Wed Apr 26 02:22:24 UTC 2023 I: starting to build voronota/bookworm/amd64 on jenkins on '2023-04-26 02:22' Wed Apr 26 02:22:24 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_24/24309/console.log Wed Apr 26 02:22:24 UTC 2023 I: Downloading source for bookworm/voronota=1.22.3149-2 --2023-04-26 02:22:24-- http://cdn-fastly.deb.debian.org/debian/pool/main/v/voronota/voronota_1.22.3149-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2048 (2.0K) [text/prs.lines.tag] Saving to: ‘voronota_1.22.3149-2.dsc’ 0K .. 100% 138M=0s 2023-04-26 02:22:24 (138 MB/s) - ‘voronota_1.22.3149-2.dsc’ saved [2048/2048] Wed Apr 26 02:22:24 UTC 2023 I: voronota_1.22.3149-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: voronota Binary: voronota Architecture: any Version: 1.22.3149-2 Maintainer: Debian Science Maintainers Uploaders: Andrius Merkys , Homepage: https://bitbucket.org/kliment/voronota Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/science-team/voronota Vcs-Git: https://salsa.debian.org/science-team/voronota.git Testsuite: autopkgtest Testsuite-Triggers: perl Build-Depends: debhelper-compat (= 13), help2man Package-List: voronota deb science optional arch=any Checksums-Sha1: 9ba294a5f33686988757ef2ed6af0f5a5fd3f261 1232680 voronota_1.22.3149.orig.tar.xz e39783fef1054e6e07720d721327e9073b4d664c 4776 voronota_1.22.3149-2.debian.tar.xz Checksums-Sha256: 316e2abfc8741df0ba9b53ff2a27d278d64b74ecafc48d8535b279b0756142e1 1232680 voronota_1.22.3149.orig.tar.xz f105ae591e8558a1666c7321f0164216f57298c29a5c41b2595a23befe81c305 4776 voronota_1.22.3149-2.debian.tar.xz Files: bada4452b903c485b62ce7e43d6852e4 1232680 voronota_1.22.3149.orig.tar.xz 0fa649f016cdaf72e11febbd5e1b3f4c 4776 voronota_1.22.3149-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEdyKS9veshfrgQdQe5fQ/nCc08ocFAmNJZsQSHG1lcmt5c0Bk ZWJpYW4ub3JnAAoJEOX0P5wnNPKHV3UP/iYU6xw4dIi0db0nya/md/sqNtvOQ4vF y3NIJX8IgjUhkodunBwvj3dh7v7+LNhg0DlJNp72DNeyw0on0ujwN2Rc3DrxSAJ9 7mQ6XKhUvtfK7qpNVkuBDvefOM6EAPdQQ5wQxEhndtWMv8AS3NR+lk3QHnoskaZX neCJ7cX2lxUzdFRdW1l7UFq8NSfueZ/1+Pyc0ZNff54YvoUQsfbDHsQNFBjYaQIw ycDt5+iCwveWMKJcPewEJZsU6jifCGqsDAmneHIQcEdlus4fWrJ60LRiV7nrsSfh ykjwOjbbfMHO2b8iCi+GKBD6QpsifxNQqPFUA7QE0CclS2A+mNCplBveV6MeMdQA mFpxdTy5SJuIOR9H9Q1s6DgMbeflGsPGfxiZ+uj+Ik/eVakrkSi0ZeXaTNxpIYUn Hu6mDcgqIast2Fi6WQ3xaSgbHQvMlUP3jjHDa1AE5ErT67hGV971+avzGMPeJ2tP ZRCTiQgKFlR/fW/bf6qn9qz17k4j3+G0VQZLkC+GWgl8vQQRJVikBunbK7zCHQWq ahck3andrlbn8TXgIezG6YGn+FLCWlgLFlND4/L7NDj56cUZKEyM2ibyEjoTXDpl ONc+dTK2dOp5fiM4On4s/0wTXFRk6w9vlUG73Ge+8TURUoyqCSdBfICaEPPIkwjk 7WfV+C2sNKXE =5CES -----END PGP SIGNATURE----- Wed Apr 26 02:22:24 UTC 2023 I: Checking whether the package is not for us Wed Apr 26 02:22:24 UTC 2023 I: Starting 1st build on remote node ionos15-amd64.debian.net. Wed Apr 26 02:22:24 UTC 2023 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Wed Apr 26 02:34:57 UTC 2023 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon May 27 20:45:28 -12 2024 I: pbuilder-time-stamp: 1716885928 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-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 [voronota_1.22.3149-2.dsc] I: copying [./voronota_1.22.3149.orig.tar.xz] I: copying [./voronota_1.22.3149-2.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Oct 14 01:40:20 2022 -12 gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287 gpgv: issuer "merkys@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./voronota_1.22.3149-2.dsc: no acceptable signature found dpkg-source: info: extracting voronota in voronota-1.22.3149 dpkg-source: info: unpacking voronota_1.22.3149.orig.tar.xz dpkg-source: info: unpacking voronota_1.22.3149-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2337094/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='d5ea35c5c18447d2be2e8850af010f1d' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='2337094' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.HPJYhxdJ/pbuilderrc_VY52 --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.HPJYhxdJ/b1 --logfile b1/build.log voronota_1.22.3149-2.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos15-amd64 6.1.0-0.deb11.5-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.12-1~bpo11+1 (2023-03-05) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 23 2023 bash -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 44016 Sep 20 2022 cat -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp -rwxr-xr-x 1 root root 125640 Jan 5 2023 dash -rwxr-xr-x 1 root root 121904 Sep 20 2022 date -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd -rwxr-xr-x 1 root root 102200 Sep 20 2022 df -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir -rwxr-xr-x 1 root root 88656 Mar 22 2023 dmesg lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 35664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 85600 Mar 22 2023 findmnt -rwsr-xr-x 1 root root 35128 Mar 22 2023 fusermount -rwxr-xr-x 1 root root 203152 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 19 2022 hostname -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln -rwxr-xr-x 1 root root 53024 Mar 23 2023 login -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls -rwxr-xr-x 1 root root 207168 Mar 22 2023 lsblk -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 22 2023 more -rwsr-xr-x 1 root root 59704 Mar 22 2023 mount -rwxr-xr-x 1 root root 18744 Mar 22 2023 mountpoint -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 2023 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 27560 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 22 2023 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 2023 tar -rwxr-xr-x 1 root root 14520 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 22 2023 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 22 2023 umount -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir -rwxr-xr-x 1 root root 72024 Mar 22 2023 wdctl lrwxrwxrwx 1 root root 8 Dec 19 2022 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/2337094/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), help2man dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19596 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 help2man; however: Package help2man 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} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 18.9 MB of archives. After unpacking 73.0 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 liblocale-gettext-perl amd64 1.07-5 [15.4 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 11 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 13 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 14 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 22 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 23 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 24 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 25 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 26 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 27 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.2 [687 kB] Get: 28 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 help2man amd64 1.49.3 [198 kB] Fetched 18.9 MB in 1s (25.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19596 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-5_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../03-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.44-3_amd64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-12_amd64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../06-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.22.4-10_amd64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.38.1-5+b1_amd64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../09-libpipeline1_1.5.7-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.11.2-2_amd64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-3_amd64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../20-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../21-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../22-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../23-libelf1_0.188-2.1_amd64.deb ... Unpacking libelf1:amd64 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.15-1_amd64.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../25-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../26-libxml2_2.9.14+dfsg-1.2_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.2) ... Selecting previously unselected package gettext. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/voronota-1.22.3149/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../voronota_1.22.3149-2_source.changes dpkg-buildpackage: info: source package voronota dpkg-buildpackage: info: source version 1.22.3149-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf configure.ac:2: installing './install-sh' configure.ac:2: installing './missing' Makefile.am:2: warning: source file 'src/voronota.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled automake: warning: possible forward-incompatibility. automake: At least one source file is in a subdirectory, but the 'subdir-objects' automake: automake option hasn't been enabled. For now, the corresponding output automake: object file(s) will be placed in the top-level directory. However, this automake: behavior may change in a future Automake major version, with object automake: files being placed in the same subdirectory as the corresponding sources. automake: You are advised to start using 'subdir-objects' option throughout your automake: project, to avoid future incompatibilities. Makefile.am:2: warning: source file 'src/modes/mode_calculate_contacts.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_compare_contacts.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_calculate_mock_solvent.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_demo_polygon_triangulation.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_score_contacts_quality.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_contacts_interface_exposure_values.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_split_atoms_file.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_calculate_vertices_in_parallel.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_demo_hypercut.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_score_contacts_global_energy_by_cuts.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_balls.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_calculate_vertices.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_contacts_solvation_values.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_draw_values_bitmap.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_balls_distances.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_contacts_simulating_unfolding.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_demo_ses.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_balls_clashes.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_simulate_potential_for_membrane_proteins.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_vectorize_contact_environments.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_calculate_path_centralities.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_write_balls_to_atoms_file.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_draw_contacts.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_plot_contacts.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_expand_descriptors.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_contacts_depth_values.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_score_scores.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_score_contacts_potentials_stats.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_score_contacts_energy.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_balls_sequences_pairings_stats.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_vectorize_contacts.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_draw_balls.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_vectorize_points.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_rotational_optimization_demo.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_run_script.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_place_membrane.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_score_contacts_energy_stats.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_query_contacts.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_demo_blank.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_compare_files_as_sets.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_score_contacts_potential.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_reprint_hbp.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_write_qa_scores_in_casp_format.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am:2: warning: source file 'src/modes/mode_get_balls_from_atoms_file.cpp' is in a subdirectory, Makefile.am:2: but option 'subdir-objects' is disabled Makefile.am: installing './depcomp' dh_auto_configure ./configure --build=x86_64-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/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free 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 g++... g++ 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 the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: executing depfiles commands dh_auto_build make -j16 make[1]: Entering directory '/build/voronota-1.22.3149' g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o voronota.o `test -f 'src/voronota.cpp' || echo './'`src/voronota.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_calculate_contacts.o `test -f 'src/modes/mode_calculate_contacts.cpp' || echo './'`src/modes/mode_calculate_contacts.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_compare_contacts.o `test -f 'src/modes/mode_compare_contacts.cpp' || echo './'`src/modes/mode_compare_contacts.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_calculate_mock_solvent.o `test -f 'src/modes/mode_calculate_mock_solvent.cpp' || echo './'`src/modes/mode_calculate_mock_solvent.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_demo_polygon_triangulation.o `test -f 'src/modes/mode_demo_polygon_triangulation.cpp' || echo './'`src/modes/mode_demo_polygon_triangulation.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_score_contacts_quality.o `test -f 'src/modes/mode_score_contacts_quality.cpp' || echo './'`src/modes/mode_score_contacts_quality.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_contacts_interface_exposure_values.o `test -f 'src/modes/mode_query_contacts_interface_exposure_values.cpp' || echo './'`src/modes/mode_query_contacts_interface_exposure_values.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_split_atoms_file.o `test -f 'src/modes/mode_split_atoms_file.cpp' || echo './'`src/modes/mode_split_atoms_file.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_calculate_vertices_in_parallel.o `test -f 'src/modes/mode_calculate_vertices_in_parallel.cpp' || echo './'`src/modes/mode_calculate_vertices_in_parallel.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_demo_hypercut.o `test -f 'src/modes/mode_demo_hypercut.cpp' || echo './'`src/modes/mode_demo_hypercut.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_score_contacts_global_energy_by_cuts.o `test -f 'src/modes/mode_score_contacts_global_energy_by_cuts.cpp' || echo './'`src/modes/mode_score_contacts_global_energy_by_cuts.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_balls.o `test -f 'src/modes/mode_query_balls.cpp' || echo './'`src/modes/mode_query_balls.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_calculate_vertices.o `test -f 'src/modes/mode_calculate_vertices.cpp' || echo './'`src/modes/mode_calculate_vertices.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_contacts_solvation_values.o `test -f 'src/modes/mode_query_contacts_solvation_values.cpp' || echo './'`src/modes/mode_query_contacts_solvation_values.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_draw_values_bitmap.o `test -f 'src/modes/mode_draw_values_bitmap.cpp' || echo './'`src/modes/mode_draw_values_bitmap.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_balls_distances.o `test -f 'src/modes/mode_query_balls_distances.cpp' || echo './'`src/modes/mode_query_balls_distances.cpp src/voronota.cpp:58:22: warning: 'template class std::pointer_to_unary_function' is deprecated [-Wdeprecated-declarations] 58 | typedef std::pointer_to_unary_function FunctionPtr; | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/string:48, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from src/voronota.cpp:1: /usr/include/c++/12/bits/stl_function.h:1105:11: note: declared here 1105 | class pointer_to_unary_function : public unary_function<_Arg, _Result> | ^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_contacts_simulating_unfolding.o `test -f 'src/modes/mode_query_contacts_simulating_unfolding.cpp' || echo './'`src/modes/mode_query_contacts_simulating_unfolding.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_demo_ses.o `test -f 'src/modes/mode_demo_ses.cpp' || echo './'`src/modes/mode_demo_ses.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_balls_clashes.o `test -f 'src/modes/mode_query_balls_clashes.cpp' || echo './'`src/modes/mode_query_balls_clashes.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_simulate_potential_for_membrane_proteins.o `test -f 'src/modes/mode_simulate_potential_for_membrane_proteins.cpp' || echo './'`src/modes/mode_simulate_potential_for_membrane_proteins.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_vectorize_contact_environments.o `test -f 'src/modes/mode_vectorize_contact_environments.cpp' || echo './'`src/modes/mode_vectorize_contact_environments.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_calculate_path_centralities.o `test -f 'src/modes/mode_calculate_path_centralities.cpp' || echo './'`src/modes/mode_calculate_path_centralities.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_write_balls_to_atoms_file.o `test -f 'src/modes/mode_write_balls_to_atoms_file.cpp' || echo './'`src/modes/mode_write_balls_to_atoms_file.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_draw_contacts.o `test -f 'src/modes/mode_draw_contacts.cpp' || echo './'`src/modes/mode_draw_contacts.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_plot_contacts.o `test -f 'src/modes/mode_plot_contacts.cpp' || echo './'`src/modes/mode_plot_contacts.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_expand_descriptors.o `test -f 'src/modes/mode_expand_descriptors.cpp' || echo './'`src/modes/mode_expand_descriptors.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_contacts_depth_values.o `test -f 'src/modes/mode_query_contacts_depth_values.cpp' || echo './'`src/modes/mode_query_contacts_depth_values.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_score_scores.o `test -f 'src/modes/mode_score_scores.cpp' || echo './'`src/modes/mode_score_scores.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_score_contacts_potentials_stats.o `test -f 'src/modes/mode_score_contacts_potentials_stats.cpp' || echo './'`src/modes/mode_score_contacts_potentials_stats.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_score_contacts_energy.o `test -f 'src/modes/mode_score_contacts_energy.cpp' || echo './'`src/modes/mode_score_contacts_energy.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_balls_sequences_pairings_stats.o `test -f 'src/modes/mode_query_balls_sequences_pairings_stats.cpp' || echo './'`src/modes/mode_query_balls_sequences_pairings_stats.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_vectorize_contacts.o `test -f 'src/modes/mode_vectorize_contacts.cpp' || echo './'`src/modes/mode_vectorize_contacts.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_draw_balls.o `test -f 'src/modes/mode_draw_balls.cpp' || echo './'`src/modes/mode_draw_balls.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_vectorize_points.o `test -f 'src/modes/mode_vectorize_points.cpp' || echo './'`src/modes/mode_vectorize_points.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_rotational_optimization_demo.o `test -f 'src/modes/mode_rotational_optimization_demo.cpp' || echo './'`src/modes/mode_rotational_optimization_demo.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_run_script.o `test -f 'src/modes/mode_run_script.cpp' || echo './'`src/modes/mode_run_script.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_place_membrane.o `test -f 'src/modes/mode_place_membrane.cpp' || echo './'`src/modes/mode_place_membrane.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_score_contacts_energy_stats.o `test -f 'src/modes/mode_score_contacts_energy_stats.cpp' || echo './'`src/modes/mode_score_contacts_energy_stats.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_query_contacts.o `test -f 'src/modes/mode_query_contacts.cpp' || echo './'`src/modes/mode_query_contacts.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_demo_blank.o `test -f 'src/modes/mode_demo_blank.cpp' || echo './'`src/modes/mode_demo_blank.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_compare_files_as_sets.o `test -f 'src/modes/mode_compare_files_as_sets.cpp' || echo './'`src/modes/mode_compare_files_as_sets.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_score_contacts_potential.o `test -f 'src/modes/mode_score_contacts_potential.cpp' || echo './'`src/modes/mode_score_contacts_potential.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_reprint_hbp.o `test -f 'src/modes/mode_reprint_hbp.cpp' || echo './'`src/modes/mode_reprint_hbp.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_write_qa_scores_in_casp_format.o `test -f 'src/modes/mode_write_qa_scores_in_casp_format.cpp' || echo './'`src/modes/mode_write_qa_scores_in_casp_format.cpp g++ -DPACKAGE_NAME=\"voronota\" -DPACKAGE_TARNAME=\"voronota\" -DPACKAGE_VERSION=\"1.22.3149\" -DPACKAGE_STRING=\"voronota\ 1.22.3149\" -DPACKAGE_BUGREPORT=\"kliment@ibt.lt\" -DPACKAGE_URL=\"\" -DPACKAGE=\"voronota\" -DVERSION=\"1.22.3149\" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mode_get_balls_from_atoms_file.o `test -f 'src/modes/mode_get_balls_from_atoms_file.cpp' || echo './'`src/modes/mode_get_balls_from_atoms_file.cpp g++ -g -O2 -ffile-prefix-map=/build/voronota-1.22.3149=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -o voronota voronota.o mode_calculate_contacts.o mode_compare_contacts.o mode_calculate_mock_solvent.o mode_demo_polygon_triangulation.o mode_score_contacts_quality.o mode_query_contacts_interface_exposure_values.o mode_split_atoms_file.o mode_calculate_vertices_in_parallel.o mode_demo_hypercut.o mode_score_contacts_global_energy_by_cuts.o mode_query_balls.o mode_calculate_vertices.o mode_query_contacts_solvation_values.o mode_draw_values_bitmap.o mode_query_balls_distances.o mode_query_contacts_simulating_unfolding.o mode_demo_ses.o mode_query_balls_clashes.o mode_simulate_potential_for_membrane_proteins.o mode_vectorize_contact_environments.o mode_calculate_path_centralities.o mode_write_balls_to_atoms_file.o mode_draw_contacts.o mode_plot_contacts.o mode_expand_descriptors.o mode_query_contacts_depth_values.o mode_score_scores.o mode_score_contacts_potentials_stats.o mode_score_contacts_energy.o mode_query_balls_sequences_pairings_stats.o mode_vectorize_contacts.o mode_draw_balls.o mode_vectorize_points.o mode_rotational_optimization_demo.o mode_run_script.o mode_place_membrane.o mode_score_contacts_energy_stats.o mode_query_contacts.o mode_demo_blank.o mode_compare_files_as_sets.o mode_score_contacts_potential.o mode_reprint_hbp.o mode_write_qa_scores_in_casp_format.o mode_get_balls_from_atoms_file.o make[1]: Leaving directory '/build/voronota-1.22.3149' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/voronota/ make -j16 install DESTDIR=/build/voronota-1.22.3149/debian/voronota AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/voronota-1.22.3149' make[2]: Entering directory '/build/voronota-1.22.3149' /bin/mkdir -p '/build/voronota-1.22.3149/debian/voronota/usr/bin' /usr/bin/install -c voronota '/build/voronota-1.22.3149/debian/voronota/usr/bin' /bin/mkdir -p '/build/voronota-1.22.3149/debian/voronota/usr/bin' /bin/mkdir -p '/build/voronota-1.22.3149/debian/voronota/usr/share/man/man1' /usr/bin/install -c -m 644 'voronota.man' '/build/voronota-1.22.3149/debian/voronota/usr/share/man/man1/voronota.1' /usr/bin/install -c voronota-resources voronota-voromqa voronota-contacts voronota-cadscore voronota-volumes voronota-pocket voronota-membrane '/build/voronota-1.22.3149/debian/voronota/usr/bin' make[2]: Leaving directory '/build/voronota-1.22.3149' make[1]: Leaving directory '/build/voronota-1.22.3149' dh_installdocs dh_installchangelogs debian/rules override_dh_installman make[1]: Entering directory '/build/voronota-1.22.3149' for BIN in ./voronota-*; \ do \ grep -qle --help ${BIN} && help2man ${BIN} --version-string 1.22.3149 --no-discard-stderr --no-info > ${BIN}.1; \ done dh_installman make[1]: Leaving directory '/build/voronota-1.22.3149' dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'voronota-dbgsym' in '../voronota-dbgsym_1.22.3149-2_amd64.deb'. dpkg-deb: building package 'voronota' in '../voronota_1.22.3149-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../voronota_1.22.3149-2_amd64.buildinfo dpkg-genchanges --build=binary -O../voronota_1.22.3149-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/2337094 and its subdirectories I: Current time: Mon May 27 20:57:58 -12 2024 I: pbuilder-time-stamp: 1716886678 Wed Apr 26 02:34:58 UTC 2023 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Wed Apr 26 02:34:58 UTC 2023 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Wed Apr 26 02:39:30 UTC 2023 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Wed Apr 26 02:39:31 UTC 2023 I: voronota_1.22.3149-2_amd64.changes: Format: 1.8 Date: Fri, 14 Oct 2022 09:38:52 -0400 Source: voronota Binary: voronota voronota-dbgsym Architecture: amd64 Version: 1.22.3149-2 Distribution: unstable Urgency: medium Maintainer: Debian Science Maintainers Changed-By: Andrius Merkys Description: voronota - Voronoi diagram-based tool to find atom contacts Changes: voronota (1.22.3149-2) unstable; urgency=medium . * Add dependency on bsdextrautils as 'column' is used. * Refresh copyright years. * Set upstream metadata fields: Repository. * Remove obsolete field Name from debian/upstream/metadata (already present in machine-readable debian/copyright). * Override false-positive lintian error. Checksums-Sha1: 9e8eaeb4e91003dee84043fddc3a07600f06fcf7 28865968 voronota-dbgsym_1.22.3149-2_amd64.deb 081c724eef14d57ba0b8a6ca1ff14daf420789a2 5223 voronota_1.22.3149-2_amd64.buildinfo 582b40949c306f924f9a054a1b0e628f168b0fb4 2056768 voronota_1.22.3149-2_amd64.deb Checksums-Sha256: 713c67153bcb295ba70428c4c3a70586295b537293abe9540f2aa347c04f984b 28865968 voronota-dbgsym_1.22.3149-2_amd64.deb 719d73bae7ae39cedf367df857f7a52aefb30047f6f026426917a1684cbb2435 5223 voronota_1.22.3149-2_amd64.buildinfo dfb226bd98e57ca087f9d577455a7ccaa16a65a8f78f88e4a107c65598b69ea2 2056768 voronota_1.22.3149-2_amd64.deb Files: 83c3eb47e7136323b3bc83eef2e5c5d9 28865968 debug optional voronota-dbgsym_1.22.3149-2_amd64.deb bb0d6e019b0d5bab10fee4f1ded1e1ba 5223 science optional voronota_1.22.3149-2_amd64.buildinfo dfd3e02f51453a84db246b709b859359 2056768 science optional voronota_1.22.3149-2_amd64.deb Wed Apr 26 02:39:32 UTC 2023 I: diffoscope 241 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.HPJYhxdJ/voronota_1.22.3149-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.HPJYhxdJ/voronota_1.22.3149-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.HPJYhxdJ/voronota_1.22.3149-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.HPJYhxdJ/b1/voronota_1.22.3149-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.HPJYhxdJ/b2/voronota_1.22.3149-2_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.676s) 0.676s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.336s) 0.336s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Wed Apr 26 02:39:33 UTC 2023 I: diffoscope 241 found no differences in the changes files, and a .buildinfo file also exists. Wed Apr 26 02:39:33 UTC 2023 I: voronota from bookworm built successfully and reproducibly on amd64. Wed Apr 26 02:39:34 UTC 2023 I: Submitting .buildinfo files to external archives: Wed Apr 26 02:39:34 UTC 2023 I: Submitting 8.0K b1/voronota_1.22.3149-2_amd64.buildinfo.asc Wed Apr 26 02:39:35 UTC 2023 I: Submitting 8.0K b2/voronota_1.22.3149-2_amd64.buildinfo.asc Wed Apr 26 02:39:36 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Apr 26 02:39:36 UTC 2023 I: Done submitting .buildinfo files. Wed Apr 26 02:39:36 UTC 2023 I: Removing signed voronota_1.22.3149-2_amd64.buildinfo.asc files: removed './b1/voronota_1.22.3149-2_amd64.buildinfo.asc' removed './b2/voronota_1.22.3149-2_amd64.buildinfo.asc'