Sun May 23 07:19:17 UTC 2021 I: starting to build librostlab-blast/bullseye/i386 on jenkins on '2021-05-23 07:19' Sun May 23 07:19:17 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_3/8590/console.log Sun May 23 07:19:17 UTC 2021 I: Downloading source for bullseye/librostlab-blast=1.0.1-10 --2021-05-23 07:19:17-- http://cdn-fastly.deb.debian.org/debian/pool/main/libr/librostlab-blast/librostlab-blast_1.0.1-10.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2389 (2.3K) Saving to: ‘librostlab-blast_1.0.1-10.dsc’ 0K .. 100% 139M=0s 2021-05-23 07:19:17 (139 MB/s) - ‘librostlab-blast_1.0.1-10.dsc’ saved [2389/2389] Sun May 23 07:19:17 UTC 2021 I: librostlab-blast_1.0.1-10.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: librostlab-blast Binary: librostlab-blast0v5, librostlab-blast0-dev, librostlab-blast-doc Architecture: any all Version: 1.0.1-10 Maintainer: Debian Med Packaging Team Uploaders: Laszlo Kajan , Andreas Tille Homepage: http://rostlab.org/ Standards-Version: 4.3.0 Vcs-Browser: https://salsa.debian.org/med-team/librostlab-blast Vcs-Git: https://salsa.debian.org/med-team/librostlab-blast.git Testsuite: autopkgtest Testsuite-Triggers: build-essential Build-Depends: debhelper (>= 11~), d-shlibs, bison, doxygen, flex, graphviz, texlive-latex-recommended, librostlab-dev, texlive-fonts-recommended, texlive-latex-extra Package-List: librostlab-blast-doc deb doc optional arch=all librostlab-blast0-dev deb libdevel optional arch=any librostlab-blast0v5 deb libs optional arch=any Checksums-Sha1: 5b5cff416807dae2daad3d17540c7fa70bb8bc70 384023 librostlab-blast_1.0.1.orig.tar.gz eda1e2bc975447c0ce59dfc2daa4d64a4b72d381 5280 librostlab-blast_1.0.1-10.debian.tar.xz Checksums-Sha256: 7c0a0181253b3006585b7ffb755fb9720181e70d91dd25ec511b5d88bd6ece45 384023 librostlab-blast_1.0.1.orig.tar.gz fec96d3dff7a7e06db71fdd36f7b09514af5021b007dc836c8a5907504f97863 5280 librostlab-blast_1.0.1-10.debian.tar.xz Files: da93e9eed00ac33083748462b50f673f 384023 librostlab-blast_1.0.1.orig.tar.gz ed9392a2fb5727803cda565337b19b32 5280 librostlab-blast_1.0.1-10.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlyPalkRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGOHRAAlkZj1zdVkyK6gwi4kdnxhS4WIwR2yuJv qpw+NNfzhsYJwTFLz6g3zeGwenUJ8mNxnYxVCldbMJrvKYeqCr6Fr3jyZoyeVS2+ haMmmkAok431GoiZ4lGsmDHjIe/drZKVbRnJE74IWOGM6lO7ft923gOe4BvPW2db cG7Zbbt+Wkan5VirkG93SkCWP7cqBxycAYkdn0KU1kVTVB9eIKTVomdgyl5HPC48 rnJWDqJLUagjQlT1vcaGGutCGywOMfNxJ9+e1iUUZjh1FQ88DrDQaVg/oIWp0eyc mMrI8+kUEKo7Z5xw6zuY/XDYMFM24t5aZyBjOsrYW9AKfuplyFQX/Xsbyab5v0/J kw7ysBtQY03CzigYjAGIwx0B/3LTnaxYLd+jRun7Bs5U+lGPBPk8YZSJYVj5jrDc sZGTBGD3APY8jOJSzVbeYBDrU8d+OcItwrgwFCA9rn6265GZHDYvZU1L6rm5m9Dv C+gCBWEKxZTnWpf5+xOttCqNGTGyfbdRiVKmg6H2xl2PlVuND9YOIZKDsl+Xl8jZ bNL+lZnDwpxqU272Dz8CS65FnKlDYR1cuaer4+Qf6i85LYwNdmqTXfVHvdEmOZ5S gxk4W6KgHrcVr4VIrai2SN0rBkiy+7yJZnZ9Ayfn+ZmFPTSZtkwysDKgP0dIfVEW zJhoOvn6jWw= =1pcC -----END PGP SIGNATURE----- Sun May 23 07:19:17 UTC 2021 I: Checking whether the package is not for us Sun May 23 07:19:17 UTC 2021 I: Starting 1st build on remote node ionos2-i386.debian.net. Sun May 23 07:19:17 UTC 2021 I: Preparing to do remote build '1' on ionos2-i386.debian.net. Sun May 23 07:29:42 UTC 2021 I: Deleting $TMPDIR on ionos2-i386.debian.net. unshare: unshare failed: Cannot allocate memory W: pbuilder: unshare CLONE_NEWNET not available I: pbuilder: network access is available during build! I: Current time: Sat May 22 19:19:20 -12 2021 I: pbuilder-time-stamp: 1621754360 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration 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: using eatmydata during job I: Copying source file I: copying [librostlab-blast_1.0.1-10.dsc] I: copying [./librostlab-blast_1.0.1.orig.tar.gz] I: copying [./librostlab-blast_1.0.1-10.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.cZb54jcg/trustedkeys.kbx': General error gpgv: Signature made Sun Mar 17 21:52:25 2019 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./librostlab-blast_1.0.1-10.dsc dpkg-source: info: extracting librostlab-blast in librostlab-blast-1.0.1 dpkg-source: info: unpacking librostlab-blast_1.0.1.orig.tar.gz dpkg-source: info: unpacking librostlab-blast_1.0.1-10.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying reproducible.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/29935/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=10' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='5acf1b88819f482389a164c800113e2d' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='29935' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.KtUXmU6csE/pbuilderrc_QEDP --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.KtUXmU6csE/b1 --logfile b1/build.log librostlab-blast_1.0.1-10.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos2-i386 4.19.0-16-686-pae #1 SMP Debian 4.19.181-1 (2021-03-19) i686 GNU/Linux I: ls -l /bin total 5788 -rwxr-xr-x 1 root root 1367848 Feb 24 08:57 bash -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp -rwxr-xr-x 1 root root 128724 Dec 10 01:23 dash -rwxr-xr-x 1 root root 124904 Sep 22 2020 date -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd -rwxr-xr-x 1 root root 100752 Sep 22 2020 df -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir -rwxr-xr-x 1 root root 83644 Feb 7 02:38 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 34664 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 71928 Feb 7 02:38 findmnt -rwsr-xr-x 1 root root 30112 Feb 26 04:12 fusermount -rwxr-xr-x 1 root root 210488 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe -rwxr-xr-x 1 root root 100952 Mar 2 11:30 gzip -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln -rwxr-xr-x 1 root root 55572 Feb 7 2020 login -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls -rwxr-xr-x 1 root root 153124 Feb 7 02:38 lsblk -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 58920 Feb 7 02:38 more -rwsr-xr-x 1 root root 50720 Feb 7 02:38 mount -rwxr-xr-x 1 root root 13856 Feb 7 02:38 mountpoint -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Feb 24 08:57 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 May 21 02:22 sh -> dash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Feb 7 02:38 su -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync -rwxr-xr-x 1 root root 602584 Feb 16 21:55 tar -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch -rwxr-xr-x 1 root root 34664 Sep 22 2020 true -rwxr-xr-x 1 root root 17768 Feb 26 04:12 ulockmgr_server -rwsr-xr-x 1 root root 30236 Feb 7 02:38 umount -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir -rwxr-xr-x 1 root root 63024 Feb 7 02:38 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew I: user script /srv/workspace/pbuilder/29935/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: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), d-shlibs, bison, doxygen, flex, graphviz, texlive-latex-recommended, librostlab-dev, texlive-fonts-recommended, texlive-latex-extra dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19674 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 (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on bison; however: Package bison is not installed. pbuilder-satisfydepends-dummy depends on doxygen; however: Package doxygen is not installed. pbuilder-satisfydepends-dummy depends on flex; however: Package flex is not installed. pbuilder-satisfydepends-dummy depends on graphviz; however: Package graphviz is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-recommended; however: Package texlive-latex-recommended is not installed. pbuilder-satisfydepends-dummy depends on librostlab-dev; however: Package librostlab-dev is not installed. pbuilder-satisfydepends-dummy depends on texlive-fonts-recommended; however: Package texlive-fonts-recommended is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-extra; however: Package texlive-latex-extra 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} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} doxygen{a} dwz{a} file{a} flex{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-lmodern{a} gettext{a} gettext-base{a} graphviz{a} groff-base{a} intltool-debian{a} libapache-pom-java{a} libarchive-zip-perl{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcdt5{a} libcgraph6{a} libclang-cpp11{a} libclang1-11{a} libcommons-logging-java{a} libcommons-parent-java{a} libdatrie1{a} libdebhelper-perl{a} libdeflate0{a} libedit2{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontbox-java{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgd3{a} libglib2.0-0{a} libgraphite2-3{a} libgts-0.7-5{a} libgvc6{a} libgvpr2{a} libharfbuzz0b{a} libice6{a} libicu67{a} libjbig0{a} libjpeg62-turbo{a} libkpathsea6{a} liblab-gamut1{a} libllvm11{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmpdec3{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpathplan4{a} libpdfbox-java{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libptexenc1{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librostlab3{a} librostlab3-dev{a} libsigsegv2{a} libsm6{a} libsub-override-perl{a} libsynctex2{a} libteckit0{a} libtexlua53{a} libtexluajit2{a} libthai-data{a} libthai0{a} libtiff5{a} libtool{a} libuchardet0{a} libwebp6{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxi6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6{a} libz3-4{a} libzzip-0-13{a} m4{a} man-db{a} media-types{a} po-debconf{a} preview-latex-style{a} python3{a} python3-minimal{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} t1utils{a} tex-common{a} texlive-base{a} texlive-binaries{a} texlive-fonts-recommended{a} texlive-latex-base{a} texlive-latex-extra{a} texlive-latex-recommended{a} texlive-pictures{a} ucf{a} x11-common{a} xdg-utils{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl dvisvgm fonts-liberation libarchive-cpio-perl libfile-mimeinfo-perl libfl-dev libglib2.0-data libgts-bin libltdl-dev libmail-sendmail-perl libnet-dbus-perl libx11-protocol-perl lmodern lynx ruby shared-mime-info tex-gyre texlive-plain-generic tipa tk wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 134 newly installed, 0 to remove and 0 not upgraded. Need to get 169 MB of archives. After unpacking 603 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-7 [148 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 flex i386 2.6.4-8 [434 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 libpython3.9-minimal i386 3.9.2-1 [801 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 libexpat1 i386 2.2.10-2 [98.8 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 python3.9-minimal i386 3.9.2-1 [1956 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 python3-minimal i386 3.9.2-3 [38.2 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 media-types all 4.0.0 [30.3 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 libmpdec3 i386 2.5.1-1 [91.9 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 readline-common all 8.1-1 [73.7 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 libreadline8 i386 8.1-1 [173 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 libpython3.9-stdlib i386 3.9.2-1 [1703 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 python3.9 i386 3.9.2-1 [466 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 libpython3-stdlib i386 3.9.2-3 [21.4 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 python3 i386 3.9.2-3 [37.9 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 ucf all 3.0043 [74.0 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 tex-common all 6.16 [53.7 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3 [273 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 bison i386 2:3.7.5+dfsg-1 [1114 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 d-shlibs all 0.98 [17.9 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-6 [8776 kB] Get: 44 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.6 [727 kB] Get: 45 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 46 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 47 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Get: 49 http://deb.debian.org/debian bullseye/main i386 libmd0 i386 1.0.3-3 [28.9 kB] Get: 50 http://deb.debian.org/debian bullseye/main i386 libbsd0 i386 0.11.3-1 [111 kB] Get: 51 http://deb.debian.org/debian bullseye/main i386 libedit2 i386 3.1-20191231-2+b1 [101 kB] Get: 52 http://deb.debian.org/debian bullseye/main i386 libz3-4 i386 4.8.10-1 [7737 kB] Get: 53 http://deb.debian.org/debian bullseye/main i386 libllvm11 i386 1:11.0.1-2 [17.7 MB] Get: 54 http://deb.debian.org/debian bullseye/main i386 libclang-cpp11 i386 1:11.0.1-2 [9562 kB] Get: 55 http://deb.debian.org/debian bullseye/main i386 libclang1-11 i386 1:11.0.1-2 [5429 kB] Get: 56 http://deb.debian.org/debian bullseye/main i386 doxygen i386 1.9.1-1 [4426 kB] Get: 57 http://deb.debian.org/debian bullseye/main i386 libbrotli1 i386 1.0.9-2+b2 [286 kB] Get: 58 http://deb.debian.org/debian bullseye/main i386 libpng16-16 i386 1.6.37-3 [303 kB] Get: 59 http://deb.debian.org/debian bullseye/main i386 libfreetype6 i386 2.10.4+dfsg-1 [429 kB] Get: 60 http://deb.debian.org/debian bullseye/main i386 fonts-dejavu-core all 2.37-2 [1069 kB] Get: 61 http://deb.debian.org/debian bullseye/main i386 fontconfig-config all 2.13.1-4.2 [281 kB] Get: 62 http://deb.debian.org/debian bullseye/main i386 libfontconfig1 i386 2.13.1-4.2 [358 kB] Get: 63 http://deb.debian.org/debian bullseye/main i386 fontconfig i386 2.13.1-4.2 [417 kB] Get: 64 http://deb.debian.org/debian bullseye/main i386 fonts-lmodern all 2.004.5-6.1 [4540 kB] Get: 65 http://deb.debian.org/debian bullseye/main i386 libcdt5 i386 2.42.2-5 [62.6 kB] Get: 66 http://deb.debian.org/debian bullseye/main i386 libcgraph6 i386 2.42.2-5 [89.8 kB] Get: 67 http://deb.debian.org/debian bullseye/main i386 libjpeg62-turbo i386 1:2.0.6-4 [160 kB] Get: 68 http://deb.debian.org/debian bullseye/main i386 libdeflate0 i386 1.7-1 [48.4 kB] Get: 69 http://deb.debian.org/debian bullseye/main i386 libjbig0 i386 2.1-3.1+b2 [31.5 kB] Get: 70 http://deb.debian.org/debian bullseye/main i386 libwebp6 i386 0.6.1-2+b1 [274 kB] Get: 71 http://deb.debian.org/debian bullseye/main i386 libtiff5 i386 4.2.0-1 [305 kB] Get: 72 http://deb.debian.org/debian bullseye/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 73 http://deb.debian.org/debian bullseye/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 74 http://deb.debian.org/debian bullseye/main i386 libxcb1 i386 1.14-3 [144 kB] Get: 75 http://deb.debian.org/debian bullseye/main i386 libx11-data all 2:1.7.0-2 [310 kB] Get: 76 http://deb.debian.org/debian bullseye/main i386 libx11-6 i386 2:1.7.0-2 [796 kB] Get: 77 http://deb.debian.org/debian bullseye/main i386 libxpm4 i386 1:3.5.12-1 [50.9 kB] Get: 78 http://deb.debian.org/debian bullseye/main i386 libgd3 i386 2.3.0-2 [142 kB] Get: 79 http://deb.debian.org/debian bullseye/main i386 libglib2.0-0 i386 2.66.8-1 [1437 kB] Get: 80 http://deb.debian.org/debian bullseye/main i386 libgts-0.7-5 i386 0.7.6+darcs121130-4+b1 [161 kB] Get: 81 http://deb.debian.org/debian bullseye/main i386 libpixman-1-0 i386 0.40.0-1 [545 kB] Get: 82 http://deb.debian.org/debian bullseye/main i386 libxcb-render0 i386 1.14-3 [112 kB] Get: 83 http://deb.debian.org/debian bullseye/main i386 libxcb-shm0 i386 1.14-3 [102 kB] Get: 84 http://deb.debian.org/debian bullseye/main i386 libxext6 i386 2:1.3.3-1.1 [55.2 kB] Get: 85 http://deb.debian.org/debian bullseye/main i386 libxrender1 i386 1:0.9.10-1 [34.1 kB] Get: 86 http://deb.debian.org/debian bullseye/main i386 libcairo2 i386 1.16.0-5 [746 kB] Get: 87 http://deb.debian.org/debian bullseye/main i386 libltdl7 i386 2.4.6-15 [392 kB] Get: 88 http://deb.debian.org/debian bullseye/main i386 libfribidi0 i386 1.0.8-2 [65.4 kB] Get: 89 http://deb.debian.org/debian bullseye/main i386 libgraphite2-3 i386 1.3.14-1 [84.0 kB] Get: 90 http://deb.debian.org/debian bullseye/main i386 libharfbuzz0b i386 2.7.4-1 [1490 kB] Get: 91 http://deb.debian.org/debian bullseye/main i386 libthai-data all 0.1.28-3 [170 kB] Get: 92 http://deb.debian.org/debian bullseye/main i386 libdatrie1 i386 0.2.13-1 [44.5 kB] Get: 93 http://deb.debian.org/debian bullseye/main i386 libthai0 i386 0.1.28-3 [55.3 kB] Get: 94 http://deb.debian.org/debian bullseye/main i386 libpango-1.0-0 i386 1.46.2-3 [197 kB] Get: 95 http://deb.debian.org/debian bullseye/main i386 libpangoft2-1.0-0 i386 1.46.2-3 [65.1 kB] Get: 96 http://deb.debian.org/debian bullseye/main i386 libpangocairo-1.0-0 i386 1.46.2-3 [51.9 kB] Get: 97 http://deb.debian.org/debian bullseye/main i386 libpathplan4 i386 2.42.2-5 [64.5 kB] Get: 98 http://deb.debian.org/debian bullseye/main i386 libgvc6 i386 2.42.2-5 [728 kB] Get: 99 http://deb.debian.org/debian bullseye/main i386 libgvpr2 i386 2.42.2-5 [221 kB] Get: 100 http://deb.debian.org/debian bullseye/main i386 liblab-gamut1 i386 2.42.2-5 [221 kB] Get: 101 http://deb.debian.org/debian bullseye/main i386 x11-common all 1:7.7+22 [252 kB] Get: 102 http://deb.debian.org/debian bullseye/main i386 libice6 i386 2:1.0.10-1 [60.8 kB] Get: 103 http://deb.debian.org/debian bullseye/main i386 libsm6 i386 2:1.2.3-1 [35.7 kB] Get: 104 http://deb.debian.org/debian bullseye/main i386 libxt6 i386 1:1.2.0-1 [195 kB] Get: 105 http://deb.debian.org/debian bullseye/main i386 libxmu6 i386 2:1.1.2-2+b3 [62.8 kB] Get: 106 http://deb.debian.org/debian bullseye/main i386 libxaw7 i386 2:1.0.13-1.1 [210 kB] Get: 107 http://deb.debian.org/debian bullseye/main i386 graphviz i386 2.42.2-5 [594 kB] Get: 108 http://deb.debian.org/debian bullseye/main i386 libapache-pom-java all 18-1 [4676 B] Get: 109 http://deb.debian.org/debian bullseye/main i386 libcommons-parent-java all 43-1 [10.8 kB] Get: 110 http://deb.debian.org/debian bullseye/main i386 libcommons-logging-java all 1.2-2 [62.2 kB] Get: 111 http://deb.debian.org/debian bullseye/main i386 libfontbox-java all 1:1.8.16-2 [211 kB] Get: 112 http://deb.debian.org/debian bullseye/main i386 libkpathsea6 i386 2020.20200327.54578-7 [176 kB] Get: 113 http://deb.debian.org/debian bullseye/main i386 libpaper1 i386 1.1.28+b1 [21.7 kB] Get: 114 http://deb.debian.org/debian bullseye/main i386 libpaper-utils i386 1.1.28+b1 [18.6 kB] Get: 115 http://deb.debian.org/debian bullseye/main i386 libpdfbox-java all 1:1.8.16-2 [5205 kB] Get: 116 http://deb.debian.org/debian bullseye/main i386 libptexenc1 i386 2020.20200327.54578-7 [65.1 kB] Get: 117 http://deb.debian.org/debian bullseye/main i386 librostlab3 i386 1.0.20-10 [6372 B] Get: 118 http://deb.debian.org/debian bullseye/main i386 librostlab3-dev i386 1.0.20-10 [14.0 kB] Get: 119 http://deb.debian.org/debian bullseye/main i386 libsynctex2 i386 2020.20200327.54578-7 [85.9 kB] Get: 120 http://deb.debian.org/debian bullseye/main i386 libteckit0 i386 2.5.10+ds1-3 [277 kB] Get: 121 http://deb.debian.org/debian bullseye/main i386 libtexlua53 i386 2020.20200327.54578-7 [146 kB] Get: 122 http://deb.debian.org/debian bullseye/main i386 libtexluajit2 i386 2020.20200327.54578-7 [284 kB] Get: 123 http://deb.debian.org/debian bullseye/main i386 libxi6 i386 2:1.7.10-1 [85.1 kB] Get: 124 http://deb.debian.org/debian bullseye/main i386 libzzip-0-13 i386 0.13.62-3.3 [57.6 kB] Get: 125 http://deb.debian.org/debian bullseye/main i386 preview-latex-style all 12.2-1 [201 kB] Get: 126 http://deb.debian.org/debian bullseye/main i386 t1utils i386 1.41-4 [62.3 kB] Get: 127 http://deb.debian.org/debian bullseye/main i386 texlive-binaries i386 2020.20200327.54578-7 [10.2 MB] Get: 128 http://deb.debian.org/debian bullseye/main i386 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 129 http://deb.debian.org/debian bullseye/main i386 texlive-base all 2020.20210202-3 [20.8 MB] Get: 130 http://deb.debian.org/debian bullseye/main i386 texlive-fonts-recommended all 2020.20210202-3 [5002 kB] Get: 131 http://deb.debian.org/debian bullseye/main i386 texlive-latex-base all 2020.20210202-3 [1120 kB] Get: 132 http://deb.debian.org/debian bullseye/main i386 texlive-latex-recommended all 2020.20210202-3 [14.5 MB] Get: 133 http://deb.debian.org/debian bullseye/main i386 texlive-pictures all 2020.20210202-3 [6743 kB] Get: 134 http://deb.debian.org/debian bullseye/main i386 texlive-latex-extra all 2020.20210202-3 [13.7 MB] Fetched 169 MB in 1min 4s (2626 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19674 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-7_i386.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../01-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_i386.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../03-libpipeline1_1.5.3-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_i386.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../05-libsigsegv2_2.13-1_i386.deb ... Unpacking libsigsegv2:i386 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../06-m4_1.4.18-5_i386.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package flex. Preparing to unpack .../07-flex_2.6.4-8_i386.deb ... Unpacking flex (2.6.4-8) ... Selecting previously unselected package libpython3.9-minimal:i386. Preparing to unpack .../08-libpython3.9-minimal_3.9.2-1_i386.deb ... Unpacking libpython3.9-minimal:i386 (3.9.2-1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../09-libexpat1_2.2.10-2_i386.deb ... Unpacking libexpat1:i386 (2.2.10-2) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../10-python3.9-minimal_3.9.2-1_i386.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:i386 (3.9.2-1) ... Setting up libexpat1:i386 (2.2.10-2) ... Setting up python3.9-minimal (3.9.2-1) ... 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 ... 20708 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_i386.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package libmpdec3:i386. Preparing to unpack .../2-libmpdec3_2.5.1-1_i386.deb ... Unpacking libmpdec3:i386 (2.5.1-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../3-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:i386. Preparing to unpack .../4-libreadline8_8.1-1_i386.deb ... Unpacking libreadline8:i386 (8.1-1) ... Selecting previously unselected package libpython3.9-stdlib:i386. Preparing to unpack .../5-libpython3.9-stdlib_3.9.2-1_i386.deb ... Unpacking libpython3.9-stdlib:i386 (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../6-python3.9_3.9.2-1_i386.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:i386. Preparing to unpack .../7-libpython3-stdlib_3.9.2-3_i386.deb ... Unpacking libpython3-stdlib:i386 (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... 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 ... 21129 files and directories currently installed.) Preparing to unpack .../000-python3_3.9.2-3_i386.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package ucf. Preparing to unpack .../002-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... 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Setting up libedit2:i386 (3.1-20191231-2+b1) ... Setting up libreadline8:i386 (8.1-1) ... Setting up libcommons-parent-java (43-1) ... Setting up libcommons-logging-java (1.2-2) ... Setting up m4 (1.4.18-5) ... Setting up libxcb-shm0:i386 (1.14-3) ... Setting up librostlab3-dev (1.0.20-10) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libthai0:i386 (0.1.28-3) ... Setting up libllvm11:i386 (1:11.0.1-2) ... Setting up libptexenc1:i386 (2020.20200327.54578-7) ... Setting up libfreetype6:i386 (2.10.4+dfsg-1) ... Setting up libclang1-11 (1:11.0.1-2) ... Setting up ucf (3.0043) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.11.0-1) ... Setting up libgvpr2:i386 (2.42.2-5) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up bison (2:3.7.5+dfsg-1) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up libx11-6:i386 (2:1.7.0-2) ... 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Building format(s) --all. This may take some time... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.25.3-1.1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/librostlab-blast-1.0.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package librostlab-blast dpkg-buildpackage: info: source version 1.0.1-10 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/librostlab-blast-1.0.1' dh_auto_clean rm -f lib/librostlab-blast.tag make[1]: Leaving directory '/build/librostlab-blast-1.0.1' dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:7: installing './compile' configure.ac:5: installing './missing' lib/Makefile.am: installing './depcomp' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/librostlab-blast-1.0.1' dh_auto_configure -- --enable-doxygen-dot --enable-doxygen-pdf=No ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-doxygen-dot --enable-doxygen-pdf=No checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking how to run the C preprocessor... gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for bison... bison -y checking for flex... flex checking lex output file root... lex.yy checking lex library... none needed checking whether yytext is a pointer... no checking rostlab/aux_functions.h usability... yes checking rostlab/aux_functions.h presence... yes checking for rostlab/aux_functions.h... yes checking rostlab/rostlab_stdexcept.h usability... yes checking rostlab/rostlab_stdexcept.h presence... yes checking for rostlab/rostlab_stdexcept.h... yes checking for doxygen... /usr/bin/doxygen checking for perl... /usr/bin/perl checking for dot... /usr/bin/dot checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating lib/Makefile config.status: creating lib/Doxyfile config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands make[1]: Leaving directory '/build/librostlab-blast-1.0.1' debian/rules override_dh_auto_build make[1]: Entering directory '/build/librostlab-blast-1.0.1' dh_auto_build make -j10 make[2]: Entering directory '/build/librostlab-blast-1.0.1' make all-recursive make[3]: Entering directory '/build/librostlab-blast-1.0.1' Making all in lib make[4]: Entering directory '/build/librostlab-blast-1.0.1/lib' mkdir -p rostlab /bin/bash ../ylwrap blast-parser-scanner.lpp lex.yy.c blast-parser-scanner.cpp -- flex /bin/bash ../ylwrap blast-parser-parser.ypp y.tab.c blast-parser-parser.cpp y.tab.h rostlab/blast-parser-parser.h y.output blast-parser-parser.output stack.hh rostlab/blast-parser-stack.h location.hh rostlab/blast-parser-location.h position.hh rostlab/blast-parser-position.h -- bison -y /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:1.1-9: warning: POSIX Yacc does not support %skeleton [-Wyacc] 1 | %skeleton "lalr1.cc" | ^~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:1.11-20: warning: POSIX Yacc does not support string literals [-Wyacc] 1 | %skeleton "lalr1.cc" | ^~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:20.1-8: warning: POSIX Yacc does not support %require [-Wyacc] 20 | %require "2.4.1" | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:20.10-16: warning: POSIX Yacc does not support string literals [-Wyacc] 20 | %require "2.4.1" | ^~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:21.1-8: warning: POSIX Yacc does not support %defines [-Wyacc] 21 | %defines | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:22.1-7: warning: POSIX Yacc does not support %define [-Wyacc] 22 | %define namespace "rostlab::blast" | ^~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:22.19-34: warning: POSIX Yacc does not support string literals [-Wyacc] 22 | %define namespace "rostlab::blast" | ^~~~~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:22.1-34: warning: deprecated directive: '%define namespace "rostlab::blast"', use '%define api.namespace {rostlab::blast}' [-Wdeprecated] 22 | %define namespace "rostlab::blast" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | %define api.namespace {rostlab::blast} /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:24.1-5: warning: POSIX Yacc does not support %code [-Wyacc] 24 | %code requires { | ^~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:37.1-14: warning: POSIX Yacc does not support %error-verbose [-Wyacc] 37 | %error-verbose | ^~~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:37.1-14: warning: deprecated directive: '%error-verbose', use '%define parse.error verbose' [-Wdeprecated] 37 | %error-verbose | ^~~~~~~~~~~~~~ | %define parse.error verbose /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:39.1-15: warning: POSIX Yacc does not support %initial-action [-Wyacc] 39 | %initial-action | ^~~~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:53.1-5: warning: POSIX Yacc does not support %code [-Wyacc] 53 | %code { | ^~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:59.29-41: warning: POSIX Yacc does not support string literals [-Wyacc] 59 | %token END 0 "end of file" | ^~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:72.29-36: warning: POSIX Yacc does not support string literals [-Wyacc] 72 | %token QUERYEQ "Query=" | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:73.29-39: warning: POSIX Yacc does not support string literals [-Wyacc] 73 | %token DATABASECOLON "Database:" | ^~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:74.29-48: warning: POSIX Yacc does not support string literals [-Wyacc] 74 | %token RESFROMROUND "Results from round" | ^~~~~~~~~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:75.29-37: warning: POSIX Yacc does not support string literals [-Wyacc] 75 | %token SCOREEQ "Score =" | ^~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:76.29-38: warning: POSIX Yacc does not support string literals [-Wyacc] 76 | %token EXPECTEQ "Expect =" | ^~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:77.29-37: warning: POSIX Yacc does not support string literals [-Wyacc] 77 | %token METHODCOLON "Method:" | ^~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:78.29-42: warning: POSIX Yacc does not support string literals [-Wyacc] 78 | %token IDENTITIESEQ "Identities =" | ^~~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:79.29-41: warning: POSIX Yacc does not support string literals [-Wyacc] 79 | %token POSITIVESEQ "Positives =" | ^~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:80.29-36: warning: POSIX Yacc does not support string literals [-Wyacc] 80 | %token GAPSEQ "Gaps =" | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:81.29-38: warning: POSIX Yacc does not support string literals [-Wyacc] 81 | %token STRANDEQ "Strand =" | ^~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:82.29-37: warning: POSIX Yacc does not support string literals [-Wyacc] 82 | %token FRAMEEQ "Frame =" | ^~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:83.29-36: warning: POSIX Yacc does not support string literals [-Wyacc] 83 | %token QUERYCOLON "Query:" | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:84.29-36: warning: POSIX Yacc does not support string literals [-Wyacc] 84 | %token SBJCTCOLON "Sbjct:" | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:88.1-11: warning: POSIX Yacc does not support %destructor [-Wyacc] 88 | %destructor { delete $$; } | ^~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:90.1-8: warning: POSIX Yacc does not support %printer [-Wyacc] 90 | %printer { debug_stream () << *$$; } | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:91.1-8: warning: POSIX Yacc does not support %printer [-Wyacc] 91 | %printer { debug_stream () << $$; } | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:109.9-16: warning: POSIX Yacc does not support string literals [-Wyacc] 109 | query: "Query=" STRING INT | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:122.11-21: warning: POSIX Yacc does not support string literals [-Wyacc] 122 | database: "Database:" STRING INT INT | ^~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:137.15-34: warning: POSIX Yacc does not support string literals [-Wyacc] 137 | | "Results from round" INT | ^~~~~~~~~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:201.19-27: warning: POSIX Yacc does not support string literals [-Wyacc] 201 | hsp_headerfield: "Score =" num INT | ^~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:203.19-28: warning: POSIX Yacc does not support string literals [-Wyacc] 203 | | "Expect =" num | ^~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:205.19-27: warning: POSIX Yacc does not support string literals [-Wyacc] 205 | | "Method:" STRING | ^~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:207.19-32: warning: POSIX Yacc does not support string literals [-Wyacc] 207 | | "Identities =" INT | ^~~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:209.19-31: warning: POSIX Yacc does not support string literals [-Wyacc] 209 | | "Positives =" INT | ^~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:211.19-26: warning: POSIX Yacc does not support string literals [-Wyacc] 211 | | "Gaps =" INT | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:213.19-28: warning: POSIX Yacc does not support string literals [-Wyacc] 213 | | "Strand =" STRING '/' STRING | ^~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:215.19-27: warning: POSIX Yacc does not support string literals [-Wyacc] 215 | | "Frame =" INT '/' INT | ^~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:217.19-27: warning: POSIX Yacc does not support string literals [-Wyacc] 217 | | "Frame =" INT | ^~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:224.15-22: warning: POSIX Yacc does not support string literals [-Wyacc] 224 | alitriple: "Query:" INT STRING INT STRING "Sbjct:" INT STRING INT | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:224.46-53: warning: POSIX Yacc does not support string literals [-Wyacc] 224 | alitriple: "Query:" INT STRING INT STRING "Sbjct:" INT STRING INT | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:247.15-22: warning: POSIX Yacc does not support string literals [-Wyacc] 247 | | "Query:" '0' /* bug as far as I can tell */ | ^~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp:22.1-34: warning: %define variable 'api.namespace' requires '{...}' values [-Wdeprecated] 22 | %define namespace "rostlab::blast" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/librostlab-blast-1.0.1/lib/blast-parser-parser.ypp: warning: fix-its can be applied. Rerun with option '--update'. [-Wother] updating rostlab/blast-parser-location.h updating rostlab/blast-parser-position.h updating rostlab/blast-parser-stack.h updating rostlab/blast-parser-parser.h sed -i -e 's,\by.tab.h\b,rostlab/blast-parser-parser.h,g' blast-parser-parser.cpp sed -i -e 's,\bstack.hh\b,rostlab/blast-parser-stack.h,g;s,\blocation.hh\b,rostlab/blast-parser-location.h,g;' rostlab/blast-parser-parser.h sed -i -e 's,\bposition.hh\b,rostlab/blast-parser-position.h,g;' rostlab/blast-parser-location.h make all-am make[5]: Entering directory '/build/librostlab-blast-1.0.1/lib' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c -o librostlab_blast_la-blast-parser-driver.lo `test -f 'blast-parser-driver.cpp' || echo './'`blast-parser-driver.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c -o librostlab_blast_la-blast-parser-parser.lo `test -f 'blast-parser-parser.cpp' || echo './'`blast-parser-parser.cpp \ \ /bin/bash ../ylwrap `test -f 'blast-parser-scanner.lpp' || echo './'`blast-parser-scanner.lpp lex.yy.c librostlab_blast_la-blast-parser-scanner.cpp -- flex -Cfe libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c blast-parser-driver.cpp -fPIC -DPIC -o .libs/librostlab_blast_la-blast-parser-driver.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c blast-parser-parser.cpp -fPIC -DPIC -o .libs/librostlab_blast_la-blast-parser-parser.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c blast-parser-driver.cpp -o librostlab_blast_la-blast-parser-driver.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c -o librostlab_blast_la-librostlab_blast_la-blast-parser-scanner.lo `test -f 'librostlab_blast_la-blast-parser-scanner.cpp' || echo './'`librostlab_blast_la-blast-parser-scanner.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c librostlab_blast_la-blast-parser-scanner.cpp -fPIC -DPIC -o .libs/librostlab_blast_la-librostlab_blast_la-blast-parser-scanner.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c blast-parser-parser.cpp -o librostlab_blast_la-blast-parser-parser.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -c librostlab_blast_la-blast-parser-scanner.cpp -o librostlab_blast_la-librostlab_blast_la-blast-parser-scanner.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=link g++ -Wall -g -O2 -fdebug-prefix-map=/build/librostlab-blast-1.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -version-info 0:0:0 -Wall -Wl,-z,relro -Wl,-z,now -o librostlab-blast.la -rpath /usr/lib/i386-linux-gnu librostlab_blast_la-blast-parser-driver.lo librostlab_blast_la-blast-parser-parser.lo librostlab_blast_la-librostlab_blast_la-blast-parser-scanner.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/10/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/10/crtbeginS.o .libs/librostlab_blast_la-blast-parser-driver.o .libs/librostlab_blast_la-blast-parser-parser.o .libs/librostlab_blast_la-librostlab_blast_la-blast-parser-scanner.o -L/usr/lib/gcc/i686-linux-gnu/10 -L/usr/lib/gcc/i686-linux-gnu/10/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/10/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/10/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/10/crtendS.o /usr/lib/gcc/i686-linux-gnu/10/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,librostlab-blast.so.0 -o .libs/librostlab-blast.so.0.0.0 libtool: link: (cd ".libs" && rm -f "librostlab-blast.so.0" && ln -s "librostlab-blast.so.0.0.0" "librostlab-blast.so.0") libtool: link: (cd ".libs" && rm -f "librostlab-blast.so" && ln -s "librostlab-blast.so.0.0.0" "librostlab-blast.so") libtool: link: ar cr .libs/librostlab-blast.a librostlab_blast_la-blast-parser-driver.o librostlab_blast_la-blast-parser-parser.o librostlab_blast_la-librostlab_blast_la-blast-parser-scanner.o libtool: link: ranlib .libs/librostlab-blast.a libtool: link: ( cd ".libs" && rm -f "librostlab-blast.la" && ln -s "../librostlab-blast.la" "librostlab-blast.la" ) make[5]: Leaving directory '/build/librostlab-blast-1.0.1/lib' make[4]: Leaving directory '/build/librostlab-blast-1.0.1/lib' make[4]: Entering directory '/build/librostlab-blast-1.0.1' make[4]: Leaving directory '/build/librostlab-blast-1.0.1' make[3]: Leaving directory '/build/librostlab-blast-1.0.1' make[2]: Leaving directory '/build/librostlab-blast-1.0.1' /usr/bin/make -C lib doxygen-doc make[2]: Entering directory '/build/librostlab-blast-1.0.1/lib' rm -rf ../doxygen-doc SRCDIR='.' PROJECT='librostlab-blast' DOCDIR='../doxygen-doc' VERSION='1.0.1' PERL_PATH='/usr/bin/perl' HAVE_DOT='YES' DOT_PATH='/usr/bin' GENERATE_MAN='NO' GENERATE_RTF='NO' GENERATE_XML='NO' GENERATE_HTMLHELP='NO' GENERATE_CHI='NO' GENERATE_HTML='YES' GENERATE_LATEX='NO' /usr/bin/doxygen ./Doxyfile warning: Tag 'SYMBOL_CACHE_SIZE' at line 290 of file './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 490 of file './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 761 of file './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 847 of file './Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'USE_INLINE_TREES' at line 1032 of file './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 1257 of file './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 1263 of file './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 1428 of file './Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag 'MSCGEN_PATH' at line 1450 of file './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! warning: doxygen no longer ships with the FreeSans font. You may want to clear or change DOT_FONTNAME. Otherwise you run the risk that the wrong font is being used for dot generated graphs. error: Tag file '/usr/share/doc/librostlab-doc/librostlab.tag' does not exist or is not a file. Skipping it... /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-location.h:34: warning: the name 'location.hh' supplied as the argument in the \file statement is not an input file /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-parser.h:35: warning: the name 'y.tab.h' supplied as the argument in the \file statement is not an input file Doxygen version used: 1.9.1 Notice: Output directory '../doxygen-doc' does not exist. I have created it for you. Searching for include files... Searching for example files... Searching for files in directory /build/librostlab-blast-1.0.1/examples Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for files to exclude Searching INPUT for files to process... Searching for files in directory /build/librostlab-blast-1.0.1/lib/rostlab Reading and parsing tag files Parsing files Preprocessing /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-driver.h... Parsing file /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-driver.h... Preprocessing /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-location.h... Parsing file /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-location.h... Preprocessing /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-parser.h... Parsing file /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-parser.h... Preprocessing /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-position.h... Parsing file /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-position.h... Preprocessing /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-stack.h... Parsing file /build/librostlab-blast-1.0.1/lib/rostlab/blast-parser-stack.h... Preprocessing /build/librostlab-blast-1.0.1/lib/rostlab/blast-result.h... Parsing file /build/librostlab-blast-1.0.1/lib/rostlab/blast-result.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Computing nesting relations for classes... Associating documentation with classes... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Computing tooltip texts... Generating style sheet... Generating search indices... Generating example documentation... Generating file sources... Generating code for file rostlab/blast-parser-driver.h... Generating code for file rostlab/blast-parser-location.h... Generating code for file rostlab/blast-parser-parser.h... Generating code for file rostlab/blast-parser-position.h... Generating code for file rostlab/blast-parser-stack.h... Generating code for file rostlab/blast-result.h... Generating file documentation... Generating docs for file rostlab/blast-parser-driver.h... Generating docs for file rostlab/blast-parser-location.h... Generating docs for file rostlab/blast-parser-parser.h... Generating docs for file rostlab/blast-parser-position.h... Generating docs for file rostlab/blast-parser-stack.h... Generating docs for file rostlab/blast-result.h... Generating page documentation... Generating group documentation... Generating class documentation... Generating namespace index... Generating docs for namespace rostlab Generating docs for namespace rostlab::blast Generating docs for compound rostlab::blast::parser_error... Generating docs for compound rostlab::blast::parser_driver... Generating docs for compound rostlab::blast::position... Generating docs for compound rostlab::blast::location... Generating docs for compound rostlab::blast::parser... Generating docs for nested compound rostlab::blast::parser::basic_symbol... Generating docs for nested compound rostlab::blast::parser::by_kind... Generating docs for nested compound rostlab::blast::parser::context... Generating docs for nested compound rostlab::blast::parser::semantic_type... Generating docs for nested compound rostlab::blast::parser::stack::slice... Generating docs for nested compound rostlab::blast::parser::symbol_kind... Generating docs for nested compound rostlab::blast::parser::symbol_type... Generating docs for nested compound rostlab::blast::parser::syntax_error... Generating docs for nested compound rostlab::blast::parser::token... Generating docs for compound rostlab::blast::round... Generating docs for compound rostlab::blast::hsp... Generating docs for compound rostlab::blast::hit... Generating docs for compound rostlab::blast::oneline... Generating docs for compound rostlab::blast::result... Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating module index... Generating namespace index... Generating namespace member index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating graphical class hierarchy... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Running plantuml with JAVA... Running dot... Generating dot graphs using 11 parallel threads... Running dot for graph 1/56 Running dot for graph 2/56 Running dot for graph 3/56 Running dot for graph 4/56 Running dot for graph 5/56 Running dot for graph 6/56 Running dot for graph 7/56 Running dot for graph 8/56 Running dot for graph 9/56 Running dot for graph 10/56 Running dot for graph 11/56 Running dot for graph 12/56 Running dot for graph 13/56 Running dot for graph 14/56 Running dot for graph 15/56 Running dot for graph 16/56 Running dot for graph 17/56 Running dot for graph 18/56 Running dot for graph 19/56 Running dot for graph 20/56 Running dot for graph 21/56 Running dot for graph 22/56 Running dot for graph 23/56 Running dot for graph 24/56 Running dot for graph 25/56 Running dot for graph 26/56 Running dot for graph 27/56 Running dot for graph 28/56 Running dot for graph 29/56 Running dot for graph 30/56 Running dot for graph 31/56 Running dot for graph 32/56 Running dot for graph 33/56 Running dot for graph 34/56 Running dot for graph 35/56 Running dot for graph 36/56 Running dot for graph 37/56 Running dot for graph 38/56 Running dot for graph 39/56 Running dot for graph 40/56 Running dot for graph 41/56 Running dot for graph 42/56 Running dot for graph 43/56 Running dot for graph 44/56 Running dot for graph 45/56 Running dot for graph 46/56 Running dot for graph 47/56 Running dot for graph 48/56 Running dot for graph 49/56 Running dot for graph 50/56 Running dot for graph 51/56 Running dot for graph 52/56 Running dot for graph 53/56 Running dot for graph 54/56 Running dot for graph 55/56 Running dot for graph 56/56 Patching output file 1/23 Patching output file 2/23 Patching output file 3/23 Patching output file 4/23 Patching output file 5/23 Patching output file 6/23 Patching output file 7/23 Patching output file 8/23 Patching output file 9/23 Patching output file 10/23 Patching output file 11/23 Patching output file 12/23 Patching output file 13/23 Patching output file 14/23 Patching output file 15/23 Patching output file 16/23 Patching output file 17/23 Patching output file 18/23 Patching output file 19/23 Patching output file 20/23 Patching output file 21/23 Patching output file 22/23 Patching output file 23/23 lookup cache used 637/65536 hits=3059 misses=700 finished... make[2]: Leaving directory '/build/librostlab-blast-1.0.1/lib' make[1]: Leaving directory '/build/librostlab-blast-1.0.1' dh_auto_test make -j10 check VERBOSE=1 make[1]: Entering directory '/build/librostlab-blast-1.0.1' Making check in lib make[2]: Entering directory '/build/librostlab-blast-1.0.1/lib' make check-am make[3]: Entering directory '/build/librostlab-blast-1.0.1/lib' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/build/librostlab-blast-1.0.1/lib' make[2]: Leaving directory '/build/librostlab-blast-1.0.1/lib' make[2]: Entering directory '/build/librostlab-blast-1.0.1' make[2]: Leaving directory '/build/librostlab-blast-1.0.1' make[1]: Leaving directory '/build/librostlab-blast-1.0.1' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install make -j1 install DESTDIR=/build/librostlab-blast-1.0.1/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/librostlab-blast-1.0.1' Making install in lib make[2]: Entering directory '/build/librostlab-blast-1.0.1/lib' make install-am make[3]: Entering directory '/build/librostlab-blast-1.0.1/lib' make[4]: Entering directory '/build/librostlab-blast-1.0.1/lib' /bin/mkdir -p '/build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu' /bin/bash ../libtool --mode=install /usr/bin/install -c librostlab-blast.la '/build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/librostlab-blast.so.0.0.0 /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.so.0.0.0 libtool: install: (cd /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu && { ln -s -f librostlab-blast.so.0.0.0 librostlab-blast.so.0 || { rm -f librostlab-blast.so.0 && ln -s librostlab-blast.so.0.0.0 librostlab-blast.so.0; }; }) libtool: install: (cd /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu && { ln -s -f librostlab-blast.so.0.0.0 librostlab-blast.so || { rm -f librostlab-blast.so && ln -s librostlab-blast.so.0.0.0 librostlab-blast.so; }; }) libtool: install: /usr/bin/install -c .libs/librostlab-blast.lai /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.la libtool: install: /usr/bin/install -c .libs/librostlab-blast.a /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.a libtool: install: chmod 644 /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.a libtool: install: ranlib /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.a libtool: warning: remember to run 'libtool --finish /usr/lib/i386-linux-gnu' /bin/mkdir -p '/build/librostlab-blast-1.0.1/debian/tmp/usr/include/rostlab' /usr/bin/install -c -m 644 rostlab/blast-parser-driver.h rostlab/blast-result.h '/build/librostlab-blast-1.0.1/debian/tmp/usr/include/rostlab' /bin/mkdir -p '/build/librostlab-blast-1.0.1/debian/tmp/usr/include/rostlab' /usr/bin/install -c -m 644 rostlab/blast-parser-location.h rostlab/blast-parser-parser.h rostlab/blast-parser-position.h rostlab/blast-parser-stack.h '/build/librostlab-blast-1.0.1/debian/tmp/usr/include/rostlab' make[4]: Leaving directory '/build/librostlab-blast-1.0.1/lib' make[3]: Leaving directory '/build/librostlab-blast-1.0.1/lib' make[2]: Leaving directory '/build/librostlab-blast-1.0.1/lib' make[2]: Entering directory '/build/librostlab-blast-1.0.1' make[3]: Entering directory '/build/librostlab-blast-1.0.1' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/build/librostlab-blast-1.0.1/debian/tmp/usr/share/doc/librostlab-blast/examples' /usr/bin/install -c -m 644 examples/converged.ali examples/parseblast.cpp '/build/librostlab-blast-1.0.1/debian/tmp/usr/share/doc/librostlab-blast/examples' make[3]: Leaving directory '/build/librostlab-blast-1.0.1' make[2]: Leaving directory '/build/librostlab-blast-1.0.1' make[1]: Leaving directory '/build/librostlab-blast-1.0.1' debian/rules override_dh_install make[1]: Entering directory '/build/librostlab-blast-1.0.1' d-shlibmove --commit \ --multiarch \ --exclude-la \ --v5 \ --movedev debian/tmp/usr/include/* usr/include \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility set -e install -d -m 755 debian/librostlab-blast0-dev/usr/lib/i386-linux-gnu install -d -m 755 debian/librostlab-blast0v5/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.a debian/librostlab-blast0-dev/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.so debian/librostlab-blast0-dev/usr/lib/i386-linux-gnu mv /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.so.0 debian/librostlab-blast0v5/usr/lib/i386-linux-gnu mv /build/librostlab-blast-1.0.1/debian/tmp/usr/lib/i386-linux-gnu/librostlab-blast.so.0.0.0 debian/librostlab-blast0v5/usr/lib/i386-linux-gnu PKGDEV=librostlab-blast0-dev PKGSHL=librostlab-blast0v5 install -d -m 755 debian/librostlab-blast0-dev/usr/include mv debian/tmp/usr/include/rostlab debian/librostlab-blast0-dev/usr/include make[1]: Leaving directory '/build/librostlab-blast-1.0.1' debian/rules override_dh_installdocs make[1]: Entering directory '/build/librostlab-blast-1.0.1' dh_installdocs dh_installdocs: warning: Cannot auto-detect main package for librostlab-blast-doc. If the default is wrong, please use --doc-main-package find debian -name "*.md5" -delete make[1]: Leaving directory '/build/librostlab-blast-1.0.1' dh_installchangelogs dh_installexamples dh_lintian dh_perl debian/rules override_dh_link make[1]: Entering directory '/build/librostlab-blast-1.0.1' find debian -name jquery.js -delete dh_link make[1]: Leaving directory '/build/librostlab-blast-1.0.1' dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/librostlab-blast-1.0.1' dh_compress -Xlibrostlab-blast.tag make[1]: Leaving directory '/build/librostlab-blast-1.0.1' dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package librostlab-blast-doc: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'librostlab-blast0v5' in '../librostlab-blast0v5_1.0.1-10_i386.deb'. dpkg-deb: building package 'librostlab-blast-doc' in '../librostlab-blast-doc_1.0.1-10_all.deb'. dpkg-deb: building package 'librostlab-blast0-dev' in '../librostlab-blast0-dev_1.0.1-10_i386.deb'. dpkg-deb: building package 'librostlab-blast0v5-dbgsym' in '../librostlab-blast0v5-dbgsym_1.0.1-10_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../librostlab-blast_1.0.1-10_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/29935 and its subdirectories I: Current time: Sat May 22 19:29:41 -12 2021 I: pbuilder-time-stamp: 1621754981 Sun May 23 07:29:42 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos16-i386.debian.net. Sun May 23 07:29:42 UTC 2021 I: Preparing to do remote build '2' on ionos16-i386.debian.net. Sun May 23 07:31:13 UTC 2021 I: Deleting $TMPDIR on ionos16-i386.debian.net. Sun May 23 07:31:14 UTC 2021 I: librostlab-blast_1.0.1-10_i386.changes: Format: 1.8 Date: Mon, 18 Mar 2019 10:48:04 +0100 Source: librostlab-blast Binary: librostlab-blast-doc librostlab-blast0-dev librostlab-blast0v5 librostlab-blast0v5-dbgsym Architecture: all i386 Version: 1.0.1-10 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: librostlab-blast-doc - very fast C++ library for parsing the output of NCBI BLAST progra librostlab-blast0-dev - very fast C++ library for parsing the output of NCBI BLAST progra librostlab-blast0v5 - very fast C++ library for parsing the output of NCBI BLAST progra Closes: 924834 Changes: librostlab-blast (1.0.1-10) unstable; urgency=medium . * Do not render PDF documentation any more since its not really important for users and doxygen 1.8.5 breaks the build of PDF documentation Closes: #924834 * Standards-Version: 4.3.0 Checksums-Sha1: 7f8eef5ba4548919f7e7c540fd0dc85e175f017a 344920 librostlab-blast-doc_1.0.1-10_all.deb 83790de54069c6e9f10522759f3ff6c1a8d05c92 93336 librostlab-blast0-dev_1.0.1-10_i386.deb 5102835119f87835dd304b3d09ede088df9e4eb1 397072 librostlab-blast0v5-dbgsym_1.0.1-10_i386.deb d35076872a9fc490243340a563d1208935476d74 77880 librostlab-blast0v5_1.0.1-10_i386.deb 7c633c8d7627a23c414c83edb44a1f7cebee6243 9074 librostlab-blast_1.0.1-10_i386.buildinfo Checksums-Sha256: 7f3d12ebc034b2fd58ac896d0e16a50fc2a414b5ec41d6139a09d3e8d7389822 344920 librostlab-blast-doc_1.0.1-10_all.deb abf0414919f48552033b0a0fdcbcced7274cd486ace0708fccb2623ba9d615ec 93336 librostlab-blast0-dev_1.0.1-10_i386.deb fb3c3f0c39fd9f175fa568156a52a6ece247e83e710b47ed863b7f1439c535eb 397072 librostlab-blast0v5-dbgsym_1.0.1-10_i386.deb c11415fad3df8df8a35fde6ec9ed232b7b9bee8945700b5218de3a36c5fc4752 77880 librostlab-blast0v5_1.0.1-10_i386.deb d84af7846d925a944f2960a3ceec469fa0d1dc8355bc575bdaf8962d3bfd9544 9074 librostlab-blast_1.0.1-10_i386.buildinfo Files: b0ddb12f2790ff5195b49f8c257605a6 344920 doc optional librostlab-blast-doc_1.0.1-10_all.deb 920f19d26ba0b8d5da22d2f74e84a290 93336 libdevel optional librostlab-blast0-dev_1.0.1-10_i386.deb 139f2d027547f006a02aa26a878f9e4c 397072 debug optional librostlab-blast0v5-dbgsym_1.0.1-10_i386.deb 626dc92c3485c5f76025dce6ab6d7fe8 77880 libs optional librostlab-blast0v5_1.0.1-10_i386.deb 2625400274ecded2dcd870805569437d 9074 science optional librostlab-blast_1.0.1-10_i386.buildinfo Sun May 23 07:31:15 UTC 2021 I: diffoscope 172 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.KtUXmU6csE/librostlab-blast_1.0.1-10.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.KtUXmU6csE/librostlab-blast_1.0.1-10.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.KtUXmU6csE/librostlab-blast_1.0.1-10.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.KtUXmU6csE/b1/librostlab-blast_1.0.1-10_i386.changes /srv/reproducible-results/rbuild-debian/tmp.KtUXmU6csE/b2/librostlab-blast_1.0.1-10_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.365s) 0.365s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.036s) 0.036s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sun May 23 07:31:20 UTC 2021 I: diffoscope 172 found no differences in the changes files, and a .buildinfo file also exists. Sun May 23 07:31:20 UTC 2021 I: librostlab-blast from bullseye built successfully and reproducibly on i386. Sun May 23 07:31:22 UTC 2021 I: Submitting .buildinfo files to external archives: Sun May 23 07:31:22 UTC 2021 I: Submitting 12K b1/librostlab-blast_1.0.1-10_i386.buildinfo.asc Sun May 23 07:31:23 UTC 2021 I: Submitting 12K b2/librostlab-blast_1.0.1-10_i386.buildinfo.asc Sun May 23 07:31:24 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun May 23 07:31:24 UTC 2021 I: Done submitting .buildinfo files. Sun May 23 07:31:24 UTC 2021 I: Removing signed librostlab-blast_1.0.1-10_i386.buildinfo.asc files: removed './b1/librostlab-blast_1.0.1-10_i386.buildinfo.asc' removed './b2/librostlab-blast_1.0.1-10_i386.buildinfo.asc'