Sun Jun 27 11:52:43 UTC 2021 I: starting to build poa/buster/amd64 on jenkins on '2021-06-27 11:52' Sun Jun 27 11:52:43 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_15/64091/console.log Sun Jun 27 11:52:43 UTC 2021 I: Downloading source for buster/poa=2.0+20060928-7 --2021-06-27 11:52:43-- http://deb.debian.org/debian/pool/main/p/poa/poa_2.0+20060928-7.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1980 (1.9K) Saving to: ‘poa_2.0+20060928-7.dsc’ 0K . 100% 221M=0s 2021-06-27 11:52:43 (221 MB/s) - ‘poa_2.0+20060928-7.dsc’ saved [1980/1980] Sun Jun 27 11:52:44 UTC 2021 I: poa_2.0+20060928-7.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: poa Binary: poa Architecture: any Version: 2.0+20060928-7 Maintainer: Debian Med Packaging Team Uploaders: Charles Plessy , Andreas Tille Homepage: http://poamsa.sourceforge.net/ Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/med-team/poa Vcs-Git: https://salsa.debian.org/med-team/poa.git Testsuite: autopkgtest Build-Depends: debhelper (>= 11~) Package-List: poa deb science optional arch=any Checksums-Sha1: 57f863956736498dd76afb57967036bf92c6d599 62612 poa_2.0+20060928.orig.tar.gz c4abd2a3119e4cb31213bbe445843f8d5775087a 10368 poa_2.0+20060928-7.debian.tar.xz Checksums-Sha256: d98d8251af558f442d909a6527694825ef6f79881b7636cad4925792559092c2 62612 poa_2.0+20060928.orig.tar.gz 36fb1f15392f88ce8b2b31e69d3c2a3c73dc86d32d2ba9c1c5ac8dfcb343b489 10368 poa_2.0+20060928-7.debian.tar.xz Files: 9e2eb270d4867114406f53dab1311b2b 62612 poa_2.0+20060928.orig.tar.gz d3ae301e6b5e96c21e09bab9cf5a0bd9 10368 poa_2.0+20060928-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlutNZoRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFKSQ/9FB3ZepvvW6ZD+A6yMZHNzekaUkQRAwhm SNGftyXi13M/nhQfaEAbe4iHA4SfrXusPoDzPfstYfsPb63EJ5mMqp2MKR1CSNJ5 UWhTY0qilnHMfs4Z/NZteTMUUcRMXx+HpnA1w7D0ZeeP/4SL+z9cjXEcf19JuY8r wAWT/MKQbfNkBp2jlO3qS2HBGaXRXIbRjSyeoNrecvpOpfID+wcLyLnfA8UOb1yV 2zIVhaGOYHCFfxg363AfUaFAMJNaBquDe4jhgxkfF9Od/F4kpw//7ilXA0ObbdLI 40BV0nNdOirOISh+vYWBQgGFKex5CI/Fd5ONn7x8/FWW5RCYjrdI6a6Jr+NoXZi4 Bp3zTHlcy+Nw8yGTARRyg/6oWW+gIwv+mU4Cnc/+tlifDhndb96jdyvNGlUG8tpQ p3lfX+xEDrSehIYguzTP5k0pP5PwAX/EzvGmRgLSKP8RvCelJ/GkMP0Dr7tv6bCW 1XKapZPVcfCpo/qx45y0mjZ5EjXPErQWcxoP+hxmUK3Xk1EfmxCmhDJ7icLEFdTN TXSVb3uPDW9fgQOQ63kOpzVbFR8euEA4awa/RoQXjxXYDuxTmFsDb7DB9Deyas1l gkaLLqFMQIPovCrba2RjMCULUR2LeLD5yeK+KzUFpMR5epQXeiq+7Vo3mpDPfJl7 hD1sCr93+aA= =2J1V -----END PGP SIGNATURE----- Sun Jun 27 11:52:44 UTC 2021 I: Checking whether the package is not for us Sun Jun 27 11:52:44 UTC 2021 I: Starting 1st build on remote node ionos11-amd64.debian.net. Sun Jun 27 11:52:44 UTC 2021 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Sun Jun 27 11:54:22 UTC 2021 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Jun 26 23:52:46 -12 2021 I: pbuilder-time-stamp: 1624794766 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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: Copying source file I: copying [poa_2.0+20060928-7.dsc] I: copying [./poa_2.0+20060928.orig.tar.gz] I: copying [./poa_2.0+20060928-7.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Thu Sep 27 07:55:06 2018 -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 ./poa_2.0+20060928-7.dsc dpkg-source: info: extracting poa in poa-2.0+20060928 dpkg-source: info: unpacking poa_2.0+20060928.orig.tar.gz dpkg-source: info: unpacking poa_2.0+20060928-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/11156/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=15' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='44ce6e4f48844d41aa5eeaf0aba5e0fb' 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='11156' 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.9oMfnB50Zn/pbuilderrc_bweW --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.9oMfnB50Zn/b1 --logfile b1/build.log poa_2.0+20060928-7.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://78.137.99.97:3128' I: uname -a Linux ionos11-amd64 4.19.0-17-amd64 #1 SMP Debian 4.19.194-2 (2021-06-21) x86_64 GNU/Linux I: ls -l /bin total 5116 -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash -rwxr-xr-x 1 root root 109408 Feb 28 2019 date -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd -rwxr-xr-x 1 root root 93744 Feb 28 2019 df -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 35424 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln -rwxr-xr-x 1 root root 56760 Jul 26 2018 login -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 43008 Jan 9 2019 more -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jun 20 20:26 sh -> dash -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty -rwsr-xr-x 1 root root 63568 Jan 9 2019 su -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch -rwxr-xr-x 1 root root 35424 Feb 28 2019 true -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/11156/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 (>= 11~) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19195 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. 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} bsdmainutils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libcroco3{a} libelf1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libicu63{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libpipeline1{a} libsigsegv2{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 libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 19.0 MB of archives. After unpacking 69.5 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get: 2 http://deb.debian.org/debian buster/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get: 3 http://deb.debian.org/debian buster/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get: 4 http://deb.debian.org/debian buster/main amd64 groff-base amd64 1.22.4-3+deb10u1 [916 kB] Get: 5 http://deb.debian.org/debian buster/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get: 6 http://deb.debian.org/debian buster/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get: 7 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get: 8 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get: 9 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get: 10 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get: 11 http://deb.debian.org/debian buster/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get: 12 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get: 13 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get: 14 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get: 15 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get: 16 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get: 17 http://deb.debian.org/debian buster/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get: 18 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get: 19 http://deb.debian.org/debian buster/main amd64 dh-autoreconf all 19 [16.9 kB] Get: 20 http://deb.debian.org/debian buster/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 21 http://deb.debian.org/debian buster/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 22 http://deb.debian.org/debian buster/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 23 http://deb.debian.org/debian buster/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get: 24 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 25 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 26 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u1 [8300 kB] Get: 27 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u2 [689 kB] Get: 28 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get: 29 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get: 30 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get: 31 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 32 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Fetched 19.0 MB in 1s (25.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (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 ... 19195 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../02-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3+deb10u1_amd64.deb ... Unpacking groff-base (1.22.4-3+deb10u1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.1-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_amd64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../06-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../07-libmagic-mgc_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../08-libmagic1_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-4+deb10u2) ... Selecting previously unselected package file. Preparing to unpack .../09-file_1%3a5.35-4+deb10u2_amd64.deb ... Unpacking file (1:5.35-4+deb10u2) ... Selecting previously unselected package gettext-base. Preparing to unpack .../10-gettext-base_0.19.8.1-9_amd64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../11-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.18-2_amd64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../13-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../14-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../15-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../16-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... 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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 (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/poa-2.0+20060928/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package poa dpkg-buildpackage: info: source version 2.0+20060928-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean dh_auto_clean make -j15 clean make[1]: Entering directory '/build/poa-2.0+20060928' rm -f align_score.o main.o black_flag.o seq_util.o fasta_format.o msa_format.o align_lpo2.o align_lpo_po2.o buildup_lpo.o lpo.o heaviest_bundle.o lpo_format.o create_seq.o remove_bundle.o numeric_data.o stringptr.o poa liblpo.a poa_doc libbflag.a make[1]: Leaving directory '/build/poa-2.0+20060928' dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/poa-2.0+20060928' dh_auto_build -- poa make -j15 "INSTALL=install --strip-program=true" poa make[2]: Entering directory '/build/poa-2.0+20060928' gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o align_score.o align_score.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o main.o main.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o black_flag.o black_flag.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o seq_util.o seq_util.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o fasta_format.o fasta_format.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o msa_format.o msa_format.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o align_lpo2.o align_lpo2.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o align_lpo_po2.o align_lpo_po2.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o buildup_lpo.o buildup_lpo.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lpo.o lpo.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o heaviest_bundle.o heaviest_bundle.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lpo_format.o lpo_format.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o create_seq.o create_seq.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o remove_bundle.o remove_bundle.c gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o numeric_data.o numeric_data.c In file included from lpo.h:6, from main.c:3: main.c: In function 'main': ./default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ main.c:183:3: note: in expansion of macro 'CALLOC' CALLOC (input_seqs, max_input_seqs, LPOSequence_T *); ^~~~~~ ./default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ main.c:221:2: note: in expansion of macro 'REALLOC' REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); ^~~~~~~ In file included from ./default.h:16, from lpo.h:6, from main.c:3: main.c:225:30: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'FILE *' {aka 'struct _IO_FILE *'} [-Wformat=] WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ po_list_file),"$Revision: 1.2.2.9 $"); ~~~~~~~~~~~~ ./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' (sprintf MESSAGE,\ ^~~~~~~ In file included from lpo.h:6, from main.c:3: ./default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ main.c:254:2: note: in expansion of macro 'REALLOC' REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); ^~~~~~~ In file included from heaviest_bundle.c:3: heaviest_bundle.c: In function 'heaviest_bundle': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ heaviest_bundle.c:27:3: note: in expansion of macro 'CALLOC' CALLOC(path,len,LPOLetterRef_T); /* GET MEMORY FOR DYNAMIC PROGRAMMING */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ heaviest_bundle.c:28:3: note: in expansion of macro 'CALLOC' CALLOC(score,len,LPOScore_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ heaviest_bundle.c:29:3: note: in expansion of macro 'CALLOC' CALLOC(contains_pos,nsource_seq,int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ heaviest_bundle.c:67:3: note: in expansion of macro 'CALLOC' CALLOC(best_path,len,LPOLetterRef_T); /* MEMORY FOR STORING BEST PATH */ ^~~~~~ gcc -g -O2 -ffile-prefix-map=/build/poa-2.0+20060928=. -fstack-protector-strong -Wformat -Werror=format-security -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o stringptr.o stringptr.c heaviest_bundle.c: In function 'assign_sequence_bundle_id': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ heaviest_bundle.c:90:3: note: in expansion of macro 'CALLOC' CALLOC(bundle_count,seq->nsource_seq,int); ^~~~~~ In file included from lpo_format.c:3: lpo_format.c: In function 'read_lpo': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:60:3: note: in expansion of macro 'CALLOC' CALLOC(seq,1,LPOSequence_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:71:3: note: in expansion of macro 'CALLOC' CALLOC(seq->letter,length,LPOLetter_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:241:5: note: in expansion of macro 'CALLOC' CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~ lpo_format.c:72:3: note: in expansion of macro 'GETMEM' GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:245:5: note: in expansion of macro 'REALLOC' REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~~ lpo_format.c:72:3: note: in expansion of macro 'GETMEM' GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:73:3: note: in expansion of macro 'CALLOC' CALLOC(pos_count,nsource_seq,int); ^~~~~~ lpo_format.c: In function 'read_lpo_select': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:159:3: note: in expansion of macro 'CALLOC' CALLOC(seq,1,LPOSequence_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:170:3: note: in expansion of macro 'CALLOC' CALLOC(seq->letter,length,LPOLetter_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:241:5: note: in expansion of macro 'CALLOC' CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~ lpo_format.c:171:3: note: in expansion of macro 'GETMEM' GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:245:5: note: in expansion of macro 'REALLOC' REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~~ lpo_format.c:171:3: note: in expansion of macro 'GETMEM' GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:172:3: note: in expansion of macro 'CALLOC' CALLOC(pos_count,nsource_seq,int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:196:3: note: in expansion of macro 'CALLOC' CALLOC(iseq_compact,nsource_seq,int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:197:3: note: in expansion of macro 'CALLOC' CALLOC(last_pos,nsource_seq,int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:198:3: note: in expansion of macro 'CALLOC' CALLOC(match_pos,nsource_seq,int); ^~~~~~ In file included from msa_format.h:17, from msa_format.c:17: msa_format.c: In function 'read_clustal': default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:169:7: note: in expansion of macro 'REALLOC' REALLOC (seq_names, n_seqs, char *); ^~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:171:7: note: in expansion of macro 'REALLOC' REALLOC (seq_titles, n_seqs, char *); ^~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:174:7: note: in expansion of macro 'REALLOC' REALLOC (aln_mat, n_seqs, char *); ^~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:176:7: note: in expansion of macro 'REALLOC' REALLOC (aln_lengths, n_seqs, int); ^~~~~~~ default.h:184:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ ~~~~~ default.h:184:22: note: in definition of macro 'REALLOC' fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ msa_format.c:185:5: note: in expansion of macro 'REALLOC' REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); ^~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:185:5: note: in expansion of macro 'REALLOC' REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); ^~~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:229:3: note: in expansion of macro 'CALLOC' CALLOC(link_list,seq->length,int); /*TEMPORARY DATA FOR COMPACTION MAPPING */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:230:3: note: in expansion of macro 'CALLOC' CALLOC(pos_compact,seq->length,int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:231:3: note: in expansion of macro 'CALLOC' CALLOC(ring_old,seq->length,int); ^~~~~~ lpo_format.c: In function 'xlate_lpo_to_al': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:353:3: note: in expansion of macro 'CALLOC' CALLOC(seq_pos,seq->nsource_seq,char *); /* ALLOCATE MAP ARRAY*/ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:354:3: note: in expansion of macro 'CALLOC' CALLOC(p,seq->nsource_seq*nring,char); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo_format.c:374:5: note: in expansion of macro 'CALLOC' CALLOC(include_in_save,nring,char); /* BLANK FLAGS: WHAT RINGS TO SHOW*/ ^~~~~~ msa_format.c: In function 'read_pir': default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:248:7: note: in expansion of macro 'REALLOC' REALLOC (seq_names, n_seqs, char *); ^~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:250:7: note: in expansion of macro 'REALLOC' REALLOC (seq_titles, n_seqs, char *); ^~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:252:7: note: in expansion of macro 'REALLOC' REALLOC (aln_mat, n_seqs, char *); ^~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:254:7: note: in expansion of macro 'REALLOC' REALLOC (aln_lengths, n_seqs, int); ^~~~~~~ default.h:184:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ ~~~~~ default.h:184:22: note: in definition of macro 'REALLOC' fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ msa_format.c:268:7: note: in expansion of macro 'REALLOC' REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); ^~~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:268:7: note: in expansion of macro 'REALLOC' REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); ^~~~~~~ msa_format.c: In function 'lpo_from_aln_mat': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:318:3: note: in expansion of macro 'CALLOC' CALLOC (column_ids, n_seqs+1, int *); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:319:3: note: in expansion of macro 'CALLOC' CALLOC (res_ids, n_seqs+1, int *); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:326:5: note: in expansion of macro 'CALLOC' CALLOC (column_ids[i], max_aln_length, int); ^~~~~~ lpo_format.c: In function 'read_lpo': lpo_format.c:61:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile,"VERSION=%s",version); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:62:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile," NAME=%[^\n]",name); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:63:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile," TITLE=%[^\n]",title); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:86:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile,"%*[ \t]"); ^~~~~~~~~~~~~~~~~~~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:327:5: note: in expansion of macro 'CALLOC' CALLOC (res_ids[i], max_aln_length, int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:334:3: note: in expansion of macro 'CALLOC' CALLOC (consens_row, max_aln_length, char); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:347:3: note: in expansion of macro 'CALLOC' CALLOC (lposeq, 1, LPOSequence_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:351:3: note: in expansion of macro 'CALLOC' CALLOC (lposeq->sequence, max_aln_length+1, char); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:369:3: note: in expansion of macro 'REALLOC' REALLOC (lposeq->sequence, len+1, char); ^~~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:375:5: note: in expansion of macro 'CALLOC' CALLOC (curr_seq, 1, LPOSequence_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:380:5: note: in expansion of macro 'CALLOC' CALLOC (curr_seq->sequence, aln_lengths[i]+1, char); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:398:5: note: in expansion of macro 'REALLOC' REALLOC (curr_seq->sequence, len+1, char); ^~~~~~~ lpo_format.c: In function 'read_lpo_select': lpo_format.c:160:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile,"VERSION=%s",version); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:161:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile," NAME=%[^\n]",name); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:162:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile," TITLE=%[^\n]",title); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:185:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile,"%*[ \t]"); ^~~~~~~~~~~~~~~~~~~~~~~ msa_format.c:404:5: warning: implicit declaration of function 'build_seq_to_po_index' [-Wimplicit-function-declaration] build_seq_to_po_index (lposeq); ^~~~~~~~~~~~~~~~~~~~~ In file included from msa_format.h:17, from msa_format.c:17: default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:406:5: note: in expansion of macro 'CALLOC' CALLOC (al_x, len, int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:407:5: note: in expansion of macro 'CALLOC' CALLOC (al_y, lposeq->length, int); ^~~~~~ msa_format.c:428:5: warning: implicit declaration of function 'fuse_ring_identities' [-Wimplicit-function-declaration] fuse_ring_identities (lposeq->length, lposeq->letter, ^~~~~~~~~~~~~~~~~~~~ In file included from msa_format.h:17, from msa_format.c:17: msa_format.c: In function 'filter_sequence_set': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ msa_format.c:485:3: note: in expansion of macro 'CALLOC' CALLOC (keep_seq, n_seqs, int); ^~~~~~ In file included from black_flag.c:4: black_flag.c: In function 'black_flag_init_args': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ black_flag.c:109:3: note: in expansion of macro 'CALLOC' CALLOC(Program_name,len,char); ^~~~~~ In file included from seq_util.c:2: seq_util.c: In function 'read_score_matrix': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ seq_util.c:170:3: note: in expansion of macro 'CALLOC' CALLOC (m->gap_penalty_x, m->max_gap_length+2, LPOScore_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ seq_util.c:171:3: note: in expansion of macro 'CALLOC' CALLOC (m->gap_penalty_y, m->max_gap_length+2, LPOScore_T); ^~~~~~ In file included from align_lpo2.c:2: align_lpo2.c: In function 'get_seq_left_and_final': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:60:3: note: in expansion of macro 'CALLOC' CALLOC (is_final_node_x, len_x, int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:66:3: note: in expansion of macro 'CALLOC' CALLOC (x_left, len_x, LPOLetterLink_T *); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:70:7: note: in expansion of macro 'CALLOC' CALLOC (x_left[i], 1, LPOLetterLink_T); ^~~~~~ align_lpo2.c: In function 'trace_back_lpo_alignment': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:96:3: note: in expansion of macro 'CALLOC' CALLOC (x_al, len_x, LPOLetterRef_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:97:3: note: in expansion of macro 'CALLOC' CALLOC (y_al, len_y, LPOLetterRef_T); ^~~~~~ In file included from buildup_lpo.c:3: buildup_lpo.c: In function 'clip_unaligned_ends': fasta_format.c: In function 'read_fasta': fasta_format.c:48:2: warning: implicit declaration of function 'stringptr_cat_pos'; did you mean 'stringptr_cat'? [-Wimplicit-function-declaration] stringptr_cat_pos(&tmp_seq,line,&length); ^~~~~~~~~~~~~~~~~ stringptr_cat default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:146:3: note: in expansion of macro 'CALLOC' CALLOC(temp,seq->length,LPOLetter_T); /* ALLOCATE NEW letter[] COPY */ ^~~~~~ buildup_lpo.c: In function 'read_seqpair_scorefile': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:327:3: note: in expansion of macro 'CALLOC' CALLOC (adj_score, nseq, int); ^~~~~~ align_lpo2.c: In function 'align_lpo': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:185:3: note: in expansion of macro 'CALLOC' CALLOC (next_gap_array, max_gap_length + 2, int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:330:3: note: in expansion of macro 'CALLOC' CALLOC (score_list, max_nscore, SeqPairScore_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:186:3: note: in expansion of macro 'CALLOC' CALLOC (next_perp_gap_array, max_gap_length + 2, int); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:353:2: note: in expansion of macro 'REALLOC' REALLOC (score_list, max_nscore, SeqPairScore_T); ^~~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:199:3: note: in expansion of macro 'CALLOC' CALLOC (move, len_y, DPMove_T *); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:201:5: note: in expansion of macro 'CALLOC' CALLOC (move[i], len_x, DPMove_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:204:3: note: in expansion of macro 'CALLOC' CALLOC (init_col_score, len_y+1, DPScore_T); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:374:2: note: in expansion of macro 'REALLOC' REALLOC (score_list, max_nscore, SeqPairScore_T); ^~~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:207:3: note: in expansion of macro 'CALLOC' CALLOC (curr_score, len_x+1, DPScore_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo2.c:209:3: note: in expansion of macro 'CALLOC' CALLOC (prev_score, len_x+1, DPScore_T); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:394:2: note: in expansion of macro 'REALLOC' REALLOC (score_list, max_nscore, SeqPairScore_T); ^~~~~~~ buildup_lpo.c: In function 'buildup_progressive_lpo': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:445:3: note: in expansion of macro 'CALLOC' CALLOC(seq_cluster,nseq,int); /* MAPS SEQS (or CLUSTERS) TO CLUSTER THEY'RE IN */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:446:3: note: in expansion of macro 'CALLOC' CALLOC(seq_id_in_cluster,nseq,int); /* INDEXES SEQS (or CLUSTERS) WITHIN EACH CLUSTER */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:447:3: note: in expansion of macro 'CALLOC' CALLOC(cluster_size,nseq,int); /* COUNTS SEQS IN SAME CLUSTER (updated w/ merges) */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:448:3: note: in expansion of macro 'CALLOC' CALLOC(initial_nseq,nseq,int); /* COUNTS SEQS INITIALLY IN EACH CLUSTER (not updated w/ merges) */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ buildup_lpo.c:538:5: note: in expansion of macro 'CALLOC' CALLOC (perm, nseq_tot, int); ^~~~~~ In file included from create_seq.c:3: create_seq.c: In function 'create_seq': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:212:5: note: in expansion of macro 'CALLOC' CALLOC(memptr,BUF,ATYPE) } \ ^~~~~~ create_seq.c:29:3: note: in expansion of macro 'REBUFF' REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:215:5: note: in expansion of macro 'REALLOC' REALLOC(memptr,(NUM)+(BUF),ATYPE); \ ^~~~~~~ create_seq.c:29:3: note: in expansion of macro 'REBUFF' REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ ^~~~~~ In file included from remove_bundle.c:4: remove_bundle.c: In function 'compact_links': In file included from align_lpo_po2.c:2: align_lpo_po2.c: In function 'get_lpo_stats': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ remove_bundle.c:16:3: note: in expansion of macro 'CALLOC' CALLOC(link,1,LPOLetterLink_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:41:3: note: in expansion of macro 'CALLOC' CALLOC (node_type, len, int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:42:3: note: in expansion of macro 'CALLOC' CALLOC (refs_from_right, len, int); ^~~~~~ remove_bundle.c: In function 'compact_sources': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:43:3: note: in expansion of macro 'CALLOC' CALLOC (tmp, len, int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ remove_bundle.c:59:3: note: in expansion of macro 'CALLOC' CALLOC(source,1,LPOLetterSource_T); ^~~~~~ In file included from ./lpo.h:6, from numeric_data.c:3: numeric_data.c: In function 'new_numeric_data': ./default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ ./default.h:212:5: note: in expansion of macro 'CALLOC' CALLOC(memptr,BUF,ATYPE) } \ ^~~~~~ numeric_data.c:18:3: note: in expansion of macro 'REBUFF' REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:44:3: note: in expansion of macro 'CALLOC' CALLOC (left_links, len, LPOLetterLink_T *); ^~~~~~ ./default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ ./default.h:215:5: note: in expansion of macro 'REALLOC' REALLOC(memptr,(NUM)+(BUF),ATYPE); \ ^~~~~~~ numeric_data.c:18:3: note: in expansion of macro 'REBUFF' REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); ^~~~~~ remove_bundle.c: In function 'remove_bundle': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ remove_bundle.c:128:3: note: in expansion of macro 'CALLOC' CALLOC(old_to_new,seq->length,int); /* CREATE MAPPING ARRAY */ ^~~~~~ ./default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ numeric_data.c:25:3: note: in expansion of macro 'CALLOC' CALLOC(data->data,source_seq->length,double); /* ALLOCATE THE ARRAY */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:71:7: note: in expansion of macro 'CALLOC' CALLOC (left_links[i], 1, LPOLetterLink_T); ^~~~~~ In file included from lpo.c:3: lpo.c: In function 'lpo_init': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:15:3: note: in expansion of macro 'CALLOC' CALLOC(seq->letter,seq->length,LPOLetter_T); ^~~~~~ lpo.c: In function 'build_seq_to_po_index': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:157:5: note: in expansion of macro 'CALLOC' CALLOC(seq->source_seq[i].seq_to_po,seq->source_seq[i].length,int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:158:5: note: in expansion of macro 'CALLOC' CALLOC(seq->source_seq[i].po_to_seq,seq->length,int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:159:5: note: in expansion of macro 'CALLOC' CALLOC(seq->source_seq[i].sequence,seq->source_seq[i].length+1,char); ^~~~~~ lpo.c: In function 'save_lpo_source': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:212:5: note: in expansion of macro 'CALLOC' CALLOC(memptr,BUF,ATYPE) } \ ^~~~~~ lpo.c:189:3: note: in expansion of macro 'REBUFF' REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, ^~~~~~ align_lpo_po2.c: In function 'trace_back_lpo_alignment': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:120:3: note: in expansion of macro 'CALLOC' CALLOC (x_al, len_x, LPOLetterRef_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:121:3: note: in expansion of macro 'CALLOC' CALLOC (y_al, len_y, LPOLetterRef_T); ^~~~~~ align_lpo_po2.c: In function 'align_lpo_po': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:227:3: note: in expansion of macro 'CALLOC' CALLOC (next_gap_array, max_gap_length + 2, int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:228:3: note: in expansion of macro 'CALLOC' CALLOC (next_perp_gap_array, max_gap_length + 2, int); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:254:3: note: in expansion of macro 'CALLOC' CALLOC (move, len_y, DPMove_T *); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:256:5: note: in expansion of macro 'CALLOC' CALLOC (move[i], len_x, DPMove_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:259:3: note: in expansion of macro 'CALLOC' CALLOC (init_col_score, len_y+1, DPScore_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:262:3: note: in expansion of macro 'CALLOC' CALLOC (score_rows, len_y+1, DPScore_T *); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:264:3: note: in expansion of macro 'CALLOC' CALLOC (score_rows[-1], len_x+1, DPScore_T); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:215:5: note: in expansion of macro 'REALLOC' REALLOC(memptr,(NUM)+(BUF),ATYPE); \ ^~~~~~~ lpo.c:189:3: note: in expansion of macro 'REBUFF' REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, ^~~~~~ lpo.c: In function 'save_lpo_source_list': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:213:3: note: in expansion of macro 'CALLOC' CALLOC(list,nsource_seq,int); ^~~~~~ In file included from stringptr.c:2: stringptr.c: In function 'stringptr_cat_pos': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ stringptr.c:30:3: note: in expansion of macro 'CALLOC' CALLOC(s2_temp,s2_len,char); /* ALLOCATE TEMP STORAGE */ ^~~~~~ lpo.c: In function 'add_lpo_link': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:238:3: note: in expansion of macro 'CALLOC' CALLOC(list->more,1,LPOLetterLink_T); /* ADD ENTRY TO LINKED LIST */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:241:5: note: in expansion of macro 'CALLOC' CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~ stringptr.c:40:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,total_len, ^~~~~~ lpo.c: In function 'add_lpo_sources': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:252:7: note: in expansion of macro 'CALLOC' CALLOC(new_s->more,1,LPOLetterSource_T); ^~~~~~ lpo.c: In function 'reindex_lpo_source_seqs': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:270:3: note: in expansion of macro 'CALLOC' CALLOC (map, len, int); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:245:5: note: in expansion of macro 'REALLOC' REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~~ stringptr.c:40:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,total_len, ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:271:3: note: in expansion of macro 'CALLOC' CALLOC (invmap, len, int); ^~~~~~ numeric_data.c: In function 'read_numeric_data': numeric_data.c:139:4: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] fscanf(ifile," %lf",data->data+j); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stringptr.c: In function 'stringptr_cpy': default.h:147:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __FILE__,__LINE__,STRINGIFY(memptr),(N)); \ ~~~ default.h:147:22: note: in definition of macro 'CALLOC' fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); ^~~~~~ default.h:154:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ default.h:154:20: note: in definition of macro 'CALLOC' fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ default.h:241:5: note: in expansion of macro 'CALLOC' CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:241:5: note: in expansion of macro 'CALLOC' CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); ^~~~~~ default.h:184:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ ~~~~~ default.h:184:22: note: in definition of macro 'REALLOC' fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ default.h:245:5: note: in expansion of macro 'REALLOC' REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ default.h:245:5: note: in expansion of macro 'REALLOC' REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); ^~~~~~ lpo.c: In function 'reindex_lpo_fusion': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:427:3: note: in expansion of macro 'CALLOC' CALLOC(do_fuse,len_y,char); /* MARK POSITIONS TO FUSE seq_y TO seq_x */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ align_lpo_po2.c:312:5: note: in expansion of macro 'CALLOC' CALLOC (score_rows[i], len_x+1, DPScore_T); ^~~~~~ align_lpo_po2.c:438:44: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=] fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); ~~^ ~~~~~~~~~ %d align_lpo_po2.c:438:69: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'int' [-Wformat=] fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); ~~^ ~~~~~~~~~ %d lpo.c: In function 'copy_fuse_lpo_remap': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:500:3: note: in expansion of macro 'CALLOC' CALLOC(new_seq,1,LPOSequence_T); /* CREATE A NEW HOLDER */ ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:501:3: note: in expansion of macro 'CALLOC' CALLOC(new_x,len_x,LPOLetterRef_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:502:3: note: in expansion of macro 'CALLOC' CALLOC(new_y,len_y,LPOLetterRef_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:505:3: note: in expansion of macro 'CALLOC' CALLOC(new_lpo,new_len,LPOLetter_T); /* ALLOCATE NEW LINEARIZED PO */ ^~~~~~ lpo.c: In function 'copy_lpo': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:564:3: note: in expansion of macro 'CALLOC' CALLOC(x_to_y,holder_x->length,LPOLetterRef_T); ^~~~~~ lpo.c: In function 'fuse_lpo_remap': default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:618:3: note: in expansion of macro 'CALLOC' CALLOC(new_x,len_x,LPOLetterRef_T); ^~~~~~ default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:619:3: note: in expansion of macro 'CALLOC' CALLOC(new_y,len_y,LPOLetterRef_T); ^~~~~~ default.h:196:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ lpo.c:622:3: note: in expansion of macro 'REALLOC' REALLOC(seq_x,new_len,LPOLetter_T); /* EXPAND seq_x TO HOLD FUSED LPO */ ^~~~~~~ rm -f liblpo.a ar rc liblpo.a black_flag.o seq_util.o fasta_format.o msa_format.o align_lpo2.o align_lpo_po2.o buildup_lpo.o lpo.o heaviest_bundle.o lpo_format.o create_seq.o remove_bundle.o numeric_data.o stringptr.o ranlib liblpo.a gcc -o poa align_score.o main.o -lm liblpo.a -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/poa-2.0+20060928' make[1]: Leaving directory '/build/poa-2.0+20060928' debian/rules override_dh_auto_test make[1]: Entering directory '/build/poa-2.0+20060928' tmpfile=`mktemp` ; \ ./poa -read_fasta multidom.seq -clustal $tmpfile -v blosum80.mat ; \ if cmp $tmpfile /build/poa-2.0+20060928/debian/test/multidom.clustal ; then \ echo "Test passed" ; \ rm -f $tmpfile ; \ else \ echo "TEST FAILED!!!" ; \ echo "File $tmpfile is different from /build/poa-2.0+20060928/multidom.clustal" ; \ exit 1 ; \ fi ...Read 4 sequences from sequence file multidom.seq... Performing iterative alignment... Fusing cluster 1 (CRKL_HUMAN, nseq=1) --> 0 (ABL1_HUMAN, nseq=1)... score -1.00 aligned (1130 nodes, 1129 edges) to (303 nodes, 302 edges): best local score = 215 @ (230 116) Fusing cluster 2 (GRB2_HUMAN, nseq=1) --> 0 (ABL1_HUMAN, nseq=2)... score -1.00 aligned (1394 nodes, 1413 edges) to (217 nodes, 216 edges): best local score = 437 @ (1274 215) Fusing cluster 3 (MATK_HUMAN, nseq=1) --> 0 (ABL1_HUMAN, nseq=3)... score -1.00 aligned (1532 nodes, 1601 edges) to (507 nodes, 506 edges): best local score = 1212 @ (654 470) ...Wrote 4 sequences to CLUSTAL file /tmp/tmp.Lh50Uk0gwN... X-Gap Penalties (Open, Aff1, Aff2; LTrunc, LDecay): 12 6 6 16 0 X-Gap Penalties (0, 1, 2, ...): 12 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 ... Y-Gap Penalties (Open, Aff1, Aff2; LTrunc, LDecay): 12 6 6 16 0 Y-Gap Penalties (0, 1, 2, ...): 12 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 6 ... Test passed make[1]: Leaving directory '/build/poa-2.0+20060928' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_installdirs dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/poa/usr/bin/poa was not linked against libm.so.6 (it uses none of the library's symbols) dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package poa: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package poa: substitution variable ${perl:Depends} unused, but is defined dh_md5sums dh_builddeb dpkg-deb: building package 'poa-dbgsym' in '../poa-dbgsym_2.0+20060928-7_amd64.deb'. dpkg-deb: building package 'poa' in '../poa_2.0+20060928-7_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../poa_2.0+20060928-7_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) 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/11156 and its subdirectories I: Current time: Sat Jun 26 23:54:22 -12 2021 I: pbuilder-time-stamp: 1624794862 Sun Jun 27 11:54:22 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Sun Jun 27 11:54:23 UTC 2021 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Sun Jun 27 11:55:56 UTC 2021 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Sun Jun 27 11:55:56 UTC 2021 I: poa_2.0+20060928-7_amd64.changes: Format: 1.8 Date: Thu, 27 Sep 2018 21:51:23 +0200 Source: poa Binary: poa poa-dbgsym Architecture: amd64 Version: 2.0+20060928-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: poa - Partial Order Alignment for multiple sequence alignment Changes: poa (2.0+20060928-7) unstable; urgency=medium . [ Steffen Moeller ] * Added ref to OMICtools entry . [ Andreas Tille ] * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 * hardening=+all Checksums-Sha1: 94b327a0530c4461bbcd3ac77657b89436069061 105380 poa-dbgsym_2.0+20060928-7_amd64.deb 858894e80eef339b33fddfd7090fbabe234d65ea 4672 poa_2.0+20060928-7_amd64.buildinfo e0adb4fbc29e56dba7d18134509cc3394d4ea522 52928 poa_2.0+20060928-7_amd64.deb Checksums-Sha256: 21c3aa46c3e3896fe0e4fa4a7494dd9f9783cb777f1a74e0d2f3a4160905082e 105380 poa-dbgsym_2.0+20060928-7_amd64.deb 2e06e489dcad41541985efe16154943268bd9f9dba89c56e7e99223e7e1d0397 4672 poa_2.0+20060928-7_amd64.buildinfo 0fd342a2975c10672b4776cb5ef8fe2052aca7ad989ca0746bf4695a796d548d 52928 poa_2.0+20060928-7_amd64.deb Files: 300c78d5a294b6deed8cd02d4f1f74fc 105380 debug optional poa-dbgsym_2.0+20060928-7_amd64.deb b7038f9f46c68442a90c63ca709472be 4672 science optional poa_2.0+20060928-7_amd64.buildinfo 37fc43833edba63fd38b270fae9b622b 52928 science optional poa_2.0+20060928-7_amd64.deb Sun Jun 27 11:55:57 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.9oMfnB50Zn/poa_2.0+20060928-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.9oMfnB50Zn/poa_2.0+20060928-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.9oMfnB50Zn/poa_2.0+20060928-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.9oMfnB50Zn/b1/poa_2.0+20060928-7_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.9oMfnB50Zn/b2/poa_2.0+20060928-7_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: 0.235s) 0.235s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.022s) 0.022s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sun Jun 27 11:55:59 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Sun Jun 27 11:55:59 UTC 2021 I: poa from buster built successfully and reproducibly on amd64. Sun Jun 27 11:56:00 UTC 2021 I: Submitting .buildinfo files to external archives: Sun Jun 27 11:56:00 UTC 2021 I: Submitting 8.0K b1/poa_2.0+20060928-7_amd64.buildinfo.asc Sun Jun 27 11:56:01 UTC 2021 I: Submitting 8.0K b2/poa_2.0+20060928-7_amd64.buildinfo.asc Sun Jun 27 11:56:02 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Jun 27 11:56:02 UTC 2021 I: Done submitting .buildinfo files. Sun Jun 27 11:56:02 UTC 2021 I: Removing signed poa_2.0+20060928-7_amd64.buildinfo.asc files: removed './b1/poa_2.0+20060928-7_amd64.buildinfo.asc' removed './b2/poa_2.0+20060928-7_amd64.buildinfo.asc'