [56.1 kB] Get: 114 http://deb.debian.org/debian trixie/main amd64 libgd3 amd64 2.3.3-12 [125 kB] Get: 115 http://deb.debian.org/debian trixie/main amd64 libgts-0.7-5t64 amd64 0.7.6+darcs121130-5.2 [157 kB] Get: 116 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get: 117 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2 [115 kB] Get: 118 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get: 119 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get: 120 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get: 121 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 122 http://deb.debian.org/debian trixie/main amd64 libltdl7 amd64 2.4.7-7+b1 [393 kB] Get: 123 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 124 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3 [37.7 kB] Get: 125 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2 [49.1 kB] Get: 126 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.54.0+ds-2 [223 kB] Get: 127 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-2 [54.4 kB] Get: 128 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-2 [35.2 kB] Get: 129 http://deb.debian.org/debian trixie/main amd64 libpathplan4 amd64 2.42.4-2 [42.4 kB] Get: 130 http://deb.debian.org/debian trixie/main amd64 libgvc6 amd64 2.42.4-2 [686 kB] Get: 131 http://deb.debian.org/debian trixie/main amd64 libgvpr2 amd64 2.42.4-2 [192 kB] Get: 132 http://deb.debian.org/debian trixie/main amd64 liblab-gamut1 amd64 2.42.4-2 [198 kB] Get: 133 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get: 134 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.0.10-1+b1 [56.7 kB] Get: 135 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.3-1+b1 [33.6 kB] Get: 136 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2 [187 kB] Get: 137 http://deb.debian.org/debian trixie/main amd64 libxmu6 amd64 2:1.1.3-3+b2 [58.7 kB] Get: 138 http://deb.debian.org/debian trixie/main amd64 libxaw7 amd64 2:1.0.14-1+b2 [199 kB] Get: 139 http://deb.debian.org/debian trixie/main amd64 graphviz amd64 2.42.4-2 [618 kB] Get: 140 http://deb.debian.org/debian trixie/main amd64 icu-devtools amd64 72.1-5 [207 kB] Get: 141 http://deb.debian.org/debian trixie/main amd64 libboost1.83-dev amd64 1.83.0-3.2 [10.6 MB] Get: 142 http://deb.debian.org/debian trixie/main amd64 libboost-python1.83.0 amd64 1.83.0-3.2 [306 kB] Get: 143 http://deb.debian.org/debian trixie/main amd64 libpython3.12t64 amd64 3.12.6-1 [2147 kB] Get: 144 http://deb.debian.org/debian trixie/main amd64 libexpat1-dev amd64 2.6.3-1 [157 kB] Get: 145 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get: 146 http://deb.debian.org/debian trixie/main amd64 libpython3.12-dev amd64 3.12.6-1 [5127 kB] Get: 147 http://deb.debian.org/debian trixie/main amd64 libpython3-dev amd64 3.12.6-1 [9952 B] Get: 148 http://deb.debian.org/debian trixie/main amd64 python3.12-dev amd64 3.12.6-1 [506 kB] Get: 149 http://deb.debian.org/debian trixie/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 150 http://deb.debian.org/debian trixie/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 151 http://deb.debian.org/debian trixie/main amd64 libjs-sphinxdoc all 7.4.7-3 [158 kB] Get: 152 http://deb.debian.org/debian trixie/main amd64 python3-dev amd64 3.12.6-1 [26.1 kB] Get: 153 http://deb.debian.org/debian trixie/main amd64 libboost-python1.83-dev amd64 1.83.0-3.2 [327 kB] Get: 154 http://deb.debian.org/debian trixie/main amd64 libboost-python-dev amd64 1.83.0.2+b2 [3892 B] Get: 155 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 156 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 157 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3 [187 kB] Get: 158 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.63.0-1 [74.8 kB] Get: 159 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.4.0-1 [63.1 kB] Get: 160 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get: 161 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get: 162 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get: 163 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get: 164 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 165 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.10.1-2 [360 kB] Get: 166 http://deb.debian.org/debian trixie/main amd64 libicu-dev amd64 72.1-5 [10.4 MB] Get: 167 http://deb.debian.org/debian trixie/main amd64 libtool-bin amd64 2.4.7-7+b1 [436 kB] Get: 168 http://deb.debian.org/debian trixie/main amd64 libxerces-c3.2t64 amd64 3.2.4+debian-1.3 [886 kB] Get: 169 http://deb.debian.org/debian trixie/main amd64 libxerces-c-dev amd64 3.2.4+debian-1.3 [1696 kB] Fetched 145 MB in 2s (71.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package m4. (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 ... 19799 files and directories currently installed.) Preparing to unpack .../archives/m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package flex. Preparing to unpack .../flex_2.6.4-8.2+b2_amd64.deb ... Unpacking flex (2.6.4-8.2+b2) ... Selecting previously unselected package libpython3.12-minimal:amd64. Preparing to unpack .../libpython3.12-minimal_3.12.6-1_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.6-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.3-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.3-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.6-1_amd64.deb ... Unpacking python3.12-minimal (3.12.6-1) ... Setting up libpython3.12-minimal:amd64 (3.12.6-1) ... Setting up libexpat1:amd64 (2.6.3-1) ... Setting up python3.12-minimal (3.12.6-1) ... 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 ... 20302 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_amd64.deb ... Unpacking python3-minimal (3.12.6-1) ... 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) ... 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Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (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:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3_amd64.deb ... 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 libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b2_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b2) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... 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 libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.6-1_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.6-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.6-1_amd64.deb ... Unpacking python3.12 (3.12.6-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3-minimal (3.12.6-1) ... 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 ... 21374 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.6-1_amd64.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../002-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../003-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../004-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../005-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../006-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../007-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../008-bsdextrautils_2.40.2-9_amd64.deb ... Unpacking bsdextrautils (2.40.2-9) ... 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Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.63.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libxcb-shm0:amd64 (1.17.0-2) ... Setting up libcom-err2:amd64 (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libelf1t64:amd64 (0.191-2) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Nov 25 07:55:10 UTC 2025. Universal Time is now: Tue Nov 25 07:55:10 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up libz3-4:amd64 (4.8.12-3.1+b2) ... 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Setting up libpython3.12-dev:amd64 (3.12.6-1) ... Setting up python3-zipp (3.20.2-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3.12-dev (3.12.6-1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up libpython3-dev:amd64 (3.12.6-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.3.0-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-dev (3.12.6-1) ... Setting up libboost-python1.83-dev (1.83.0-3.2) ... Setting up python3-pkg-resources (74.1.2-2) ... Setting up python3-setuptools (74.1.2-2) ... Setting up libboost-python-dev (1.83.0.2+b2) ... Setting up dh-python (6.20240824) ... Setting up libheif-plugin-dav1d:amd64 (1.18.2-2) ... Setting up libheif-plugin-libde265:amd64 (1.18.2-2) ... Setting up libheif1:amd64 (1.18.2-2) ... Setting up libgd3:amd64 (2.3.3-12) ... Setting up libgvc6 (2.42.4-2) ... Setting up graphviz (2.42.4-2) ... Processing triggers for libc-bin (2.40-3) ... 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: user script /srv/workspace/pbuilder/3200872/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/3200872/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/librcsb-core-wrapper-1.005/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../librcsb-core-wrapper_1.005-12_source.changes dpkg-buildpackage: info: source package librcsb-core-wrapper dpkg-buildpackage: info: source version 1.005-12 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005' dh_auto_clean make -j42 clean make[2]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005' rm -rf docs rm -rf rcsb ------------------------------------------------------------ **** Cleaning etc **** ------------------------------------------------------------ ------------------------------------------------------------ **** Cleaning test results in dict-obj-file **** ------------------------------------------------------------ ------------------------------------------------------------ **** Cleaning common **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file' ------------------------------------------------------------ **** Cleaning test results in pdbml-parser **** ------------------------------------------------------------ make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/common' make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. ------------------------------------------------------------ **** Cleaning tables **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/tables' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser' make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/tables' ------------------------------------------------------------ **** Cleaning regex **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/regex' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/regex' ------------------------------------------------------------ **** Cleaning cif-file **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file' ------------------------------------------------------------ **** Cleaning cif-parser **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-parser' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-parser' ------------------------------------------------------------ **** Cleaning cif-file-util **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file-util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file-util' ------------------------------------------------------------ **** Cleaning dict-obj-file **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file' ------------------------------------------------------------ **** Cleaning pdbml-parser **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser' ------------------------------------------------------------ **** Cleaning cctbx **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cctbx' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cctbx' make[2]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005' rm -rf wrapper/python/build make[1]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005' dh_auto_build make -j42 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005' sh -c '\ export PIC=-fPIC; \ export WWPDB_XERCESC_INC=/usr/include; \ export WWPDB_XERCESC_LIB_DIR=/usr/lib; \ export WWPDB_XERCESC_LIB=xerces-c; \ ( cd ./util; ./compile.sh ); \ libtool --mode=link g++ -version-info 0:1:0 -rpath /usr/lib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now -l${WWPDB_XERCESC_LIB} -o lib/librcsb-core-wrapper.la lib/*.lo' ------------------------------------------------------------ **** Making etc **** ------------------------------------------------------------ Using platform specific configuration for system: gnu4 Platform configuration done. ------------------------------------------------------------ **** Making common **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/common' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbPlatform.C -o ./obj/RcsbPlatform.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbFile.C -o ./obj/RcsbFile.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/BlockIO.C -o ./obj/BlockIO.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Serializer.C -o ./obj/Serializer.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenString.C -o ./obj/GenString.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifString.C -o ./obj/CifString.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenCont.C -o ./obj/GenCont.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Exceptions.C -o ./obj/Exceptions.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DataInfo.C -o ./obj/DataInfo.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_vector.C -o ./obj/mapped_vector.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_ptr_vector.C -o ./obj/mapped_ptr_vector.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Serializer.C -fPIC -DPIC -o ./obj/.libs/Serializer.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenString.C -fPIC -DPIC -o ./obj/.libs/GenString.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbPlatform.C -fPIC -DPIC -o ./obj/.libs/RcsbPlatform.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_ptr_vector.C -fPIC -DPIC -o ./obj/.libs/mapped_ptr_vector.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_vector.C -fPIC -DPIC -o ./obj/.libs/mapped_vector.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Exceptions.C -fPIC -DPIC -o ./obj/.libs/Exceptions.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/BlockIO.C -fPIC -DPIC -o ./obj/.libs/BlockIO.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenCont.C -fPIC -DPIC -o ./obj/.libs/GenCont.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifString.C -fPIC -DPIC -o ./obj/.libs/CifString.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbFile.C -fPIC -DPIC -o ./obj/.libs/RcsbFile.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DataInfo.C -fPIC -DPIC -o ./obj/.libs/DataInfo.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbPlatform.C -o ./obj/RcsbPlatform.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_vector.C -o ./obj/mapped_vector.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_ptr_vector.C -o ./obj/mapped_ptr_vector.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Exceptions.C -o ./obj/Exceptions.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/BlockIO.C -o ./obj/BlockIO.o >/dev/null 2>&1 src/GenString.C: In static member function 'static bool String::IsNumber(const std::string&)': src/GenString.C:539:12: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=] 539 | catch (exception) | ^~~~~~~~~ libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenCont.C -o ./obj/GenCont.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbFile.C -o ./obj/RcsbFile.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifString.C -o ./obj/CifString.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenString.C -o ./obj/GenString.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DataInfo.C -o ./obj/DataInfo.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Serializer.C -o ./obj/Serializer.o >/dev/null 2>&1 a - RcsbPlatform.o a - RcsbFile.o a - BlockIO.o a - Serializer.o a - GenString.o a - CifString.o a - GenCont.o a - Exceptions.o a - DataInfo.o a - mapped_vector.o a - mapped_ptr_vector.o cp -f -t ../lib ./obj/RcsbPlatform.o ./obj/RcsbFile.o ./obj/BlockIO.o ./obj/Serializer.o ./obj/GenString.o ./obj/CifString.o ./obj/GenCont.o ./obj/Exceptions.o ./obj/DataInfo.o ./obj/mapped_vector.o ./obj/mapped_ptr_vector.o ./obj/RcsbPlatform.lo ./obj/RcsbFile.lo ./obj/BlockIO.lo ./obj/Serializer.lo ./obj/GenString.lo ./obj/CifString.lo ./obj/GenCont.lo ./obj/Exceptions.lo ./obj/DataInfo.lo ./obj/mapped_vector.lo ./obj/mapped_ptr_vector.lo mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/RcsbPlatform.o ./obj/.libs/RcsbFile.o ./obj/.libs/BlockIO.o ./obj/.libs/Serializer.o ./obj/.libs/GenString.o ./obj/.libs/CifString.o ./obj/.libs/GenCont.o ./obj/.libs/Exceptions.o ./obj/.libs/DataInfo.o ./obj/.libs/mapped_vector.o ./obj/.libs/mapped_ptr_vector.o true lib/common.a lib/common.a is up to date. ../etc/cifinstall -m 0444 ./lib/common.a ../lib x - RcsbPlatform.o x - RcsbFile.o x - BlockIO.o x - Serializer.o x - GenString.o x - CifString.o x - GenCont.o x - Exceptions.o x - DataInfo.o x - mapped_vector.o x - mapped_ptr_vector.o x - RcsbPlatform.o x - RcsbFile.o x - BlockIO.o x - Serializer.o x - GenString.o x - CifString.o x - GenCont.o x - Exceptions.o x - DataInfo.o x - mapped_vector.o x - mapped_ptr_vector.o a - BlockIO.o a - CifString.o a - DataInfo.o a - Exceptions.o a - GenCont.o a - GenString.o a - RcsbFile.o a - RcsbPlatform.o a - Serializer.o a - mapped_ptr_vector.o a - mapped_vector.o ../etc/cifinstall -m 0444 ./lib/all.a ../lib make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/common' ------------------------------------------------------------ **** Making tables **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/tables' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TTable.C -o ./obj/TTable.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ITTable.C -o ./obj/ITTable.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ISTable.C -o ./obj/ISTable.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TableFile.C -o ./obj/TableFile.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ITTable.C -fPIC -DPIC -o ./obj/.libs/ITTable.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TTable.C -fPIC -DPIC -o ./obj/.libs/TTable.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ISTable.C -fPIC -DPIC -o ./obj/.libs/ISTable.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TableFile.C -fPIC -DPIC -o ./obj/.libs/TableFile.o src/TableFile.C: In member function 'std::string TableFile::GetFirstBlockName()': src/TableFile.C:474:12: warning: catching polymorphic type 'class std::out_of_range' by value [-Wcatch-value=] 474 | catch (out_of_range) | ^~~~~~~~~~~~ src/ITTable.C: In member function 'void ITTable::AppendToColumn(unsigned int, const std::string&)': src/ITTable.C:169:16: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 169 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ITTable.C: In member function 'void ITTable::ClearColumn(unsigned int)': src/ITTable.C:244:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 244 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ITTable.C: In member function 'unsigned int ITTable::InsertRow(unsigned int, const std::vector >&)': src/ITTable.C:326:16: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 326 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ITTable.C: In member function 'void ITTable::FillRow(unsigned int, const std::vector >&)': src/ITTable.C:362:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 362 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ITTable.C: In member function 'void ITTable::ClearRow(unsigned int)': src/ITTable.C:439:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 439 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ITTable.C: In member function 'void ITTable::FillColumn(unsigned int, std::vector >::const_iterator, std::vector >::const_iterator)': src/ITTable.C:1645:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 1645 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ITTable.C: In member function 'void ITTable::AppendToColumn(unsigned int, const std::vector >&)': src/ITTable.C:1714:16: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 1714 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ITTable.C: In member function 'int ITTable::UpdateCell(const std::string&, unsigned int, unsigned int)': src/ITTable.C:1759:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 1759 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ISTable.C: In member function 'bool ISTable::IsColumnPresent(const std::string&)': src/ISTable.C:228:12: warning: catching polymorphic type 'class NotFoundException' by value [-Wcatch-value=] 228 | catch (NotFoundException) | ^~~~~~~~~~~~~~~~~ src/ISTable.C: In member function 'unsigned int ISTable::InsertRow(unsigned int, const std::vector >&)': src/ISTable.C:649:20: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=] 649 | catch (AlreadyExistsException) | ^~~~~~~~~~~~~~~~~~~~~~ src/ISTable.C: In function 'std::ostream& operator<<(std::ostream&, const ISTable&)': src/ISTable.C:1826:20: warning: catching polymorphic type 'class std::out_of_range' by value [-Wcatch-value=] 1826 | catch (out_of_range) | ^~~~~~~~~~~~ libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TTable.C -o ./obj/TTable.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TableFile.C -o ./obj/TableFile.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ITTable.C -o ./obj/ITTable.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ISTable.C -o ./obj/ISTable.o >/dev/null 2>&1 a - TTable.o a - ITTable.o a - ISTable.o a - TableFile.o cp -f -t ../lib ./obj/TTable.o ./obj/ITTable.o ./obj/ISTable.o ./obj/TableFile.o ./obj/TTable.lo ./obj/ITTable.lo ./obj/ISTable.lo ./obj/TableFile.lo mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/TTable.o ./obj/.libs/ITTable.o ./obj/.libs/ISTable.o ./obj/.libs/TableFile.o true lib/tables.a lib/tables.a is up to date. ../etc/cifinstall -m 0444 ./lib/tables.a ../lib x - BlockIO.o x - CifString.o x - DataInfo.o x - Exceptions.o x - GenCont.o x - GenString.o x - RcsbFile.o x - RcsbPlatform.o x - Serializer.o x - mapped_ptr_vector.o x - mapped_vector.o x - TTable.o x - ITTable.o x - ISTable.o x - TableFile.o a - BlockIO.o a - CifString.o a - DataInfo.o a - Exceptions.o a - GenCont.o a - GenString.o a - ISTable.o a - ITTable.o a - RcsbFile.o a - RcsbPlatform.o a - Serializer.o a - TTable.o a - TableFile.o a - mapped_ptr_vector.o a - mapped_vector.o ../etc/cifinstall -m 0444 ./lib/all.a ../lib make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/tables' ------------------------------------------------------------ **** Making regex **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/regex' libtool --mode=compile gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regcomp.c -o ./obj/regcomp.o libtool --mode=compile gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regexec.c -o ./obj/regexec.o libtool --mode=compile gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regerror.c -o ./obj/regerror.o libtool --mode=compile gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regfree.c -o ./obj/regfree.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regcomp.c -fPIC -DPIC -o ./obj/.libs/regcomp.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regexec.c -fPIC -DPIC -o ./obj/.libs/regexec.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regfree.c -fPIC -DPIC -o ./obj/.libs/regfree.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regerror.c -fPIC -DPIC -o ./obj/.libs/regerror.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regfree.c -o ./obj/regfree.o >/dev/null 2>&1 libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regerror.c -o ./obj/regerror.o >/dev/null 2>&1 libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regcomp.c -o ./obj/regcomp.o >/dev/null 2>&1 libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regexec.c -o ./obj/regexec.o >/dev/null 2>&1 a - regcomp.o a - regexec.o a - regerror.o a - regfree.o cp -f -t ../lib ./obj/regcomp.o ./obj/regexec.o ./obj/regerror.o ./obj/regfree.o ./obj/regcomp.lo ./obj/regexec.lo ./obj/regerror.lo ./obj/regfree.lo mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/regcomp.o ./obj/.libs/regexec.o ./obj/.libs/regerror.o ./obj/.libs/regfree.o true lib/regex.a lib/regex.a is up to date. ../etc/cifinstall -m 0444 ./lib/regex.a ../lib x - BlockIO.o x - CifString.o x - DataInfo.o x - Exceptions.o x - GenCont.o x - GenString.o x - ISTable.o x - ITTable.o x - RcsbFile.o x - RcsbPlatform.o x - Serializer.o x - TTable.o x - TableFile.o x - mapped_ptr_vector.o x - mapped_vector.o x - regcomp.o x - regexec.o x - regerror.o x - regfree.o a - BlockIO.o a - CifString.o a - DataInfo.o a - Exceptions.o a - GenCont.o a - GenString.o a - ISTable.o a - ITTable.o a - RcsbFile.o a - RcsbPlatform.o a - Serializer.o a - TTable.o a - TableFile.o a - mapped_ptr_vector.o a - mapped_vector.o a - regcomp.o a - regerror.o a - regexec.o a - regfree.o ../etc/cifinstall -m 0444 ./lib/all.a ../lib make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/regex' ------------------------------------------------------------ **** Making cif-file **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFile.C -o ./obj/CifFile.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DicFile.C -o ./obj/DicFile.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ParentChild.C -o ./obj/ParentChild.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParentChild.C -o ./obj/CifParentChild.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifDataInfo.C -o ./obj/CifDataInfo.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifExcept.C -o ./obj/CifExcept.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFile.C -fPIC -DPIC -o ./obj/.libs/CifFile.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifExcept.C -fPIC -DPIC -o ./obj/.libs/CifExcept.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifDataInfo.C -fPIC -DPIC -o ./obj/.libs/CifDataInfo.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParentChild.C -fPIC -DPIC -o ./obj/.libs/CifParentChild.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ParentChild.C -fPIC -DPIC -o ./obj/.libs/ParentChild.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DicFile.C -fPIC -DPIC -o ./obj/.libs/DicFile.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifExcept.C -o ./obj/CifExcept.o >/dev/null 2>&1 src/CifFile.C: In member function 'int CifFile::CheckCellRange(const std::string&, const std::string&, const std::vector >&, const std::vector >&)': src/CifFile.C:2503:12: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=] 2503 | catch (exception) | ^~~~~~~~~ libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifDataInfo.C -o ./obj/CifDataInfo.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DicFile.C -o ./obj/DicFile.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParentChild.C -o ./obj/CifParentChild.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ParentChild.C -o ./obj/ParentChild.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFile.C -o ./obj/CifFile.o >/dev/null 2>&1 a - CifFile.o a - DicFile.o a - ParentChild.o a - CifParentChild.o a - CifDataInfo.o a - CifExcept.o cp -f -t ../lib ./obj/CifFile.o ./obj/DicFile.o ./obj/ParentChild.o ./obj/CifParentChild.o ./obj/CifDataInfo.o ./obj/CifExcept.o ./obj/CifFile.lo ./obj/DicFile.lo ./obj/ParentChild.lo ./obj/CifParentChild.lo ./obj/CifDataInfo.lo ./obj/CifExcept.lo mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/CifFile.o ./obj/.libs/DicFile.o ./obj/.libs/ParentChild.o ./obj/.libs/CifParentChild.o ./obj/.libs/CifDataInfo.o ./obj/.libs/CifExcept.o true lib/cif-file.a lib/cif-file.a is up to date. ../etc/cifinstall -m 0444 ./lib/cif-file.a ../lib x - BlockIO.o x - CifString.o x - DataInfo.o x - Exceptions.o x - GenCont.o x - GenString.o x - ISTable.o x - ITTable.o x - RcsbFile.o x - RcsbPlatform.o x - Serializer.o x - TTable.o x - TableFile.o x - mapped_ptr_vector.o x - mapped_vector.o x - regcomp.o x - regerror.o x - regexec.o x - regfree.o x - CifFile.o x - DicFile.o x - ParentChild.o x - CifParentChild.o x - CifDataInfo.o x - CifExcept.o a - BlockIO.o a - CifDataInfo.o a - CifExcept.o a - CifFile.o a - CifParentChild.o a - CifString.o a - DataInfo.o a - DicFile.o a - Exceptions.o a - GenCont.o a - GenString.o a - ISTable.o a - ITTable.o a - ParentChild.o a - RcsbFile.o a - RcsbPlatform.o a - Serializer.o a - TTable.o a - TableFile.o a - mapped_ptr_vector.o a - mapped_vector.o a - regcomp.o a - regerror.o a - regexec.o a - regfree.o ../etc/cifinstall -m 0444 ./lib/all.a ../lib make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file' ------------------------------------------------------------ **** Making cif-parser **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-parser' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileReadDef.C -o ./obj/CifFileReadDef.o sh -c 'cd ./src; bison -d -v -l -p cifparser_ ../src/CifParser.y' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParserBase.C -o ./obj/CifParserBase.o sh -c 'cd ./src; bison -d -v -l -p dicparser_ ../src/DICParser.y' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParserBase.C -o ./obj/DICParserBase.o mv src/CifParser.tab.c src/CifParser.c mv src/CifParser.tab.h src/CifParser.h sed -i -e's/\.tab\.h/\.h/' src/CifParser.c libtool --mode=compile gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParser.c -o obj/CifParser.o mv src/DICParser.tab.c src/DICParser.c mv src/DICParser.tab.h src/DICParser.h sed -i -e's/\.tab\.h/\.h/' src/DICParser.c libtool --mode=compile gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParser.c -o obj/DICParser.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileReadDef.C -fPIC -DPIC -o ./obj/.libs/CifFileReadDef.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParserBase.C -fPIC -DPIC -o ./obj/.libs/CifParserBase.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParserBase.C -fPIC -DPIC -o ./obj/.libs/DICParserBase.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParser.c -fPIC -DPIC -o obj/.libs/CifParser.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParser.c -fPIC -DPIC -o obj/.libs/DICParser.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParser.c -o obj/CifParser.o >/dev/null 2>&1 libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParser.c -o obj/DICParser.o >/dev/null 2>&1 flex -Cfr -L -Pdicparser_ -t ./src/DICScanner.l > ./src/DICScanner.c libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICScannerBase.C -o ./obj/DICScannerBase.o flex -Cfr -L -Pcifparser_ -t ./src/CifScanner.l > ./src/CifScanner.c libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifScannerBase.C -o ./obj/CifScannerBase.o libtool --mode=compile gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/DICScanner.c -o ./obj/DICScanner.o libtool --mode=compile gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/CifScanner.c -o ./obj/CifScanner.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICScannerBase.C -fPIC -DPIC -o ./obj/.libs/DICScannerBase.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/CifScanner.c -fPIC -DPIC -o ./obj/.libs/CifScanner.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifScannerBase.C -fPIC -DPIC -o ./obj/.libs/CifScannerBase.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/DICScanner.c -fPIC -DPIC -o ./obj/.libs/DICScanner.o libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/CifScanner.c -o ./obj/CifScanner.o >/dev/null 2>&1 libtool: compile: gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/DICScanner.c -o ./obj/DICScanner.o >/dev/null 2>&1 src/DICParserBase.C: In member function 'void DICParser::ProcessDataBlockName()': src/DICParserBase.C:1283:7: warning: comparing the result of pointer addition '(Glob_dataBlockNameDIC + 5)' and NULL [-Waddress] 1283 | if (&(Glob_dataBlockNameDIC)[5] && (strlen(&(Glob_dataBlockNameDIC)[5])>0)) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileReadDef.C -o ./obj/CifFileReadDef.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifScannerBase.C -o ./obj/CifScannerBase.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICScannerBase.C -o ./obj/DICScannerBase.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParserBase.C -o ./obj/CifParserBase.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParserBase.C -o ./obj/DICParserBase.o >/dev/null 2>&1 a - CifFileReadDef.o a - CifScanner.o a - CifScannerBase.o a - CifParser.o a - CifParserBase.o a - DICScanner.o a - DICScannerBase.o a - DICParser.o a - DICParserBase.o cp -f -t ../lib ./obj/CifFileReadDef.o ./obj/CifScanner.o ./obj/CifScannerBase.o ./obj/CifParser.o ./obj/CifParserBase.o ./obj/DICScanner.o ./obj/DICScannerBase.o ./obj/DICParser.o ./obj/DICParserBase.o ./obj/CifFileReadDef.lo ./obj/CifScanner.lo ./obj/CifScannerBase.lo ./obj/CifParser.lo ./obj/CifParserBase.lo ./obj/DICScanner.lo ./obj/DICScannerBase.lo ./obj/DICParser.lo ./obj/DICParserBase.lo mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/CifFileReadDef.o ./obj/.libs/CifScanner.o ./obj/.libs/CifScannerBase.o ./obj/.libs/CifParser.o ./obj/.libs/CifParserBase.o ./obj/.libs/DICScanner.o ./obj/.libs/DICScannerBase.o ./obj/.libs/DICParser.o ./obj/.libs/DICParserBase.o true lib/cifparse-obj.a lib/cifparse-obj.a is up to date. ../etc/cifinstall -m 0444 ./lib/cifparse-obj.a ../lib x - BlockIO.o x - CifDataInfo.o x - CifExcept.o x - CifFile.o x - CifParentChild.o x - CifString.o x - DataInfo.o x - DicFile.o x - Exceptions.o x - GenCont.o x - GenString.o x - ISTable.o x - ITTable.o x - ParentChild.o x - RcsbFile.o x - RcsbPlatform.o x - Serializer.o x - TTable.o x - TableFile.o x - mapped_ptr_vector.o x - mapped_vector.o x - regcomp.o x - regerror.o x - regexec.o x - regfree.o x - CifFileReadDef.o x - CifScanner.o x - CifScannerBase.o x - CifParser.o x - CifParserBase.o x - DICScanner.o x - DICScannerBase.o x - DICParser.o x - DICParserBase.o a - BlockIO.o a - CifDataInfo.o a - CifExcept.o a - CifFile.o a - CifFileReadDef.o a - CifParentChild.o a - CifParser.o a - CifParserBase.o a - CifScanner.o a - CifScannerBase.o a - CifString.o a - DICParser.o a - DICParserBase.o a - DICScanner.o a - DICScannerBase.o a - DataInfo.o a - DicFile.o a - Exceptions.o a - GenCont.o a - GenString.o a - ISTable.o a - ITTable.o a - ParentChild.o a - RcsbFile.o a - RcsbPlatform.o a - Serializer.o a - TTable.o a - TableFile.o a - mapped_ptr_vector.o a - mapped_vector.o a - regcomp.o a - regerror.o a - regexec.o a - regfree.o ../etc/cifinstall -m 0444 ./lib/all.a ../lib rm src/DICParser.h src/CifParser.h make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-parser' ------------------------------------------------------------ **** Making cif-file-util **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file-util' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileUtil.C -o ./obj/CifFileUtil.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifCorrector.C -o ./obj/CifCorrector.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifCorrector.C -fPIC -DPIC -o ./obj/.libs/CifCorrector.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileUtil.C -fPIC -DPIC -o ./obj/.libs/CifFileUtil.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileUtil.C -o ./obj/CifFileUtil.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifCorrector.C -o ./obj/CifCorrector.o >/dev/null 2>&1 a - CifFileUtil.o a - CifCorrector.o cp -f -t ../lib ./obj/CifFileUtil.o ./obj/CifCorrector.o ./obj/CifFileUtil.lo ./obj/CifCorrector.lo mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/CifFileUtil.o ./obj/.libs/CifCorrector.o true lib/cif-file-util.a lib/cif-file-util.a is up to date. ../etc/cifinstall -m 0444 ./lib/cif-file-util.a ../lib x - BlockIO.o x - CifDataInfo.o x - CifExcept.o x - CifFile.o x - CifFileReadDef.o x - CifParentChild.o x - CifParser.o x - CifParserBase.o x - CifScanner.o x - CifScannerBase.o x - CifString.o x - DICParser.o x - DICParserBase.o x - DICScanner.o x - DICScannerBase.o x - DataInfo.o x - DicFile.o x - Exceptions.o x - GenCont.o x - GenString.o x - ISTable.o x - ITTable.o x - ParentChild.o x - RcsbFile.o x - RcsbPlatform.o x - Serializer.o x - TTable.o x - TableFile.o x - mapped_ptr_vector.o x - mapped_vector.o x - regcomp.o x - regerror.o x - regexec.o x - regfree.o x - CifFileUtil.o x - CifCorrector.o a - BlockIO.o a - CifCorrector.o a - CifDataInfo.o a - CifExcept.o a - CifFile.o a - CifFileReadDef.o a - CifFileUtil.o a - CifParentChild.o a - CifParser.o a - CifParserBase.o a - CifScanner.o a - CifScannerBase.o a - CifString.o a - DICParser.o a - DICParserBase.o a - DICScanner.o a - DICScannerBase.o a - DataInfo.o a - DicFile.o a - Exceptions.o a - GenCont.o a - GenString.o a - ISTable.o a - ITTable.o a - ParentChild.o a - RcsbFile.o a - RcsbPlatform.o a - Serializer.o a - TTable.o a - TableFile.o a - mapped_ptr_vector.o a - mapped_vector.o a - regcomp.o a - regerror.o a - regexec.o a - regfree.o ../etc/cifinstall -m 0444 ./lib/all.a ../lib make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file-util' ------------------------------------------------------------ **** Making dict-obj-file **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjContInfo.C -o ./obj/DictObjContInfo.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjCont.C -o ./obj/DictObjCont.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjFile.C -o ./obj/DictObjFile.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictDataInfo.C -o ./obj/DictDataInfo.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictParentChild.C -o ./obj/DictParentChild.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjFileCreator.C -o obj/DictObjFileCreator.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjFileReader.C -o obj/DictObjFileReader.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjFileSelectiveReader.C -o obj/DictObjFileSelectiveReader.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjContInfo.C -fPIC -DPIC -o ./obj/.libs/DictObjContInfo.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictDataInfo.C -fPIC -DPIC -o ./obj/.libs/DictDataInfo.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjCont.C -fPIC -DPIC -o ./obj/.libs/DictObjCont.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjFile.C -fPIC -DPIC -o ./obj/.libs/DictObjFile.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictParentChild.C -fPIC -DPIC -o ./obj/.libs/DictParentChild.o src/DictObjCont.C: In member function 'void DictObjCont::PrintContainers(const std::string&, const std::string&, const ObjContInfo&)': src/DictObjCont.C:640:16: warning: catching polymorphic type 'class NotFoundException' by value [-Wcatch-value=] 640 | catch (NotFoundException) | ^~~~~~~~~~~~~~~~~ libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictDataInfo.C -o ./obj/DictDataInfo.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjContInfo.C -o ./obj/DictObjContInfo.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictParentChild.C -o ./obj/DictParentChild.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjFile.C -o ./obj/DictObjFile.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjCont.C -o ./obj/DictObjCont.o >/dev/null 2>&1 a - DictObjContInfo.o a - DictObjCont.o a - DictObjFile.o a - DictDataInfo.o a - DictParentChild.o cp -f -t ../lib ./obj/DictObjContInfo.o ./obj/DictObjCont.o ./obj/DictObjFile.o ./obj/DictDataInfo.o ./obj/DictParentChild.o ./obj/DictObjContInfo.lo ./obj/DictObjCont.lo ./obj/DictObjFile.lo ./obj/DictDataInfo.lo ./obj/DictParentChild.lo mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/DictObjContInfo.o ./obj/.libs/DictObjCont.o ./obj/.libs/DictObjFile.o ./obj/.libs/DictDataInfo.o ./obj/.libs/DictParentChild.o true lib/dict-obj-file.a lib/dict-obj-file.a is up to date. ../etc/cifinstall -m 0444 ./lib/dict-obj-file.a ../lib x - BlockIO.o x - CifCorrector.o x - CifDataInfo.o x - CifExcept.o x - CifFile.o x - CifFileReadDef.o x - CifFileUtil.o x - CifParentChild.o x - CifParser.o x - CifParserBase.o x - CifScanner.o x - CifScannerBase.o x - CifString.o x - DICParser.o x - DICParserBase.o x - DICScanner.o x - DICScannerBase.o x - DataInfo.o x - DicFile.o x - Exceptions.o x - GenCont.o x - GenString.o x - ISTable.o x - ITTable.o x - ParentChild.o x - RcsbFile.o x - RcsbPlatform.o x - Serializer.o x - TTable.o x - TableFile.o x - mapped_ptr_vector.o x - mapped_vector.o x - regcomp.o x - regerror.o x - regexec.o x - regfree.o x - DictObjContInfo.o x - DictObjCont.o x - DictObjFile.o x - DictDataInfo.o x - DictParentChild.o a - BlockIO.o a - CifCorrector.o a - CifDataInfo.o a - CifExcept.o a - CifFile.o a - CifFileReadDef.o a - CifFileUtil.o a - CifParentChild.o a - CifParser.o a - CifParserBase.o a - CifScanner.o a - CifScannerBase.o a - CifString.o a - DICParser.o a - DICParserBase.o a - DICScanner.o a - DICScannerBase.o a - DataInfo.o a - DicFile.o a - DictDataInfo.o a - DictObjCont.o a - DictObjContInfo.o a - DictObjFile.o a - DictParentChild.o a - Exceptions.o a - GenCont.o a - GenString.o a - ISTable.o a - ITTable.o a - ParentChild.o a - RcsbFile.o a - RcsbPlatform.o a - Serializer.o a - TTable.o a - TableFile.o a - mapped_ptr_vector.o a - mapped_vector.o a - regcomp.o a - regerror.o a - regexec.o a - regfree.o ../etc/cifinstall -m 0444 ./lib/all.a ../lib g++ -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -w -static obj/DictObjFileCreator.o ../lib/dict-obj-file.a ../lib/cif-file-util.a ../lib/cif-file.a ../lib/cifparse-obj.a ../lib/tables.a ../lib/common.a ../lib/regex.a -lm -o ./bin/DictObjFileCreator g++ -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -w -static obj/DictObjFileReader.o ../lib/dict-obj-file.a ../lib/cif-file-util.a ../lib/cif-file.a ../lib/cifparse-obj.a ../lib/tables.a ../lib/common.a ../lib/regex.a -lm -o ./bin/DictObjFileReader g++ -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -w -static obj/DictObjFileSelectiveReader.o ../lib/dict-obj-file.a ../lib/cif-file-util.a ../lib/cif-file.a ../lib/cifparse-obj.a ../lib/tables.a ../lib/common.a ../lib/regex.a -lm -o ./bin/DictObjFileSelectiveReader make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file' ------------------------------------------------------------ **** Making pdbml-parser **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser' libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlFileUtil.C -o ./obj/PdbMlFileUtil.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlParserHandler.C -o ./obj/PdbMlParserHandler.o libtool --mode=compile g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/misc_util.C -o ./obj/misc_util.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/xml2mmcif.C -o obj/xml2mmcif.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlParserHandler.C -fPIC -DPIC -o ./obj/.libs/PdbMlParserHandler.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlFileUtil.C -fPIC -DPIC -o ./obj/.libs/PdbMlFileUtil.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/misc_util.C -fPIC -DPIC -o ./obj/.libs/misc_util.o libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlFileUtil.C -o ./obj/PdbMlFileUtil.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/misc_util.C -o ./obj/misc_util.o >/dev/null 2>&1 libtool: compile: g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlParserHandler.C -o ./obj/PdbMlParserHandler.o >/dev/null 2>&1 a - PdbMlFileUtil.o a - PdbMlParserHandler.o a - misc_util.o cp -f -t ../lib ./obj/PdbMlFileUtil.o ./obj/PdbMlParserHandler.o ./obj/misc_util.o ./obj/PdbMlFileUtil.lo ./obj/PdbMlParserHandler.lo ./obj/misc_util.lo mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/PdbMlFileUtil.o ./obj/.libs/PdbMlParserHandler.o ./obj/.libs/misc_util.o true lib/pdbml-parser.a lib/pdbml-parser.a is up to date. ../etc/cifinstall -m 0444 ./lib/pdbml-parser.a ../lib x - BlockIO.o x - CifCorrector.o x - CifDataInfo.o x - CifExcept.o x - CifFile.o x - CifFileReadDef.o x - CifFileUtil.o x - CifParentChild.o x - CifParser.o x - CifParserBase.o x - CifScanner.o x - CifScannerBase.o x - CifString.o x - DICParser.o x - DICParserBase.o x - DICScanner.o x - DICScannerBase.o x - DataInfo.o x - DicFile.o x - DictDataInfo.o x - DictObjCont.o x - DictObjContInfo.o x - DictObjFile.o x - DictParentChild.o x - Exceptions.o x - GenCont.o x - GenString.o x - ISTable.o x - ITTable.o x - ParentChild.o x - RcsbFile.o x - RcsbPlatform.o x - Serializer.o x - TTable.o x - TableFile.o x - mapped_ptr_vector.o x - mapped_vector.o x - regcomp.o x - regerror.o x - regexec.o x - regfree.o x - PdbMlFileUtil.o x - PdbMlParserHandler.o x - misc_util.o a - BlockIO.o a - CifCorrector.o a - CifDataInfo.o a - CifExcept.o a - CifFile.o a - CifFileReadDef.o a - CifFileUtil.o a - CifParentChild.o a - CifParser.o a - CifParserBase.o a - CifScanner.o a - CifScannerBase.o a - CifString.o a - DICParser.o a - DICParserBase.o a - DICScanner.o a - DICScannerBase.o a - DataInfo.o a - DicFile.o a - DictDataInfo.o a - DictObjCont.o a - DictObjContInfo.o a - DictObjFile.o a - DictParentChild.o a - Exceptions.o a - GenCont.o a - GenString.o a - ISTable.o a - ITTable.o a - ParentChild.o a - PdbMlFileUtil.o a - PdbMlParserHandler.o a - RcsbFile.o a - RcsbPlatform.o a - Serializer.o a - TTable.o a - TableFile.o a - mapped_ptr_vector.o a - mapped_vector.o a - misc_util.o a - regcomp.o a - regerror.o a - regexec.o a - regfree.o ../etc/cifinstall -m 0444 ./lib/all.a ../lib g++ -Wl,-z,relro -Wl,-z,now -w -L/usr/lib obj/xml2mmcif.o ../lib/pdbml-parser.a ../lib/dict-obj-file.a ../lib/cif-file-util.a ../lib/cif-file.a ../lib/cifparse-obj.a ../lib/tables.a ../lib/common.a ../lib/regex.a -lxerces-c -lm -o ./bin/xml2mmcif make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser' ------------------------------------------------------------ **** Making cctbx **** ------------------------------------------------------------ make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cctbx' make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cctbx' libtool: link: g++ -fPIC -DPIC -shared lib/.libs/BlockIO.o lib/.libs/CifCorrector.o lib/.libs/CifDataInfo.o lib/.libs/CifExcept.o lib/.libs/CifFile.o lib/.libs/CifFileReadDef.o lib/.libs/CifFileUtil.o lib/.libs/CifParentChild.o lib/.libs/CifParser.o lib/.libs/CifParserBase.o lib/.libs/CifScanner.o lib/.libs/CifScannerBase.o lib/.libs/CifString.o lib/.libs/DICParser.o lib/.libs/DICParserBase.o lib/.libs/DICScanner.o lib/.libs/DICScannerBase.o lib/.libs/DataInfo.o lib/.libs/DicFile.o lib/.libs/DictDataInfo.o lib/.libs/DictObjCont.o lib/.libs/DictObjContInfo.o lib/.libs/DictObjFile.o lib/.libs/DictParentChild.o lib/.libs/Exceptions.o lib/.libs/GenCont.o lib/.libs/GenString.o lib/.libs/ISTable.o lib/.libs/ITTable.o lib/.libs/ParentChild.o lib/.libs/PdbMlFileUtil.o lib/.libs/PdbMlParserHandler.o lib/.libs/RcsbFile.o lib/.libs/RcsbPlatform.o lib/.libs/Serializer.o lib/.libs/TTable.o lib/.libs/TableFile.o lib/.libs/mapped_ptr_vector.o lib/.libs/mapped_vector.o lib/.libs/misc_util.o lib/.libs/regcomp.o lib/.libs/regerror.o lib/.libs/regexec.o lib/.libs/regfree.o -lxerces-c -lstdc++ -lm -lc -lgcc_s -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,librcsb-core-wrapper.so.0 -o lib/.libs/librcsb-core-wrapper.so.0.0.1 libtool: link: (cd "lib/.libs" && rm -f "librcsb-core-wrapper.so.0" && ln -s "librcsb-core-wrapper.so.0.0.1" "librcsb-core-wrapper.so.0") libtool: link: (cd "lib/.libs" && rm -f "librcsb-core-wrapper.so" && ln -s "librcsb-core-wrapper.so.0.0.1" "librcsb-core-wrapper.so") libtool: link: ar cr lib/.libs/librcsb-core-wrapper.a lib/BlockIO.o lib/CifCorrector.o lib/CifDataInfo.o lib/CifExcept.o lib/CifFile.o lib/CifFileReadDef.o lib/CifFileUtil.o lib/CifParentChild.o lib/CifParser.o lib/CifParserBase.o lib/CifScanner.o lib/CifScannerBase.o lib/CifString.o lib/DICParser.o lib/DICParserBase.o lib/DICScanner.o lib/DICScannerBase.o lib/DataInfo.o lib/DicFile.o lib/DictDataInfo.o lib/DictObjCont.o lib/DictObjContInfo.o lib/DictObjFile.o lib/DictParentChild.o lib/Exceptions.o lib/GenCont.o lib/GenString.o lib/ISTable.o lib/ITTable.o lib/ParentChild.o lib/PdbMlFileUtil.o lib/PdbMlParserHandler.o lib/RcsbFile.o lib/RcsbPlatform.o lib/Serializer.o lib/TTable.o lib/TableFile.o lib/mapped_ptr_vector.o lib/mapped_vector.o lib/misc_util.o lib/regcomp.o lib/regerror.o lib/regexec.o lib/regfree.o libtool: link: ranlib lib/.libs/librcsb-core-wrapper.a libtool: link: ( cd "lib/.libs" && rm -f "librcsb-core-wrapper.la" && ln -s "../librcsb-core-wrapper.la" "librcsb-core-wrapper.la" ) cd wrapper && make OPT=-O make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/wrapper' sed -e 's!@C++FLAGS@!-g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I -I !g; s!@DEFINES@! -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW !g; s!@EXT_COMP_OPT@!-ftemplate-depth-128 -fno-inline -Wall!; s!@EXT_LIBS_DIRS@!-L -L -L!g; s!@EXT_LIBS@!-l -l -l!g;' < "python/setup.py.in" > "python/setup.py" ln -sf ../src python/src make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/wrapper' make[2]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005' /usr/bin/make doc make[2]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005' rm -rf rcsb && cp -r include rcsb grep -lr '^#include "' rcsb | xargs sed -i -e '/^#include "/{ s/#include "\([^"]\+\)"/#include /; }' mkdir -p docs/doxyfiles echo PROJECT_NAME = librcsb-core-wrapper > docs/doxyfiles/Doxyfile echo PROJECT_NUMBER = 1.005 >> docs/doxyfiles/Doxyfile echo OUTPUT_DIRECTORY = docs >> docs/doxyfiles/Doxyfile echo INPUT = rcsb >> docs/doxyfiles/Doxyfile cat etc/Doxyfile-template >> docs/doxyfiles/Doxyfile doxygen docs/doxyfiles/Doxyfile warning: Tag 'USE_WINDOWS_ENCODING' at line 75 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DETAILS_AT_TOP' at line 177 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'SHOW_DIRECTORIES' at line 411 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'COLS_IN_ALPHA_INDEX' at line 677 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'HTML_ALIGN_MEMBERS' at line 732 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'XML_SCHEMA' at line 964 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'XML_DTD' at line 970 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'PERL_PATH' at line 1131 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'CLASS_DIAGRAMS' at line 1144 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MAX_DOT_GRAPH_WIDTH' at line 1246 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MAX_DOT_GRAPH_HEIGHT' at line 1254 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'DOT_TRANSPARENT' at line 1274 of file 'docs/doxyfiles/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: argument 'a4wide' for option PAPER_TYPE is not a valid enum value Using the default: a4! /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/CifFileUtil.h:39: warning: The following parameter of DataCorrection(CifFile &cifFile, DicFile &dicRef) is not documented: parameter 'cifFile' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/CifFile.h:421: warning: The following parameter of CifFile::DataChecking(Block &block, Block &refBlock, std::ostringstream &buf, const bool extraDictChecks=false, const bool extraCifChecks=false) is not documented: parameter 'buf' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/DicFile.h:42: warning: The following parameter of DicFile::DicFile(const eFileMode fileMode, const std::string &objFileName, const bool verbose=false, const Char::eCompareType caseSense=Char::eCASE_SENSITIVE, const unsigned int maxLineLength=STD_CIF_LINE_LENGTH, const std::string &nullValue=CifString::UnknownValue) is not documented: parameter 'objFileName' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/DictObjFile.h:45: warning: The following parameter of DictObjFile::DictObjFile(const string &persStorFileName, const eFileMode fileMode=READ_MODE, const bool verbose=false, const string &dictSdbFileName=std::string()) is not documented: parameter 'persStorFileName' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ISTable.h:527: warning: The following parameter of ISTable::GetColumn(std::vector< std::string > &col, const std::string &colName, const std::vector< unsigned int > &rowIndex) is not documented: parameter 'rowIndex' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ISTable.h:396: warning: The following parameter of ISTable::InsertColumn(const std::string &colName, const std::string &afColName, const std::vector< std::string > &col=std::vector< std::string >()) is not documented: parameter 'afColName' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ISTable.h:1003: warning: The following parameters of ISTable::Search(std::vector< unsigned int > &res, const std::string &target, const std::string &colName, const unsigned int fromRowIndex=0, const eSearchDir searchDir=eFORWARD, const eSearchType searchType=eEQUAL) are not documented: parameter 'fromRowIndex' parameter 'searchDir' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ISTable.h:1031: warning: The following parameters of ISTable::Search(std::vector< unsigned int > &res, const std::vector< std::string > &targets, const std::vector< std::string > &colNames, const unsigned int fromRowIndex=0, const eSearchDir searchDir=eFORWARD, const eSearchType searchType=eEQUAL, const std::string &indexName=std::string()) are not documented: parameter 'fromRowIndex' parameter 'searchDir' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ITTable.h:410: warning: The following parameter of ITTable::GetColumn(std::vector< std::string > &col, const std::string &colName, const std::vector< unsigned int > &rowIndex) is not documented: parameter 'rowIndex' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:278: warning: The following parameter of TTable::AddColumn(const std::vector< std::string > &col=std::vector< std::string >()) is not documented: parameter 'col' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:229: warning: The following parameter of TTable::ClearTuple(const unsigned int tupleIndex) is not documented: parameter 'tupleIndex' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:247: warning: The following parameter of TTable::DeleteTuple(const unsigned int tupleIndex) is not documented: parameter 'tupleIndex' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:360: warning: The following parameters of TTable::FillColumn(const unsigned int colIndex, const std::vector< std::string > &col, const unsigned int fromTupleIndex=0) are not documented: parameter 'col' parameter 'fromTupleIndex' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:186: warning: The following parameter of TTable::FillTuple(const unsigned int tupleIndex, const std::vector< std::string > &tuple, const unsigned int fromColIndex=0) is not documented: parameter 'fromColIndex' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:393: warning: The following parameters of TTable::GetColumn(std::vector< std::string > &col, const unsigned int colIndex, const unsigned int fromTupleIndex, unsigned int toTupleIndex) are not documented: parameter 'col' parameter 'fromTupleIndex' parameter 'toTupleIndex' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:311: warning: The following parameter of TTable::InsertColumn(const unsigned int atColIndex, const std::vector< std::string > &col=std::vector< std::string >()) is not documented: parameter 'col' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:471: warning: The following parameter of TTable::operator()(const unsigned int tupleIndex, const unsigned int colIndex) is not documented: parameter 'tupleIndex' /build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:495: warning: The following parameter of TTable::operator()(const unsigned int tupleIndex, const unsigned int colIndex) const is not documented: parameter 'tupleIndex' make[2]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005' dh_auto_build --sourcedirectory=wrapper/python --buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:294: InformationOnly: Normalizing '1.000' to '1.0' self.metadata.version = self._normalize_version(self.metadata.version) cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ In file included from src/CharPyWrap.C:3: ../../include/GenString.h:76:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/CharPyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/CifDataInfoPyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/CifFilePyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function &,::std::string const &,::std::string const &,::std::string const & ) ; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/CifFilePyWrap.C:210:40: warning: typedef 'GetAttributeValuesIf_function_type' locally defined but not used [-Wunused-local-typedefs] 210 | typedef void ( ::CifFile::*GetAttributeValuesIf_function_type )( ::std::vector< std::string > &,::std::string const &,::std::string const &,::std::string const &,::std::string const &,::std::string const & ) ; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ In file included from ../../include/DataInfo.h:23, from src/DataInfoPyWrap.C:6: ../../include/GenString.h:76:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/DataInfoPyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/DicFilePyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/DictDataInfoPyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/DictObjFilePyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/ISTablePyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function &,::std::vector< std::string > const &,::std::vector< std::string > const &,unsigned int const,::ITTable::eSearchDir const,::ITTable::eSearchType const,::std::string const & ) ; | ^~~~~~~~~~~~~~~~~~~~ src/ISTablePyWrap.C:245:40: warning: typedef 'GetColumn_function_type' locally defined but not used [-Wunused-local-typedefs] 245 | typedef void ( ::ISTable::*GetColumn_function_type )( ::std::vector< std::string > &,::std::string const & ) ; | ^~~~~~~~~~~~~~~~~~~~~~~ cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++ In file included from ../../include/DataInfo.h:23, from src/PdbMlFilePyWrap.C:6: ../../include/GenString.h:76:33: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/PdbMlFilePyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function struct std::binary_function' is deprecated [-Wdeprecated-declarations] 76 | class CharEqualTo : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10, from /usr/include/boost/python.hpp:11, from src/TableFilePyWrap.C:1: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../include/GenString.h:92:32: warning: 'template struct std::unary_function' is deprecated [-Wdeprecated-declarations] 92 | class WhiteSpace : public std::unary_function | ^~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ ../../include/GenString.h:132:35: warning: 'template struct std::binary_function' is deprecated [-Wdeprecated-declarations] 132 | class StringEqualTo : public std::binary_function