Running as unit: rb-build-amd64_26-24486.service ==================================================================================== Sun Nov 24 09:37:54 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_26) on jenkins, called using "ionos5-amd64 ionos1-amd64" as arguments. Sun Nov 24 09:37:54 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-3Q9r03nN" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Nov 24 09:37:54 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sun Nov 24 09:37:54 UTC 2024 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-lh71tI' Sun Nov 24 09:37:55 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sun Nov 24 09:37:55 UTC 2024 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-SdetET' ok, let's check if poa is building anywhere yet… ok, poa is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of poa in unstable on amd64 on jenkins now. 1st build will be done on ionos5-amd64.debian.net. 2nd build will be done on ionos1-amd64.debian.net. ============================================================================= Sun Nov 24 09:38:01 UTC 2024 I: starting to build poa/unstable/amd64 on jenkins on '2024-11-24 09:37' Sun Nov 24 09:38:01 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_26/24486/console.log 1732441081 amd64 unstable poa Sun Nov 24 09:38:01 UTC 2024 I: Downloading source for unstable/poa=2.0+20060928-9 --2024-11-24 09:38:01-- http://deb.debian.org/debian/pool/main/p/poa/poa_2.0%2b20060928-9.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2145 (2.1K) [text/prs.lines.tag] Saving to: ‘poa_2.0+20060928-9.dsc’ 0K .. 100% 137M=0s 2024-11-24 09:38:01 (137 MB/s) - ‘poa_2.0+20060928-9.dsc’ saved [2145/2145] --2024-11-24 09:38:01-- http://deb.debian.org/debian/pool/main/p/poa/poa_2.0%2b20060928-9.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2145 (2.1K) [text/prs.lines.tag] Saving to: ‘poa_2.0+20060928-9.dsc’ 0K .. 100% 137M=0s 2024-11-24 09:38:01 (137 MB/s) - ‘poa_2.0+20060928-9.dsc’ saved [2145/2145] Sun Nov 24 09:38:01 UTC 2024 I: poa_2.0+20060928-9.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: poa Binary: poa Architecture: any Version: 2.0+20060928-9 Maintainer: Debian Med Packaging Team Uploaders: Charles Plessy , Andreas Tille , Étienne Mollier Homepage: http://poamsa.sourceforge.net/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/poa Vcs-Git: https://salsa.debian.org/med-team/poa.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: poa deb science optional arch=any Checksums-Sha1: 57f863956736498dd76afb57967036bf92c6d599 62612 poa_2.0+20060928.orig.tar.gz d2e4797076765d1bd9177a5e00b9779f9dfae8bc 11704 poa_2.0+20060928-9.debian.tar.xz Checksums-Sha256: d98d8251af558f442d909a6527694825ef6f79881b7636cad4925792559092c2 62612 poa_2.0+20060928.orig.tar.gz 2bdf628ed3066e8568208a37a2e87905e64effdca002b8352a0a2d6ea9389dce 11704 poa_2.0+20060928-9.debian.tar.xz Files: 9e2eb270d4867114406f53dab1311b2b 62612 poa_2.0+20060928.orig.tar.gz 788a8e702e7f1d83f28df7cd4a24bc4d 11704 poa_2.0+20060928-9.debian.tar.xz Dgit: 5e683252ee4cb9c6e505387b056eb0b3f87ded27 debian archive/debian/2.0+20060928-9 https://git.dgit.debian.org/poa -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmXyGxAUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqN+hAAsuV7H0CNegnZIbotGPQtiauyzrQb AWr3+0WEjMuCilC9NEeQ5TZ7arKvxG6YXySr0buTnU0DHOTDtl8yYO6LwmhqJxmy L9u+ItykZ+R8dfvDHl63GzlyMvVMdL+xqyU4aB102AT3Ap5wBUaR15yyFqHB/gj5 iQjiCvXGZmOxaCHtrcLcMrOpVlrImATy7T8auW4O6BZRYt9OsQWftJSsq2jN1gUX m6feH6oEbCMioW2XWaHaokB/Rxp0mRQW3gnn24+LnsxKl35vihbUwlLaWLKd4w6L k2YuuXBfY8C3ebx1OCkVNy5fvgYXueBfe34rzF9vOAvaBZCFZ4zZiWa++QbEIPvR YaeNr/argdfkePz/aO55dhG3kW/61julJxaX8Pi0t3+IbrPC3LUW7SDngxaTEVu1 /FifOlMi2wRiJij18aMCF0gbWHlhjSJosdjNRoG0PJrBY0styG3FwyHLICZu9st1 9Oh/DK8xrTBeKTEYEDd29u8uSHBo6jkbx/cTSijl/INr5bsyq4XQQM3ugzPVun7O b27mlxFqVbfU1eRV736sP4UNXNPR7HbrtFw6vtNqFT/4KA+rwbQYgU2aWgEyaX3p q+zbn4r3RLOm/+dMR/qY2Kx+4ta0y5XJk/4QU6JIWFGHtHgsLXO3cAQJIXA5qGzS pKBkdojyLi9my6A= =GAbf -----END PGP SIGNATURE----- Sun Nov 24 09:38:01 UTC 2024 I: Checking whether the package is not for us Sun Nov 24 09:38:01 UTC 2024 I: Starting 1st build on remote node ionos5-amd64.debian.net. Sun Nov 24 09:38:01 UTC 2024 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Sun Nov 24 09:38:01 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sun Nov 24 09:38:01 UTC 2024 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-38YyY8' ==================================================================================== Sat Dec 27 16:01:02 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos5-amd64, called using "1 poa unstable /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG 2.0+20060928-9" as arguments. Sat Dec 27 16:01:02 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-7xrdT80x" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Dec 27 16:01:02 UTC 2025 I: Downloading source for unstable/poa=2.0+20060928-9 Reading package lists... NOTICE: 'poa' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/poa.git Please use: git clone https://salsa.debian.org/med-team/poa.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 76.5 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (dsc) [2145 B] Get:2 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (tar) [62.6 kB] Get:3 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (diff) [11.7 kB] Fetched 76.5 kB in 0s (3726 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'poa' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/poa.git Please use: git clone https://salsa.debian.org/med-team/poa.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 76.5 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (dsc) [2145 B] Get:2 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (tar) [62.6 kB] Get:3 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (diff) [11.7 kB] Fetched 76.5 kB in 0s (3726 kB/s) Download complete and in download only mode ============================================================================= Building poa in unstable on amd64 on ionos5-amd64 now. Date: Sat Dec 27 16:01:02 UTC 2025 Date UTC: Sat Dec 27 16:01:02 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Sat Dec 27 04:01:02 -12 2025 I: pbuilder-time-stamp: 1766851262 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [poa_2.0+20060928-9.dsc] I: copying [./poa_2.0+20060928.orig.tar.gz] I: copying [./poa_2.0+20060928-9.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Mar 13 21:30:56 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./poa_2.0+20060928-9.dsc: no acceptable signature found 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+20060928-9.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying gcc10.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying fix-declaration.patch dpkg-source: info: applying typo.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/813548/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='300636eb159a4707a4be3f1fa5876c23' 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='813548' 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.cwmlMUpG/pbuilderrc_HkTH --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b1 --logfile b1/build.log poa_2.0+20060928-9.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/813548/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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 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. 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} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{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, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.8 MB of archives. After unpacking 75.5 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Fetched 19.8 MB in 1s (33.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19966 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_amd64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-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 .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../23-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-11) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/poa-2.0+20060928/ && 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 > ../poa_2.0+20060928-9_source.changes dpkg-buildpackage: info: source package poa dpkg-buildpackage: info: source version 2.0+20060928-9 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j42 clean make[1]: Entering directory '/build/reproducible-path/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/reproducible-path/poa-2.0+20060928' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/poa-2.0+20060928' dh_auto_build -- poa make -j42 "INSTALL=install --strip-program=true" poa make[2]: Entering directory '/build/reproducible-path/poa-2.0+20060928' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o main.o main.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lpo.o lpo.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o numeric_data.o numeric_data.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o stringptr.o stringptr.c In file included from black_flag.c:4: black_flag.c: In function 'black_flag_init_args': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int black_flag.c:109:3: note: in expansion of macro 'CALLOC' 109 | CALLOC(Program_name,len,char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from align_lpo_po2.c:2: align_lpo_po2.c: In function 'get_lpo_stats': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:41:3: note: in expansion of macro 'CALLOC' 41 | CALLOC (node_type, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:42:3: note: in expansion of macro 'CALLOC' 42 | CALLOC (refs_from_right, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from lpo.c:3: lpo.c: In function 'lpo_init': In file included from buildup_lpo.c:3: buildup_lpo.c: In function 'clip_unaligned_ends': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:15:3: note: in expansion of macro 'CALLOC' 15 | CALLOC(seq->letter,seq->length,LPOLetter_T); | ^~~~~~ In file included from msa_format.h:17, from msa_format.c:17: msa_format.c: In function 'read_clustal': In file included from seq_util.c:2: seq_util.c: In function 'read_score_matrix': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:43:3: note: in expansion of macro 'CALLOC' 43 | CALLOC (tmp, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:146:3: note: in expansion of macro 'CALLOC' 146 | CALLOC(temp,seq->length,LPOLetter_T); /* ALLOCATE NEW letter[] COPY */ | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int seq_util.c:170:3: note: in expansion of macro 'CALLOC' 170 | CALLOC (m->gap_penalty_x, m->max_gap_length+2, LPOScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:169:7: note: in expansion of macro 'REALLOC' 169 | REALLOC (seq_names, n_seqs, char *); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:44:3: note: in expansion of macro 'CALLOC' 44 | CALLOC (left_links, len, LPOLetterLink_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:171:7: note: in expansion of macro 'REALLOC' 171 | REALLOC (seq_titles, n_seqs, char *); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from lpo_format.c:3: lpo_format.c: In function 'read_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int seq_util.c:171:3: note: in expansion of macro 'CALLOC' 171 | CALLOC (m->gap_penalty_y, m->max_gap_length+2, LPOScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:60:3: note: in expansion of macro 'CALLOC' 60 | CALLOC(seq,1,LPOSequence_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:71:7: note: in expansion of macro 'CALLOC' 71 | CALLOC (left_links[i], 1, LPOLetterLink_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:174:7: note: in expansion of macro 'REALLOC' 174 | REALLOC (aln_mat, n_seqs, char *); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:71:3: note: in expansion of macro 'CALLOC' 71 | CALLOC(seq->letter,length,LPOLetter_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'build_seq_to_po_index': align_lpo_po2.c: In function 'trace_back_lpo_alignment': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:120:3: note: in expansion of macro 'CALLOC' 120 | CALLOC (x_al, len_x, LPOLetterRef_T); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:176:7: note: in expansion of macro 'REALLOC' 176 | REALLOC (aln_lengths, n_seqs, int); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:157:5: note: in expansion of macro 'CALLOC' 157 | CALLOC(seq->source_seq[i].seq_to_po,seq->source_seq[i].length,int); | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from lpo.h:6, from main.c:3: main.c: In function 'main': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ lpo_format.c:72:3: note: in expansion of macro 'GETMEM' 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:121:3: note: in expansion of macro 'CALLOC' 121 | CALLOC (y_al, len_y, LPOLetterRef_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:158:5: note: in expansion of macro 'CALLOC' 158 | CALLOC(seq->source_seq[i].po_to_seq,seq->length,int); | ^~~~~~ default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | size_t {aka long unsigned int} 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:183:3: note: in expansion of macro 'CALLOC' 183 | CALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~ In file included from create_seq.c:3: create_seq.c: In function 'create_seq': ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ In file included from heaviest_bundle.c:3: heaviest_bundle.c: In function 'heaviest_bundle': default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ create_seq.c:29:3: note: in expansion of macro 'REBUFF' 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ | ^~~~~~ buildup_lpo.c: In function 'read_seqpair_scorefile': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:27:3: note: in expansion of macro 'CALLOC' 27 | CALLOC(path,len,LPOLetterRef_T); /* GET MEMORY FOR DYNAMIC PROGRAMMING */ | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:159:5: note: in expansion of macro 'CALLOC' 159 | CALLOC(seq->source_seq[i].sequence,seq->source_seq[i].length+1,char); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ lpo_format.c:72:3: note: in expansion of macro 'GETMEM' 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:327:3: note: in expansion of macro 'CALLOC' 327 | CALLOC (adj_score, nseq, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:73:3: note: in expansion of macro 'CALLOC' 73 | CALLOC(pos_count,nsource_seq,int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:28:3: note: in expansion of macro 'CALLOC' 28 | CALLOC(score,len,LPOScore_T); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ create_seq.c:29:3: note: in expansion of macro 'REBUFF' 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld align_lpo_po2.c: In function 'align_lpo_po': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:29:3: note: in expansion of macro 'CALLOC' 29 | CALLOC(contains_pos,nsource_seq,int); | ^~~~~~ In file included from align_lpo2.c:2: align_lpo2.c: In function 'get_seq_left_and_final': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:227:3: note: in expansion of macro 'CALLOC' 227 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:330:3: note: in expansion of macro 'CALLOC' 330 | CALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:60:3: note: in expansion of macro 'CALLOC' 60 | CALLOC (is_final_node_x, len_x, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'save_lpo_source': In file included from stringptr.c:2: stringptr.c: In function 'stringptr_cat_pos': In file included from remove_bundle.c:4: remove_bundle.c: In function 'compact_links': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int stringptr.c:30:3: note: in expansion of macro 'CALLOC' 30 | CALLOC(s2_temp,s2_len,char); /* ALLOCATE TEMP STORAGE */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:16:3: note: in expansion of macro 'CALLOC' 16 | CALLOC(link,1,LPOLetterLink_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ lpo.c:189:3: note: in expansion of macro 'REBUFF' 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:221:9: note: in expansion of macro 'REALLOC' 221 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~~ ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:66:3: note: in expansion of macro 'CALLOC' 66 | CALLOC (x_left, len_x, LPOLetterLink_T *); | ^~~~~~ msa_format.c: In function 'read_pir': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:228:3: note: in expansion of macro 'CALLOC' 228 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:248:7: note: in expansion of macro 'REALLOC' 248 | REALLOC (seq_names, n_seqs, char *); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from ./default.h:16: main.c:225:30: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'FILE *' [-Wformat=] 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 | po_list_file),"$Revision: 1.2.2.9 $"); | ~~~~~~~~~~~~ | | | FILE * ./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' 212 | (sprintf MESSAGE,\ | ^~~~~~~ main.c:225:59: note: format string is defined here 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ~^ | | | char * default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:353:9: note: in expansion of macro 'REALLOC' 353 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ lpo.c:189:3: note: in expansion of macro 'REBUFF' 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:40:3: note: in expansion of macro 'GETMEM' 40 | GETMEM(s1->p,total_len, | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld remove_bundle.c: In function 'compact_sources': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:70:7: note: in expansion of macro 'CALLOC' 70 | CALLOC (x_left[i], 1, LPOLetterLink_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:59:3: note: in expansion of macro 'CALLOC' 59 | CALLOC(source,1,LPOLetterSource_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:67:3: note: in expansion of macro 'CALLOC' 67 | CALLOC(best_path,len,LPOLetterRef_T); /* MEMORY FOR STORING BEST PATH */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:254:3: note: in expansion of macro 'CALLOC' 254 | CALLOC (move, len_y, DPMove_T *); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:250:7: note: in expansion of macro 'REALLOC' 250 | REALLOC (seq_titles, n_seqs, char *); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:40:3: note: in expansion of macro 'GETMEM' 40 | GETMEM(s1->p,total_len, | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo_format.c: In function 'read_lpo_select': ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:254:9: note: in expansion of macro 'REALLOC' 254 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:374:9: note: in expansion of macro 'REALLOC' 374 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ align_lpo2.c: In function 'trace_back_lpo_alignment': lpo.c: In function 'save_lpo_source_list': ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:159:3: note: in expansion of macro 'CALLOC' 159 | CALLOC(seq,1,LPOSequence_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:96:3: note: in expansion of macro 'CALLOC' 96 | CALLOC (x_al, len_x, LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:213:3: note: in expansion of macro 'CALLOC' 213 | CALLOC(list,nsource_seq,int); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:252:7: note: in expansion of macro 'REALLOC' 252 | REALLOC (aln_mat, n_seqs, char *); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:256:5: note: in expansion of macro 'CALLOC' 256 | CALLOC (move[i], len_x, DPMove_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld heaviest_bundle.c: In function 'assign_sequence_bundle_id': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:97:3: note: in expansion of macro 'CALLOC' 97 | CALLOC (y_al, len_y, LPOLetterRef_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:90:3: note: in expansion of macro 'CALLOC' 90 | CALLOC(bundle_count,seq->nsource_seq,int); | ^~~~~~ stringptr.c: In function 'stringptr_cpy': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:170:3: note: in expansion of macro 'CALLOC' 170 | CALLOC(seq->letter,length,LPOLetter_T); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:254:7: note: in expansion of macro 'REALLOC' 254 | REALLOC (aln_lengths, n_seqs, int); | ^~~~~~~ default.h:148:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 | __FILE__,__LINE__,STRINGIFY(memptr),(N)); \ | ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:148:68: note: format string is defined here 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:259:3: note: in expansion of macro 'CALLOC' 259 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ lpo.c: In function 'add_lpo_link': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:394:9: note: in expansion of macro 'REALLOC' 394 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:238:3: note: in expansion of macro 'CALLOC' 238 | CALLOC(list->more,1,LPOLetterLink_T); /* ADD ENTRY TO LINKED LIST */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ remove_bundle.c: In function 'remove_bundle': default.h:155:49: note: format string is defined here 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ lpo_format.c:171:3: note: in expansion of macro 'GETMEM' 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:262:3: note: in expansion of macro 'CALLOC' 262 | CALLOC (score_rows, len_y+1, DPScore_T *); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:128:3: note: in expansion of macro 'CALLOC' 128 | CALLOC(old_to_new,seq->length,int); /* CREATE MAPPING ARRAY */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'add_lpo_sources': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:32: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ align_lpo2.c: In function 'align_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ buildup_lpo.c: In function 'buildup_progressive_lpo': default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:252:7: note: in expansion of macro 'CALLOC' 252 | CALLOC(new_s->more,1,LPOLetterSource_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:264:3: note: in expansion of macro 'CALLOC' 264 | CALLOC (score_rows[-1], len_x+1, DPScore_T); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ lpo_format.c:171:3: note: in expansion of macro 'GETMEM' 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:185:3: note: in expansion of macro 'CALLOC' 185 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:445:3: note: in expansion of macro 'CALLOC' 445 | CALLOC(seq_cluster,nseq,int); /* MAPS SEQS (or CLUSTERS) TO CLUSTER THEY'RE IN */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'reindex_lpo_source_seqs': default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:172:3: note: in expansion of macro 'CALLOC' 172 | CALLOC(pos_count,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:186:3: note: in expansion of macro 'CALLOC' 186 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:446:3: note: in expansion of macro 'CALLOC' 446 | CALLOC(seq_id_in_cluster,nseq,int); /* INDEXES SEQS (or CLUSTERS) WITHIN EACH CLUSTER */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:270:3: note: in expansion of macro 'CALLOC' 270 | CALLOC (map, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:312:5: note: in expansion of macro 'CALLOC' 312 | CALLOC (score_rows[i], len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:196:3: note: in expansion of macro 'CALLOC' 196 | CALLOC(iseq_compact,nsource_seq,int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:447:3: note: in expansion of macro 'CALLOC' 447 | CALLOC(cluster_size,nseq,int); /* COUNTS SEQS IN SAME CLUSTER (updated w/ merges) */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:271:3: note: in expansion of macro 'CALLOC' 271 | CALLOC (invmap, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld msa_format.c: In function 'lpo_from_aln_mat': In file included from ./lpo.h:6, from numeric_data.c:3: numeric_data.c: In function 'new_numeric_data': ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int ./default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ numeric_data.c:18:3: note: in expansion of macro 'REBUFF' 18 | REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:199:3: note: in expansion of macro 'CALLOC' 199 | CALLOC (move, len_y, DPMove_T *); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:318:3: note: in expansion of macro 'CALLOC' 318 | CALLOC (column_ids, n_seqs+1, int *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:448:3: note: in expansion of macro 'CALLOC' 448 | CALLOC(initial_nseq,nseq,int); /* COUNTS SEQS INITIALLY IN EACH CLUSTER (not updated w/ merges) */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:197:3: note: in expansion of macro 'CALLOC' 197 | CALLOC(last_pos,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:319:3: note: in expansion of macro 'CALLOC' 319 | CALLOC (res_ids, n_seqs+1, int *); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:201:5: note: in expansion of macro 'CALLOC' 201 | CALLOC (move[i], len_x, DPMove_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:198:3: note: in expansion of macro 'CALLOC' 198 | CALLOC(match_pos,nsource_seq,int); | ^~~~~~ ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int ./default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ numeric_data.c:18:3: note: in expansion of macro 'REBUFF' 18 | REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); | ^~~~~~ ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int numeric_data.c:25:3: note: in expansion of macro 'CALLOC' 25 | CALLOC(data->data,source_seq->length,double); /* ALLOCATE THE ARRAY */ | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:326:5: note: in expansion of macro 'CALLOC' 326 | CALLOC (column_ids[i], max_aln_length, int); | ^~~~~~ align_lpo_po2.c:438:44: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=] 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); | ~~^ ~~~~~~~~~ | | | | long int int | %d default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:204:3: note: in expansion of macro 'CALLOC' 204 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'reindex_lpo_fusion': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:229:3: note: in expansion of macro 'CALLOC' 229 | CALLOC(link_list,seq->length,int); /*TEMPORARY DATA FOR COMPACTION MAPPING */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:327:5: note: in expansion of macro 'CALLOC' 327 | CALLOC (res_ids[i], max_aln_length, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:538:5: note: in expansion of macro 'CALLOC' 538 | CALLOC (perm, nseq_tot, int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:207:3: note: in expansion of macro 'CALLOC' 207 | CALLOC (curr_score, len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:427:3: note: in expansion of macro 'CALLOC' 427 | CALLOC(do_fuse,len_y,char); /* MARK POSITIONS TO FUSE seq_y TO seq_x */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld align_lpo_po2.c:438:69: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'int' [-Wformat=] 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); | ~~^ ~~~~~~~~~ | | | | long int int | %d default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:230:3: note: in expansion of macro 'CALLOC' 230 | CALLOC(pos_compact,seq->length,int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:334:3: note: in expansion of macro 'CALLOC' 334 | CALLOC (consens_row, max_aln_length, char); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:209:3: note: in expansion of macro 'CALLOC' 209 | CALLOC (prev_score, len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:347:3: note: in expansion of macro 'CALLOC' 347 | CALLOC (lposeq, 1, LPOSequence_T); | ^~~~~~ lpo.c: In function 'copy_fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:231:3: note: in expansion of macro 'CALLOC' 231 | CALLOC(ring_old,seq->length,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:500:3: note: in expansion of macro 'CALLOC' 500 | CALLOC(new_seq,1,LPOSequence_T); /* CREATE A NEW HOLDER */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:351:3: note: in expansion of macro 'CALLOC' 351 | CALLOC (lposeq->sequence, max_aln_length+1, char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:501:3: note: in expansion of macro 'CALLOC' 501 | CALLOC(new_x,len_x,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:369:3: note: in expansion of macro 'REALLOC' 369 | REALLOC (lposeq->sequence, len+1, char); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo_format.c: In function 'xlate_lpo_to_al': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:502:3: note: in expansion of macro 'CALLOC' 502 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:353:3: note: in expansion of macro 'CALLOC' 353 | CALLOC(seq_pos,seq->nsource_seq,char *); /* ALLOCATE MAP ARRAY*/ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:375:5: note: in expansion of macro 'CALLOC' 375 | CALLOC (curr_seq, 1, LPOSequence_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:354:3: note: in expansion of macro 'CALLOC' 354 | CALLOC(p,seq->nsource_seq*nring,char); | ^~~~~~ numeric_data.c: In function 'read_numeric_data': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld numeric_data.c:139:11: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 139 | fscanf(ifile," %lf",data->data+j); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:505:3: note: in expansion of macro 'CALLOC' 505 | CALLOC(new_lpo,new_len,LPOLetter_T); /* ALLOCATE NEW LINEARIZED PO */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:380:5: note: in expansion of macro 'CALLOC' 380 | CALLOC (curr_seq->sequence, aln_lengths[i]+1, char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:374:5: note: in expansion of macro 'CALLOC' 374 | CALLOC(include_in_save,nring,char); /* BLANK FLAGS: WHAT RINGS TO SHOW*/ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'copy_lpo': default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:398:5: note: in expansion of macro 'REALLOC' 398 | REALLOC (curr_seq->sequence, len+1, char); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:564:3: note: in expansion of macro 'CALLOC' 564 | CALLOC(x_to_y,holder_x->length,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:406:5: note: in expansion of macro 'CALLOC' 406 | CALLOC (al_x, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:407:5: note: in expansion of macro 'CALLOC' 407 | CALLOC (al_y, lposeq->length, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:618:3: note: in expansion of macro 'CALLOC' 618 | CALLOC(new_x,len_x,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:619:3: note: in expansion of macro 'CALLOC' 619 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld msa_format.c: In function 'filter_sequence_set': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:485:3: note: in expansion of macro 'CALLOC' 485 | CALLOC (keep_seq, n_seqs, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:622:3: note: in expansion of macro 'REALLOC' 622 | REALLOC(seq_x,new_len,LPOLetter_T); /* EXPAND seq_x TO HOLD FUSED LPO */ | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld 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] 61 | fscanf(ifile,"VERSION=%s",version); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:62:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 62 | fscanf(ifile," NAME=%[^\n]",name); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:63:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 63 | fscanf(ifile," TITLE=%[^\n]",title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:86:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 86 | fscanf(ifile,"%*[ \t]"); | ^~~~~~~~~~~~~~~~~~~~~~~ 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] 160 | fscanf(ifile,"VERSION=%s",version); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:161:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 161 | fscanf(ifile," NAME=%[^\n]",name); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:162:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 162 | fscanf(ifile," TITLE=%[^\n]",title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:185:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 185 | fscanf(ifile,"%*[ \t]"); | ^~~~~~~~~~~~~~~~~~~~~~~ main.c:225:30: warning: '%s' directive argument is null [-Wformat-overflow=] 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' 212 | (sprintf MESSAGE,\ | ^~~~~~~ main.c:225:58: note: format string is defined here 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~ 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/reproducible-path/poa-2.0+20060928' make[1]: Leaving directory '/build/reproducible-path/poa-2.0+20060928' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/poa-2.0+20060928' tmpfile=`mktemp` ; \ ./poa -read_fasta multidom.seq -clustal $tmpfile -v blosum80.mat ; \ if cmp $tmpfile /build/reproducible-path/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/reproducible-path/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.aiKOHkN4R5... 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/reproducible-path/poa-2.0+20060928' create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs dh_auto_install --destdir=debian/poa/ dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman 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 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' in '../poa_2.0+20060928-9_amd64.deb'. dpkg-deb: building package 'poa-dbgsym' in '../poa-dbgsym_2.0+20060928-9_amd64.deb'. dpkg-genbuildinfo --build=binary -O../poa_2.0+20060928-9_amd64.buildinfo dpkg-genchanges --build=binary -O../poa_2.0+20060928-9_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/813548 and its subdirectories I: Current time: Sat Dec 27 04:01:30 -12 2025 I: pbuilder-time-stamp: 1766851290 Sat Dec 27 16:01:30 UTC 2025 I: Signing ./b1/poa_2.0+20060928-9_amd64.buildinfo as poa_2.0+20060928-9_amd64.buildinfo.asc Sat Dec 27 16:01:30 UTC 2025 I: Signed ./b1/poa_2.0+20060928-9_amd64.buildinfo as ./b1/poa_2.0+20060928-9_amd64.buildinfo.asc Sat Dec 27 16:01:30 UTC 2025 - build #1 for poa/unstable/amd64 on ionos5-amd64 done. Starting cleanup. All cleanup done. Sat Dec 27 16:01:30 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-7xrdT80x, removing. /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 09:38 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 09:38 b2 -rw-r--r-- 1 jenkins jenkins 2145 Mar 13 2024 poa_2.0+20060928-9.dsc -rw------- 1 jenkins jenkins 3254 Nov 24 09:38 rbuildlog.gmWlqAt /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b1: total 348 -rw-r--r-- 1 jenkins jenkins 153898 Nov 24 09:38 build.log -rw-r--r-- 1 jenkins jenkins 100404 Nov 24 09:38 poa-dbgsym_2.0+20060928-9_amd64.deb -rw-r--r-- 1 jenkins jenkins 11704 Nov 24 09:38 poa_2.0+20060928-9.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2145 Nov 24 09:38 poa_2.0+20060928-9.dsc -rw-r--r-- 1 jenkins jenkins 4965 Nov 24 09:38 poa_2.0+20060928-9_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5847 Nov 24 09:38 poa_2.0+20060928-9_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1617 Nov 24 09:38 poa_2.0+20060928-9_amd64.changes -rw-r--r-- 1 jenkins jenkins 53384 Nov 24 09:38 poa_2.0+20060928-9_amd64.deb -rw-r--r-- 1 jenkins jenkins 1481 Nov 24 09:38 poa_2.0+20060928-9_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b2: total 0 Sun Nov 24 09:38:31 UTC 2024 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Dec 27 04:01:02 -12 2025 I: pbuilder-time-stamp: 1766851262 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [poa_2.0+20060928-9.dsc] I: copying [./poa_2.0+20060928.orig.tar.gz] I: copying [./poa_2.0+20060928-9.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Mar 13 21:30:56 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./poa_2.0+20060928-9.dsc: no acceptable signature found 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+20060928-9.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying gcc10.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying fix-declaration.patch dpkg-source: info: applying typo.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/813548/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='300636eb159a4707a4be3f1fa5876c23' 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='813548' 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.cwmlMUpG/pbuilderrc_HkTH --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b1 --logfile b1/build.log poa_2.0+20060928-9.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/813548/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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 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. 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} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{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, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.8 MB of archives. After unpacking 75.5 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Fetched 19.8 MB in 1s (33.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19966 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_amd64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-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 .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../23-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/poa-2.0+20060928/ && 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 > ../poa_2.0+20060928-9_source.changes dpkg-buildpackage: info: source package poa dpkg-buildpackage: info: source version 2.0+20060928-9 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j42 clean make[1]: Entering directory '/build/reproducible-path/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/reproducible-path/poa-2.0+20060928' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/poa-2.0+20060928' dh_auto_build -- poa make -j42 "INSTALL=install --strip-program=true" poa make[2]: Entering directory '/build/reproducible-path/poa-2.0+20060928' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o main.o main.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lpo.o lpo.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o numeric_data.o numeric_data.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o stringptr.o stringptr.c In file included from black_flag.c:4: black_flag.c: In function 'black_flag_init_args': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int black_flag.c:109:3: note: in expansion of macro 'CALLOC' 109 | CALLOC(Program_name,len,char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from align_lpo_po2.c:2: align_lpo_po2.c: In function 'get_lpo_stats': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:41:3: note: in expansion of macro 'CALLOC' 41 | CALLOC (node_type, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:42:3: note: in expansion of macro 'CALLOC' 42 | CALLOC (refs_from_right, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from lpo.c:3: lpo.c: In function 'lpo_init': In file included from buildup_lpo.c:3: buildup_lpo.c: In function 'clip_unaligned_ends': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:15:3: note: in expansion of macro 'CALLOC' 15 | CALLOC(seq->letter,seq->length,LPOLetter_T); | ^~~~~~ In file included from msa_format.h:17, from msa_format.c:17: msa_format.c: In function 'read_clustal': In file included from seq_util.c:2: seq_util.c: In function 'read_score_matrix': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:43:3: note: in expansion of macro 'CALLOC' 43 | CALLOC (tmp, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:146:3: note: in expansion of macro 'CALLOC' 146 | CALLOC(temp,seq->length,LPOLetter_T); /* ALLOCATE NEW letter[] COPY */ | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int seq_util.c:170:3: note: in expansion of macro 'CALLOC' 170 | CALLOC (m->gap_penalty_x, m->max_gap_length+2, LPOScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:169:7: note: in expansion of macro 'REALLOC' 169 | REALLOC (seq_names, n_seqs, char *); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:44:3: note: in expansion of macro 'CALLOC' 44 | CALLOC (left_links, len, LPOLetterLink_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:171:7: note: in expansion of macro 'REALLOC' 171 | REALLOC (seq_titles, n_seqs, char *); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from lpo_format.c:3: lpo_format.c: In function 'read_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int seq_util.c:171:3: note: in expansion of macro 'CALLOC' 171 | CALLOC (m->gap_penalty_y, m->max_gap_length+2, LPOScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:60:3: note: in expansion of macro 'CALLOC' 60 | CALLOC(seq,1,LPOSequence_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:71:7: note: in expansion of macro 'CALLOC' 71 | CALLOC (left_links[i], 1, LPOLetterLink_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:174:7: note: in expansion of macro 'REALLOC' 174 | REALLOC (aln_mat, n_seqs, char *); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:71:3: note: in expansion of macro 'CALLOC' 71 | CALLOC(seq->letter,length,LPOLetter_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'build_seq_to_po_index': align_lpo_po2.c: In function 'trace_back_lpo_alignment': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:120:3: note: in expansion of macro 'CALLOC' 120 | CALLOC (x_al, len_x, LPOLetterRef_T); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:176:7: note: in expansion of macro 'REALLOC' 176 | REALLOC (aln_lengths, n_seqs, int); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:157:5: note: in expansion of macro 'CALLOC' 157 | CALLOC(seq->source_seq[i].seq_to_po,seq->source_seq[i].length,int); | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from lpo.h:6, from main.c:3: main.c: In function 'main': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ lpo_format.c:72:3: note: in expansion of macro 'GETMEM' 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:121:3: note: in expansion of macro 'CALLOC' 121 | CALLOC (y_al, len_y, LPOLetterRef_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:158:5: note: in expansion of macro 'CALLOC' 158 | CALLOC(seq->source_seq[i].po_to_seq,seq->length,int); | ^~~~~~ default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | size_t {aka long unsigned int} 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:183:3: note: in expansion of macro 'CALLOC' 183 | CALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~ In file included from create_seq.c:3: create_seq.c: In function 'create_seq': ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ In file included from heaviest_bundle.c:3: heaviest_bundle.c: In function 'heaviest_bundle': default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ create_seq.c:29:3: note: in expansion of macro 'REBUFF' 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ | ^~~~~~ buildup_lpo.c: In function 'read_seqpair_scorefile': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:27:3: note: in expansion of macro 'CALLOC' 27 | CALLOC(path,len,LPOLetterRef_T); /* GET MEMORY FOR DYNAMIC PROGRAMMING */ | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:159:5: note: in expansion of macro 'CALLOC' 159 | CALLOC(seq->source_seq[i].sequence,seq->source_seq[i].length+1,char); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ lpo_format.c:72:3: note: in expansion of macro 'GETMEM' 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:327:3: note: in expansion of macro 'CALLOC' 327 | CALLOC (adj_score, nseq, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:73:3: note: in expansion of macro 'CALLOC' 73 | CALLOC(pos_count,nsource_seq,int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:28:3: note: in expansion of macro 'CALLOC' 28 | CALLOC(score,len,LPOScore_T); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ create_seq.c:29:3: note: in expansion of macro 'REBUFF' 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld align_lpo_po2.c: In function 'align_lpo_po': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:29:3: note: in expansion of macro 'CALLOC' 29 | CALLOC(contains_pos,nsource_seq,int); | ^~~~~~ In file included from align_lpo2.c:2: align_lpo2.c: In function 'get_seq_left_and_final': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:227:3: note: in expansion of macro 'CALLOC' 227 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:330:3: note: in expansion of macro 'CALLOC' 330 | CALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:60:3: note: in expansion of macro 'CALLOC' 60 | CALLOC (is_final_node_x, len_x, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'save_lpo_source': In file included from stringptr.c:2: stringptr.c: In function 'stringptr_cat_pos': In file included from remove_bundle.c:4: remove_bundle.c: In function 'compact_links': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int stringptr.c:30:3: note: in expansion of macro 'CALLOC' 30 | CALLOC(s2_temp,s2_len,char); /* ALLOCATE TEMP STORAGE */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:16:3: note: in expansion of macro 'CALLOC' 16 | CALLOC(link,1,LPOLetterLink_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ lpo.c:189:3: note: in expansion of macro 'REBUFF' 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:221:9: note: in expansion of macro 'REALLOC' 221 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~~ ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:66:3: note: in expansion of macro 'CALLOC' 66 | CALLOC (x_left, len_x, LPOLetterLink_T *); | ^~~~~~ msa_format.c: In function 'read_pir': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:228:3: note: in expansion of macro 'CALLOC' 228 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:248:7: note: in expansion of macro 'REALLOC' 248 | REALLOC (seq_names, n_seqs, char *); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from ./default.h:16: main.c:225:30: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'FILE *' [-Wformat=] 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 | po_list_file),"$Revision: 1.2.2.9 $"); | ~~~~~~~~~~~~ | | | FILE * ./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' 212 | (sprintf MESSAGE,\ | ^~~~~~~ main.c:225:59: note: format string is defined here 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ~^ | | | char * default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:353:9: note: in expansion of macro 'REALLOC' 353 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ lpo.c:189:3: note: in expansion of macro 'REBUFF' 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:40:3: note: in expansion of macro 'GETMEM' 40 | GETMEM(s1->p,total_len, | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld remove_bundle.c: In function 'compact_sources': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:70:7: note: in expansion of macro 'CALLOC' 70 | CALLOC (x_left[i], 1, LPOLetterLink_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:59:3: note: in expansion of macro 'CALLOC' 59 | CALLOC(source,1,LPOLetterSource_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:67:3: note: in expansion of macro 'CALLOC' 67 | CALLOC(best_path,len,LPOLetterRef_T); /* MEMORY FOR STORING BEST PATH */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:254:3: note: in expansion of macro 'CALLOC' 254 | CALLOC (move, len_y, DPMove_T *); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:250:7: note: in expansion of macro 'REALLOC' 250 | REALLOC (seq_titles, n_seqs, char *); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:40:3: note: in expansion of macro 'GETMEM' 40 | GETMEM(s1->p,total_len, | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo_format.c: In function 'read_lpo_select': ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:254:9: note: in expansion of macro 'REALLOC' 254 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:374:9: note: in expansion of macro 'REALLOC' 374 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ align_lpo2.c: In function 'trace_back_lpo_alignment': lpo.c: In function 'save_lpo_source_list': ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:159:3: note: in expansion of macro 'CALLOC' 159 | CALLOC(seq,1,LPOSequence_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:96:3: note: in expansion of macro 'CALLOC' 96 | CALLOC (x_al, len_x, LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:213:3: note: in expansion of macro 'CALLOC' 213 | CALLOC(list,nsource_seq,int); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:252:7: note: in expansion of macro 'REALLOC' 252 | REALLOC (aln_mat, n_seqs, char *); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:256:5: note: in expansion of macro 'CALLOC' 256 | CALLOC (move[i], len_x, DPMove_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld heaviest_bundle.c: In function 'assign_sequence_bundle_id': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:97:3: note: in expansion of macro 'CALLOC' 97 | CALLOC (y_al, len_y, LPOLetterRef_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:90:3: note: in expansion of macro 'CALLOC' 90 | CALLOC(bundle_count,seq->nsource_seq,int); | ^~~~~~ stringptr.c: In function 'stringptr_cpy': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:170:3: note: in expansion of macro 'CALLOC' 170 | CALLOC(seq->letter,length,LPOLetter_T); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:254:7: note: in expansion of macro 'REALLOC' 254 | REALLOC (aln_lengths, n_seqs, int); | ^~~~~~~ default.h:148:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 | __FILE__,__LINE__,STRINGIFY(memptr),(N)); \ | ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:148:68: note: format string is defined here 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:259:3: note: in expansion of macro 'CALLOC' 259 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ lpo.c: In function 'add_lpo_link': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:394:9: note: in expansion of macro 'REALLOC' 394 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:238:3: note: in expansion of macro 'CALLOC' 238 | CALLOC(list->more,1,LPOLetterLink_T); /* ADD ENTRY TO LINKED LIST */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ remove_bundle.c: In function 'remove_bundle': default.h:155:49: note: format string is defined here 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ lpo_format.c:171:3: note: in expansion of macro 'GETMEM' 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:262:3: note: in expansion of macro 'CALLOC' 262 | CALLOC (score_rows, len_y+1, DPScore_T *); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:128:3: note: in expansion of macro 'CALLOC' 128 | CALLOC(old_to_new,seq->length,int); /* CREATE MAPPING ARRAY */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'add_lpo_sources': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:32: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ align_lpo2.c: In function 'align_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ buildup_lpo.c: In function 'buildup_progressive_lpo': default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:252:7: note: in expansion of macro 'CALLOC' 252 | CALLOC(new_s->more,1,LPOLetterSource_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:264:3: note: in expansion of macro 'CALLOC' 264 | CALLOC (score_rows[-1], len_x+1, DPScore_T); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ lpo_format.c:171:3: note: in expansion of macro 'GETMEM' 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:185:3: note: in expansion of macro 'CALLOC' 185 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:445:3: note: in expansion of macro 'CALLOC' 445 | CALLOC(seq_cluster,nseq,int); /* MAPS SEQS (or CLUSTERS) TO CLUSTER THEY'RE IN */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'reindex_lpo_source_seqs': default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:172:3: note: in expansion of macro 'CALLOC' 172 | CALLOC(pos_count,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:186:3: note: in expansion of macro 'CALLOC' 186 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:446:3: note: in expansion of macro 'CALLOC' 446 | CALLOC(seq_id_in_cluster,nseq,int); /* INDEXES SEQS (or CLUSTERS) WITHIN EACH CLUSTER */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:270:3: note: in expansion of macro 'CALLOC' 270 | CALLOC (map, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:312:5: note: in expansion of macro 'CALLOC' 312 | CALLOC (score_rows[i], len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:196:3: note: in expansion of macro 'CALLOC' 196 | CALLOC(iseq_compact,nsource_seq,int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:447:3: note: in expansion of macro 'CALLOC' 447 | CALLOC(cluster_size,nseq,int); /* COUNTS SEQS IN SAME CLUSTER (updated w/ merges) */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:271:3: note: in expansion of macro 'CALLOC' 271 | CALLOC (invmap, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld msa_format.c: In function 'lpo_from_aln_mat': In file included from ./lpo.h:6, from numeric_data.c:3: numeric_data.c: In function 'new_numeric_data': ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int ./default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ numeric_data.c:18:3: note: in expansion of macro 'REBUFF' 18 | REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:199:3: note: in expansion of macro 'CALLOC' 199 | CALLOC (move, len_y, DPMove_T *); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:318:3: note: in expansion of macro 'CALLOC' 318 | CALLOC (column_ids, n_seqs+1, int *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:448:3: note: in expansion of macro 'CALLOC' 448 | CALLOC(initial_nseq,nseq,int); /* COUNTS SEQS INITIALLY IN EACH CLUSTER (not updated w/ merges) */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:197:3: note: in expansion of macro 'CALLOC' 197 | CALLOC(last_pos,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:319:3: note: in expansion of macro 'CALLOC' 319 | CALLOC (res_ids, n_seqs+1, int *); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:201:5: note: in expansion of macro 'CALLOC' 201 | CALLOC (move[i], len_x, DPMove_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:198:3: note: in expansion of macro 'CALLOC' 198 | CALLOC(match_pos,nsource_seq,int); | ^~~~~~ ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int ./default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ numeric_data.c:18:3: note: in expansion of macro 'REBUFF' 18 | REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); | ^~~~~~ ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int numeric_data.c:25:3: note: in expansion of macro 'CALLOC' 25 | CALLOC(data->data,source_seq->length,double); /* ALLOCATE THE ARRAY */ | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:326:5: note: in expansion of macro 'CALLOC' 326 | CALLOC (column_ids[i], max_aln_length, int); | ^~~~~~ align_lpo_po2.c:438:44: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=] 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); | ~~^ ~~~~~~~~~ | | | | long int int | %d default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:204:3: note: in expansion of macro 'CALLOC' 204 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'reindex_lpo_fusion': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:229:3: note: in expansion of macro 'CALLOC' 229 | CALLOC(link_list,seq->length,int); /*TEMPORARY DATA FOR COMPACTION MAPPING */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:327:5: note: in expansion of macro 'CALLOC' 327 | CALLOC (res_ids[i], max_aln_length, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:538:5: note: in expansion of macro 'CALLOC' 538 | CALLOC (perm, nseq_tot, int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:207:3: note: in expansion of macro 'CALLOC' 207 | CALLOC (curr_score, len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:427:3: note: in expansion of macro 'CALLOC' 427 | CALLOC(do_fuse,len_y,char); /* MARK POSITIONS TO FUSE seq_y TO seq_x */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld align_lpo_po2.c:438:69: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'int' [-Wformat=] 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); | ~~^ ~~~~~~~~~ | | | | long int int | %d default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:230:3: note: in expansion of macro 'CALLOC' 230 | CALLOC(pos_compact,seq->length,int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:334:3: note: in expansion of macro 'CALLOC' 334 | CALLOC (consens_row, max_aln_length, char); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:209:3: note: in expansion of macro 'CALLOC' 209 | CALLOC (prev_score, len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:347:3: note: in expansion of macro 'CALLOC' 347 | CALLOC (lposeq, 1, LPOSequence_T); | ^~~~~~ lpo.c: In function 'copy_fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:231:3: note: in expansion of macro 'CALLOC' 231 | CALLOC(ring_old,seq->length,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:500:3: note: in expansion of macro 'CALLOC' 500 | CALLOC(new_seq,1,LPOSequence_T); /* CREATE A NEW HOLDER */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:351:3: note: in expansion of macro 'CALLOC' 351 | CALLOC (lposeq->sequence, max_aln_length+1, char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:501:3: note: in expansion of macro 'CALLOC' 501 | CALLOC(new_x,len_x,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:369:3: note: in expansion of macro 'REALLOC' 369 | REALLOC (lposeq->sequence, len+1, char); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo_format.c: In function 'xlate_lpo_to_al': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:502:3: note: in expansion of macro 'CALLOC' 502 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:353:3: note: in expansion of macro 'CALLOC' 353 | CALLOC(seq_pos,seq->nsource_seq,char *); /* ALLOCATE MAP ARRAY*/ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:375:5: note: in expansion of macro 'CALLOC' 375 | CALLOC (curr_seq, 1, LPOSequence_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:354:3: note: in expansion of macro 'CALLOC' 354 | CALLOC(p,seq->nsource_seq*nring,char); | ^~~~~~ numeric_data.c: In function 'read_numeric_data': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld numeric_data.c:139:11: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 139 | fscanf(ifile," %lf",data->data+j); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:505:3: note: in expansion of macro 'CALLOC' 505 | CALLOC(new_lpo,new_len,LPOLetter_T); /* ALLOCATE NEW LINEARIZED PO */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:380:5: note: in expansion of macro 'CALLOC' 380 | CALLOC (curr_seq->sequence, aln_lengths[i]+1, char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:374:5: note: in expansion of macro 'CALLOC' 374 | CALLOC(include_in_save,nring,char); /* BLANK FLAGS: WHAT RINGS TO SHOW*/ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'copy_lpo': default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:398:5: note: in expansion of macro 'REALLOC' 398 | REALLOC (curr_seq->sequence, len+1, char); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:564:3: note: in expansion of macro 'CALLOC' 564 | CALLOC(x_to_y,holder_x->length,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:406:5: note: in expansion of macro 'CALLOC' 406 | CALLOC (al_x, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:407:5: note: in expansion of macro 'CALLOC' 407 | CALLOC (al_y, lposeq->length, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:618:3: note: in expansion of macro 'CALLOC' 618 | CALLOC(new_x,len_x,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:619:3: note: in expansion of macro 'CALLOC' 619 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld msa_format.c: In function 'filter_sequence_set': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:485:3: note: in expansion of macro 'CALLOC' 485 | CALLOC (keep_seq, n_seqs, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:622:3: note: in expansion of macro 'REALLOC' 622 | REALLOC(seq_x,new_len,LPOLetter_T); /* EXPAND seq_x TO HOLD FUSED LPO */ | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld 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] 61 | fscanf(ifile,"VERSION=%s",version); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:62:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 62 | fscanf(ifile," NAME=%[^\n]",name); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:63:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 63 | fscanf(ifile," TITLE=%[^\n]",title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:86:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 86 | fscanf(ifile,"%*[ \t]"); | ^~~~~~~~~~~~~~~~~~~~~~~ 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] 160 | fscanf(ifile,"VERSION=%s",version); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:161:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 161 | fscanf(ifile," NAME=%[^\n]",name); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:162:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 162 | fscanf(ifile," TITLE=%[^\n]",title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:185:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 185 | fscanf(ifile,"%*[ \t]"); | ^~~~~~~~~~~~~~~~~~~~~~~ main.c:225:30: warning: '%s' directive argument is null [-Wformat-overflow=] 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' 212 | (sprintf MESSAGE,\ | ^~~~~~~ main.c:225:58: note: format string is defined here 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~ 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/reproducible-path/poa-2.0+20060928' make[1]: Leaving directory '/build/reproducible-path/poa-2.0+20060928' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/poa-2.0+20060928' tmpfile=`mktemp` ; \ ./poa -read_fasta multidom.seq -clustal $tmpfile -v blosum80.mat ; \ if cmp $tmpfile /build/reproducible-path/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/reproducible-path/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.aiKOHkN4R5... 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/reproducible-path/poa-2.0+20060928' create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs dh_auto_install --destdir=debian/poa/ dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman 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 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' in '../poa_2.0+20060928-9_amd64.deb'. dpkg-deb: building package 'poa-dbgsym' in '../poa-dbgsym_2.0+20060928-9_amd64.deb'. dpkg-genbuildinfo --build=binary -O../poa_2.0+20060928-9_amd64.buildinfo dpkg-genchanges --build=binary -O../poa_2.0+20060928-9_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/813548 and its subdirectories I: Current time: Sat Dec 27 04:01:30 -12 2025 I: pbuilder-time-stamp: 1766851290 Sun Nov 24 09:38:31 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Sun Nov 24 09:38:31 UTC 2024 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Sun Nov 24 09:38:31 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sun Nov 24 09:38:31 UTC 2024 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-VnLFff' ==================================================================================== Sun Nov 24 09:38:33 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "2 poa unstable /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG 2.0+20060928-9" as arguments. Sun Nov 24 09:38:33 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-vOv5rBx8" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Nov 24 09:38:33 UTC 2024 I: Downloading source for unstable/poa=2.0+20060928-9 Reading package lists... NOTICE: 'poa' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/poa.git Please use: git clone https://salsa.debian.org/med-team/poa.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 76.5 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (dsc) [2145 B] Get:2 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (tar) [62.6 kB] Get:3 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (diff) [11.7 kB] Fetched 76.5 kB in 0s (1957 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'poa' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/poa.git Please use: git clone https://salsa.debian.org/med-team/poa.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 76.5 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (dsc) [2145 B] Get:2 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (tar) [62.6 kB] Get:3 http://deb.debian.org/debian unstable/main poa 2.0+20060928-9 (diff) [11.7 kB] Fetched 76.5 kB in 0s (1957 kB/s) Download complete and in download only mode ============================================================================= Re-Building poa in unstable on amd64 on ionos1-amd64 now. Date: Sun Nov 24 09:38:34 UTC 2024 Date UTC: Sun Nov 24 09:38:34 UTC 2024 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/pbuilderrc_A6vK + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' poa = debian-installer -o poa = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' poa = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/pbuilderrc_A6vK --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b2 --logfile b2/build.log poa_2.0+20060928-9.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Sun Nov 24 23:38:34 +14 2024 I: pbuilder-time-stamp: 1732441114 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [poa_2.0+20060928-9.dsc] I: copying [./poa_2.0+20060928.orig.tar.gz] I: copying [./poa_2.0+20060928-9.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Mar 13 21:30:56 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./poa_2.0+20060928-9.dsc: no acceptable signature found 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+20060928-9.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying gcc10.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying fix-declaration.patch dpkg-source: info: applying typo.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Nov 24 09:38 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=331d359baae043b5aac86e7d0816bafd LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=1922306 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/pbuilderrc_A6vK --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b2 --logfile b2/build.log poa_2.0+20060928-9.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1922306/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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 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. 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} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{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, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.8 MB of archives. After unpacking 75.5 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Fetched 19.8 MB in 0s (71.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19966 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. 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Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-11) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.20) ... Processing triggers for libc-bin (2.40-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/poa-2.0+20060928/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../poa_2.0+20060928-9_source.changes dpkg-buildpackage: info: source package poa dpkg-buildpackage: info: source version 2.0+20060928-9 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j20 clean make[1]: Entering directory '/build/reproducible-path/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/reproducible-path/poa-2.0+20060928' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/poa-2.0+20060928' dh_auto_build -- poa make -j20 "INSTALL=install --strip-program=true" poa make[2]: Entering directory '/build/reproducible-path/poa-2.0+20060928' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o main.o main.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o lpo.o lpo.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o numeric_data.o numeric_data.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o stringptr.o stringptr.c In file included from stringptr.c:2: stringptr.c: In function 'stringptr_cat_pos': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int stringptr.c:30:3: note: in expansion of macro 'CALLOC' 30 | CALLOC(s2_temp,s2_len,char); /* ALLOCATE TEMP STORAGE */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:40:3: note: in expansion of macro 'GETMEM' 40 | GETMEM(s1->p,total_len, | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:40:3: note: in expansion of macro 'GETMEM' 40 | GETMEM(s1->p,total_len, | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld stringptr.c: In function 'stringptr_cpy': default.h:148:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 | __FILE__,__LINE__,STRINGIFY(memptr),(N)); \ | ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:148:68: note: format string is defined here 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld In file included from ./lpo.h:6, from numeric_data.c:3: numeric_data.c: In function 'new_numeric_data': In file included from align_lpo2.c:2: align_lpo2.c: In function 'get_seq_left_and_final': ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int ./default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ numeric_data.c:18:3: note: in expansion of macro 'REBUFF' 18 | 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 'size_t' {aka 'long unsigned int'} [-Wformat=] 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:60:3: note: in expansion of macro 'CALLOC' 60 | CALLOC (is_final_node_x, len_x, int); | ^~~~~~ ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:155:49: note: format string is defined here 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:32: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:66:3: note: in expansion of macro 'CALLOC' 66 | CALLOC (x_left, len_x, LPOLetterLink_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int ./default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ numeric_data.c:18:3: note: in expansion of macro 'REBUFF' 18 | REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); | ^~~~~~ ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:70:7: note: in expansion of macro 'CALLOC' 70 | CALLOC (x_left[i], 1, LPOLetterLink_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int numeric_data.c:25:3: note: in expansion of macro 'CALLOC' 25 | CALLOC(data->data,source_seq->length,double); /* ALLOCATE THE ARRAY */ | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ stringptr.c:67:3: note: in expansion of macro 'GETMEM' 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld align_lpo2.c: In function 'trace_back_lpo_alignment': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:96:3: note: in expansion of macro 'CALLOC' 96 | CALLOC (x_al, len_x, LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:97:3: note: in expansion of macro 'CALLOC' 97 | CALLOC (y_al, len_y, LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from heaviest_bundle.c:3: heaviest_bundle.c: In function 'heaviest_bundle': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:27:3: note: in expansion of macro 'CALLOC' 27 | CALLOC(path,len,LPOLetterRef_T); /* GET MEMORY FOR DYNAMIC PROGRAMMING */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:28:3: note: in expansion of macro 'CALLOC' 28 | CALLOC(score,len,LPOScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld align_lpo2.c: In function 'align_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:29:3: note: in expansion of macro 'CALLOC' 29 | CALLOC(contains_pos,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:185:3: note: in expansion of macro 'CALLOC' 185 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from lpo.h:6, from main.c:3: main.c: In function 'main': In file included from msa_format.h:17, from msa_format.c:17: msa_format.c: In function 'read_clustal': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:186:3: note: in expansion of macro 'CALLOC' 186 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); | ^~~~~~ ./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:183:3: note: in expansion of macro 'CALLOC' 183 | CALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:169:7: note: in expansion of macro 'REALLOC' 169 | REALLOC (seq_names, n_seqs, char *); | ^~~~~~~ ./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:199:3: note: in expansion of macro 'CALLOC' 199 | CALLOC (move, len_y, DPMove_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:171:7: note: in expansion of macro 'REALLOC' 171 | REALLOC (seq_titles, n_seqs, char *); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:201:5: note: in expansion of macro 'CALLOC' 201 | CALLOC (move[i], len_x, DPMove_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:221:9: note: in expansion of macro 'REALLOC' 221 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~~ ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:174:7: note: in expansion of macro 'REALLOC' 174 | REALLOC (aln_mat, n_seqs, char *); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from ./default.h:16: main.c:225:30: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'FILE *' [-Wformat=] 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 | po_list_file),"$Revision: 1.2.2.9 $"); | ~~~~~~~~~~~~ | | | FILE * ./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' 212 | (sprintf MESSAGE,\ | ^~~~~~~ main.c:225:59: note: format string is defined here 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ~^ | | | char * default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:204:3: note: in expansion of macro 'CALLOC' 204 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:176:7: note: in expansion of macro 'REALLOC' 176 | REALLOC (aln_lengths, n_seqs, int); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:207:3: note: in expansion of macro 'CALLOC' 207 | CALLOC (curr_score, len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld ./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int main.c:254:9: note: in expansion of macro 'REALLOC' 254 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); | ^~~~~~~ ./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | size_t {aka long unsigned int} 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo2.c:209:3: note: in expansion of macro 'CALLOC' 209 | CALLOC (prev_score, len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:185:5: note: in expansion of macro 'REALLOC' 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld numeric_data.c: In function 'read_numeric_data': numeric_data.c:139:11: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 139 | fscanf(ifile," %lf",data->data+j); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:67:3: note: in expansion of macro 'CALLOC' 67 | CALLOC(best_path,len,LPOLetterRef_T); /* MEMORY FOR STORING BEST PATH */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from align_lpo_po2.c:2: align_lpo_po2.c: In function 'get_lpo_stats': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:41:3: note: in expansion of macro 'CALLOC' 41 | CALLOC (node_type, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:42:3: note: in expansion of macro 'CALLOC' 42 | CALLOC (refs_from_right, len, int); | ^~~~~~ heaviest_bundle.c: In function 'assign_sequence_bundle_id': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld msa_format.c: In function 'read_pir': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int heaviest_bundle.c:90:3: note: in expansion of macro 'CALLOC' 90 | CALLOC(bundle_count,seq->nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:248:7: note: in expansion of macro 'REALLOC' 248 | REALLOC (seq_names, n_seqs, char *); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:43:3: note: in expansion of macro 'CALLOC' 43 | CALLOC (tmp, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:44:3: note: in expansion of macro 'CALLOC' 44 | CALLOC (left_links, len, LPOLetterLink_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:250:7: note: in expansion of macro 'REALLOC' 250 | REALLOC (seq_titles, n_seqs, char *); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from seq_util.c:2: seq_util.c: In function 'read_score_matrix': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int seq_util.c:170:3: note: in expansion of macro 'CALLOC' 170 | CALLOC (m->gap_penalty_x, m->max_gap_length+2, LPOScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:252:7: note: in expansion of macro 'REALLOC' 252 | REALLOC (aln_mat, n_seqs, char *); | ^~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int seq_util.c:171:3: note: in expansion of macro 'CALLOC' 171 | CALLOC (m->gap_penalty_y, m->max_gap_length+2, LPOScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:254:7: note: in expansion of macro 'REALLOC' 254 | REALLOC (aln_lengths, n_seqs, int); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ | ~~~~~ msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:185:68: note: format string is defined here 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:197:34: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:268:7: note: in expansion of macro 'REALLOC' 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld msa_format.c: In function 'lpo_from_aln_mat': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:318:3: note: in expansion of macro 'CALLOC' 318 | CALLOC (column_ids, n_seqs+1, int *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:71:7: note: in expansion of macro 'CALLOC' 71 | CALLOC (left_links[i], 1, LPOLetterLink_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld align_lpo_po2.c: In function 'trace_back_lpo_alignment': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:120:3: note: in expansion of macro 'CALLOC' 120 | CALLOC (x_al, len_x, LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from remove_bundle.c:4: remove_bundle.c: In function 'compact_links': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:16:3: note: in expansion of macro 'CALLOC' 16 | CALLOC(link,1,LPOLetterLink_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:121:3: note: in expansion of macro 'CALLOC' 121 | CALLOC (y_al, len_y, LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:319:3: note: in expansion of macro 'CALLOC' 319 | CALLOC (res_ids, n_seqs+1, int *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld remove_bundle.c: In function 'compact_sources': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:59:3: note: in expansion of macro 'CALLOC' 59 | CALLOC(source,1,LPOLetterSource_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld align_lpo_po2.c: In function 'align_lpo_po': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:326:5: note: in expansion of macro 'CALLOC' 326 | CALLOC (column_ids[i], max_aln_length, int); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:227:3: note: in expansion of macro 'CALLOC' 227 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld remove_bundle.c: In function 'remove_bundle': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int remove_bundle.c:128:3: note: in expansion of macro 'CALLOC' 128 | CALLOC(old_to_new,seq->length,int); /* CREATE MAPPING ARRAY */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:327:5: note: in expansion of macro 'CALLOC' 327 | CALLOC (res_ids[i], max_aln_length, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:228:3: note: in expansion of macro 'CALLOC' 228 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from lpo.c:3: lpo.c: In function 'lpo_init': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:334:3: note: in expansion of macro 'CALLOC' 334 | CALLOC (consens_row, max_aln_length, char); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:15:3: note: in expansion of macro 'CALLOC' 15 | CALLOC(seq->letter,seq->length,LPOLetter_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:347:3: note: in expansion of macro 'CALLOC' 347 | CALLOC (lposeq, 1, LPOSequence_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:351:3: note: in expansion of macro 'CALLOC' 351 | CALLOC (lposeq->sequence, max_aln_length+1, char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'build_seq_to_po_index': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:157:5: note: in expansion of macro 'CALLOC' 157 | CALLOC(seq->source_seq[i].seq_to_po,seq->source_seq[i].length,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:158:5: note: in expansion of macro 'CALLOC' 158 | CALLOC(seq->source_seq[i].po_to_seq,seq->length,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:369:3: note: in expansion of macro 'REALLOC' 369 | REALLOC (lposeq->sequence, len+1, char); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:159:5: note: in expansion of macro 'CALLOC' 159 | CALLOC(seq->source_seq[i].sequence,seq->source_seq[i].length+1,char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:375:5: note: in expansion of macro 'CALLOC' 375 | CALLOC (curr_seq, 1, LPOSequence_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:380:5: note: in expansion of macro 'CALLOC' 380 | CALLOC (curr_seq->sequence, aln_lengths[i]+1, char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:254:3: note: in expansion of macro 'CALLOC' 254 | CALLOC (move, len_y, DPMove_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:256:5: note: in expansion of macro 'CALLOC' 256 | CALLOC (move[i], len_x, DPMove_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:259:3: note: in expansion of macro 'CALLOC' 259 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:262:3: note: in expansion of macro 'CALLOC' 262 | CALLOC (score_rows, len_y+1, DPScore_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:264:3: note: in expansion of macro 'CALLOC' 264 | CALLOC (score_rows[-1], len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:398:5: note: in expansion of macro 'REALLOC' 398 | REALLOC (curr_seq->sequence, len+1, char); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int align_lpo_po2.c:312:5: note: in expansion of macro 'CALLOC' 312 | CALLOC (score_rows[i], len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:406:5: note: in expansion of macro 'CALLOC' 406 | CALLOC (al_x, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:407:5: note: in expansion of macro 'CALLOC' 407 | CALLOC (al_y, lposeq->length, int); | ^~~~~~ align_lpo_po2.c:438:44: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=] 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); | ~~^ ~~~~~~~~~ | | | | long int int | %d align_lpo_po2.c:438:69: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'int' [-Wformat=] 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); | ~~^ ~~~~~~~~~ | | | | long int int | %d default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from create_seq.c:3: create_seq.c: In function 'create_seq': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ create_seq.c:29:3: note: in expansion of macro 'REBUFF' 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ create_seq.c:29:3: note: in expansion of macro 'REBUFF' 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'save_lpo_source': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ lpo.c:189:3: note: in expansion of macro 'REBUFF' 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from black_flag.c:4: black_flag.c: In function 'black_flag_init_args': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int black_flag.c:109:3: note: in expansion of macro 'CALLOC' 109 | CALLOC(Program_name,len,char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:216:5: note: in expansion of macro 'REALLOC' 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ | ^~~~~~~ lpo.c:189:3: note: in expansion of macro 'REBUFF' 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld msa_format.c: In function 'filter_sequence_set': lpo.c: In function 'save_lpo_source_list': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int msa_format.c:485:3: note: in expansion of macro 'CALLOC' 485 | CALLOC (keep_seq, n_seqs, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:213:3: note: in expansion of macro 'CALLOC' 213 | CALLOC(list,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'add_lpo_link': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:238:3: note: in expansion of macro 'CALLOC' 238 | CALLOC(list->more,1,LPOLetterLink_T); /* ADD ENTRY TO LINKED LIST */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'add_lpo_sources': In file included from lpo_format.c:3: lpo_format.c: In function 'read_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:60:3: note: in expansion of macro 'CALLOC' 60 | CALLOC(seq,1,LPOSequence_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:71:3: note: in expansion of macro 'CALLOC' 71 | CALLOC(seq->letter,length,LPOLetter_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ lpo_format.c:72:3: note: in expansion of macro 'GETMEM' 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ lpo_format.c:72:3: note: in expansion of macro 'GETMEM' 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:73:3: note: in expansion of macro 'CALLOC' 73 | CALLOC(pos_count,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:252:7: note: in expansion of macro 'CALLOC' 252 | CALLOC(new_s->more,1,LPOLetterSource_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'reindex_lpo_source_seqs': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:270:3: note: in expansion of macro 'CALLOC' 270 | CALLOC (map, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:271:3: note: in expansion of macro 'CALLOC' 271 | CALLOC (invmap, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld In file included from buildup_lpo.c:3: buildup_lpo.c: In function 'clip_unaligned_ends': lpo_format.c: In function 'read_lpo_select': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:159:3: note: in expansion of macro 'CALLOC' 159 | CALLOC(seq,1,LPOSequence_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:146:3: note: in expansion of macro 'CALLOC' 146 | CALLOC(temp,seq->length,LPOLetter_T); /* ALLOCATE NEW letter[] COPY */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:170:3: note: in expansion of macro 'CALLOC' 170 | CALLOC(seq->letter,length,LPOLetter_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld buildup_lpo.c: In function 'read_seqpair_scorefile': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:327:3: note: in expansion of macro 'CALLOC' 327 | CALLOC (adj_score, nseq, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:330:3: note: in expansion of macro 'CALLOC' 330 | CALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:353:9: note: in expansion of macro 'REALLOC' 353 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:242:5: note: in expansion of macro 'CALLOC' 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~ lpo_format.c:171:3: note: in expansion of macro 'GETMEM' 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'reindex_lpo_fusion': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:427:3: note: in expansion of macro 'CALLOC' 427 | CALLOC(do_fuse,len_y,char); /* MARK POSITIONS TO FUSE seq_y TO seq_x */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int default.h:246:5: note: in expansion of macro 'REALLOC' 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ lpo_format.c:171:3: note: in expansion of macro 'GETMEM' 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:172:3: note: in expansion of macro 'CALLOC' 172 | CALLOC(pos_count,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'copy_fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:500:3: note: in expansion of macro 'CALLOC' 500 | CALLOC(new_seq,1,LPOSequence_T); /* CREATE A NEW HOLDER */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:196:3: note: in expansion of macro 'CALLOC' 196 | CALLOC(iseq_compact,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:501:3: note: in expansion of macro 'CALLOC' 501 | CALLOC(new_x,len_x,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:197:3: note: in expansion of macro 'CALLOC' 197 | CALLOC(last_pos,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:198:3: note: in expansion of macro 'CALLOC' 198 | CALLOC(match_pos,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:502:3: note: in expansion of macro 'CALLOC' 502 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:229:3: note: in expansion of macro 'CALLOC' 229 | CALLOC(link_list,seq->length,int); /*TEMPORARY DATA FOR COMPACTION MAPPING */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:374:9: note: in expansion of macro 'REALLOC' 374 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:505:3: note: in expansion of macro 'CALLOC' 505 | CALLOC(new_lpo,new_len,LPOLetter_T); /* ALLOCATE NEW LINEARIZED PO */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:230:3: note: in expansion of macro 'CALLOC' 230 | CALLOC(pos_compact,seq->length,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:231:3: note: in expansion of macro 'CALLOC' 231 | CALLOC(ring_old,seq->length,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:394:9: note: in expansion of macro 'REALLOC' 394 | REALLOC (score_list, max_nscore, SeqPairScore_T); | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'copy_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:564:3: note: in expansion of macro 'CALLOC' 564 | CALLOC(x_to_y,holder_x->length,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld buildup_lpo.c: In function 'buildup_progressive_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:445:3: note: in expansion of macro 'CALLOC' 445 | CALLOC(seq_cluster,nseq,int); /* MAPS SEQS (or CLUSTERS) TO CLUSTER THEY'RE IN */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo.c: In function 'fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:446:3: note: in expansion of macro 'CALLOC' 446 | CALLOC(seq_id_in_cluster,nseq,int); /* INDEXES SEQS (or CLUSTERS) WITHIN EACH CLUSTER */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld lpo_format.c: In function 'xlate_lpo_to_al': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:618:3: note: in expansion of macro 'CALLOC' 618 | CALLOC(new_x,len_x,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:353:3: note: in expansion of macro 'CALLOC' 353 | CALLOC(seq_pos,seq->nsource_seq,char *); /* ALLOCATE MAP ARRAY*/ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:447:3: note: in expansion of macro 'CALLOC' 447 | CALLOC(cluster_size,nseq,int); /* COUNTS SEQS IN SAME CLUSTER (updated w/ merges) */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:354:3: note: in expansion of macro 'CALLOC' 354 | CALLOC(p,seq->nsource_seq*nring,char); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:448:3: note: in expansion of macro 'CALLOC' 448 | CALLOC(initial_nseq,nseq,int); /* COUNTS SEQS INITIALLY IN EACH CLUSTER (not updated w/ merges) */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:619:3: note: in expansion of macro 'CALLOC' 619 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo_format.c:374:5: note: in expansion of macro 'CALLOC' 374 | CALLOC(include_in_save,nring,char); /* BLANK FLAGS: WHAT RINGS TO SHOW*/ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int lpo.c:622:3: note: in expansion of macro 'REALLOC' 622 | REALLOC(seq_x,new_len,LPOLetter_T); /* EXPAND seq_x TO HOLD FUSED LPO */ | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int buildup_lpo.c:538:5: note: in expansion of macro 'CALLOC' 538 | CALLOC (perm, nseq_tot, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld 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] 61 | fscanf(ifile,"VERSION=%s",version); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:62:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 62 | fscanf(ifile," NAME=%[^\n]",name); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:63:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 63 | fscanf(ifile," TITLE=%[^\n]",title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:86:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 86 | fscanf(ifile,"%*[ \t]"); | ^~~~~~~~~~~~~~~~~~~~~~~ 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] 160 | fscanf(ifile,"VERSION=%s",version); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:161:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 161 | fscanf(ifile," NAME=%[^\n]",name); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:162:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 162 | fscanf(ifile," TITLE=%[^\n]",title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lpo_format.c:185:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 185 | fscanf(ifile,"%*[ \t]"); | ^~~~~~~~~~~~~~~~~~~~~~~ main.c:225:30: warning: '%s' directive argument is null [-Wformat-overflow=] 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' 212 | (sprintf MESSAGE,\ | ^~~~~~~ main.c:225:58: note: format string is defined here 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", | ^~ 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/reproducible-path/poa-2.0+20060928' make[1]: Leaving directory '/build/reproducible-path/poa-2.0+20060928' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/poa-2.0+20060928' tmpfile=`mktemp` ; \ ./poa -read_fasta multidom.seq -clustal $tmpfile -v blosum80.mat ; \ if cmp $tmpfile /build/reproducible-path/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/reproducible-path/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.TzsTrUi1Ll... 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/reproducible-path/poa-2.0+20060928' create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs dh_auto_install --destdir=debian/poa/ dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman 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 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' in '../poa_2.0+20060928-9_amd64.deb'. dpkg-deb: building package 'poa-dbgsym' in '../poa-dbgsym_2.0+20060928-9_amd64.deb'. dpkg-genbuildinfo --build=binary -O../poa_2.0+20060928-9_amd64.buildinfo dpkg-genchanges --build=binary -O../poa_2.0+20060928-9_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: user script /srv/workspace/pbuilder/1922306/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/B01_cleanup finished 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/1922306 and its subdirectories I: Current time: Sun Nov 24 23:39:30 +14 2024 I: pbuilder-time-stamp: 1732441170 + false + set +x Sun Nov 24 09:39:30 UTC 2024 I: Signing ./b2/poa_2.0+20060928-9_amd64.buildinfo as poa_2.0+20060928-9_amd64.buildinfo.asc Sun Nov 24 09:39:30 UTC 2024 I: Signed ./b2/poa_2.0+20060928-9_amd64.buildinfo as ./b2/poa_2.0+20060928-9_amd64.buildinfo.asc Sun Nov 24 09:39:30 UTC 2024 - build #2 for poa/unstable/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Sun Nov 24 09:39:30 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-vOv5rBx8, removing. /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG: total 172 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 09:38 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 09:39 b2 -rw-r--r-- 1 jenkins jenkins 2145 Mar 13 2024 poa_2.0+20060928-9.dsc -rw------- 1 jenkins jenkins 157438 Nov 24 09:38 rbuildlog.gmWlqAt /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b1: total 360 -rw-r--r-- 1 jenkins jenkins 153898 Nov 24 09:38 build.log -rw-r--r-- 1 jenkins jenkins 100404 Nov 24 09:38 poa-dbgsym_2.0+20060928-9_amd64.deb -rw-r--r-- 1 jenkins jenkins 11704 Nov 24 09:38 poa_2.0+20060928-9.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2145 Nov 24 09:38 poa_2.0+20060928-9.dsc -rw-r--r-- 1 jenkins jenkins 4965 Nov 24 09:38 poa_2.0+20060928-9_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5847 Nov 24 09:38 poa_2.0+20060928-9_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1617 Nov 24 09:38 poa_2.0+20060928-9_amd64.changes -rw-r--r-- 1 jenkins jenkins 53384 Nov 24 09:38 poa_2.0+20060928-9_amd64.deb -rw-r--r-- 1 jenkins jenkins 1481 Nov 24 09:38 poa_2.0+20060928-9_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b2: total 352 -rw-r--r-- 1 jenkins jenkins 155823 Nov 24 09:39 build.log -rw-r--r-- 1 jenkins jenkins 100404 Nov 24 09:39 poa-dbgsym_2.0+20060928-9_amd64.deb -rw-r--r-- 1 jenkins jenkins 11704 Nov 24 09:39 poa_2.0+20060928-9.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2145 Nov 24 09:39 poa_2.0+20060928-9.dsc -rw-r--r-- 1 jenkins jenkins 4956 Nov 24 09:39 poa_2.0+20060928-9_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5838 Nov 24 09:39 poa_2.0+20060928-9_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1617 Nov 24 09:39 poa_2.0+20060928-9_amd64.changes -rw-r--r-- 1 jenkins jenkins 53384 Nov 24 09:39 poa_2.0+20060928-9_amd64.deb -rw-r--r-- 1 jenkins jenkins 1481 Nov 24 09:39 poa_2.0+20060928-9_source.changes Sun Nov 24 09:39:31 UTC 2024 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Sun Nov 24 09:39:32 UTC 2024 I: poa_2.0+20060928-9_amd64.changes: Format: 1.8 Date: Wed, 13 Mar 2024 22:14:49 +0100 Source: poa Binary: poa poa-dbgsym Architecture: amd64 Version: 2.0+20060928-9 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: poa - Partial Order Alignment for multiple sequence alignment Closes: 1066633 Changes: poa (2.0+20060928-9) unstable; urgency=medium . * d/control: add myself to uploaders. * fix-declaration.patch: new: fix missing declarations. (Closes: #1066633) * typo.patch: new: fix a typo caught by lintian. * d/watch: watch file version 4. * d/control: standards version 4.6.2. * d/control: debhelper-compat 13. Checksums-Sha1: bb6b3100d274b54f95419e5c5fb69d8354398933 100404 poa-dbgsym_2.0+20060928-9_amd64.deb 47650c3bd0c6c15d2fd3a41babaf27ee2b68b69b 4965 poa_2.0+20060928-9_amd64.buildinfo a6f7b86b7bf0129169935827c1ac2b037b37f371 53384 poa_2.0+20060928-9_amd64.deb Checksums-Sha256: 207992fee87bc6ec6586ec743b09a88c7958cab70ccf72bac206505c6911b879 100404 poa-dbgsym_2.0+20060928-9_amd64.deb 07b6333e83b8fea3e0faeb869e7c82c9c46d1a85c92215010701cd4a00e1311d 4965 poa_2.0+20060928-9_amd64.buildinfo 0d2dd220bcc330a1924baa012dc6f679afa3942827637fc8e6a61098df2f3f08 53384 poa_2.0+20060928-9_amd64.deb Files: 7f1b88feecbe749db0ad095a0b7dce85 100404 debug optional poa-dbgsym_2.0+20060928-9_amd64.deb 551d86510ce2d292aaeb0967de7b8177 4965 science optional poa_2.0+20060928-9_amd64.buildinfo 890471597502d033056d925b8637b131 53384 science optional poa_2.0+20060928-9_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/poa_2.0+20060928-9.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/poa_2.0+20060928-9.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/poa_2.0+20060928-9.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/poa_2.0+20060928-9.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/amd64/poa_2.0+20060928-9_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/poa_2.0+20060928-9.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2024-11-24 09:38:31.230823290 +0000 +++ b2/build.log 2024-11-24 09:39:31.588095713 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Dec 27 04:01:02 -12 2025 -I: pbuilder-time-stamp: 1766851262 +I: Current time: Sun Nov 24 23:38:34 +14 2024 +I: pbuilder-time-stamp: 1732441114 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -31,52 +31,84 @@ dpkg-source: info: applying typo.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/813548/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Nov 24 09:38 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='300636eb159a4707a4be3f1fa5876c23' - 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='813548' - PS1='# ' - PS2='> ' + INVOCATION_ID=331d359baae043b5aac86e7d0816bafd + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=1922306 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.cwmlMUpG/pbuilderrc_HkTH --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b1 --logfile b1/build.log poa_2.0+20060928-9.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/pbuilderrc_A6vK --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b2 --logfile b2/build.log poa_2.0+20060928-9.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/813548/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -141,7 +173,7 @@ Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] -Fetched 19.8 MB in 1s (33.3 MB/s) +Fetched 19.8 MB in 0s (71.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19966 files and directories currently installed.) @@ -272,7 +304,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/poa-2.0+20060928/ && 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 > ../poa_2.0+20060928-9_source.changes +I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/poa-2.0+20060928/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../poa_2.0+20060928-9_source.changes dpkg-buildpackage: info: source package poa dpkg-buildpackage: info: source version 2.0+20060928-9 dpkg-buildpackage: info: source distribution unstable @@ -282,7 +318,7 @@ debian/rules clean dh clean dh_auto_clean - make -j42 clean + make -j20 clean make[1]: Entering directory '/build/reproducible-path/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/reproducible-path/poa-2.0+20060928' @@ -295,7 +331,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/poa-2.0+20060928' dh_auto_build -- poa - make -j42 "INSTALL=install --strip-program=true" poa + make -j20 "INSTALL=install --strip-program=true" poa make[2]: Entering directory '/build/reproducible-path/poa-2.0+20060928' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o main.o main.c @@ -313,15 +349,15 @@ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o numeric_data.o numeric_data.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/poa-2.0+20060928=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -DUSE_WEIGHTED_LINKS -DUSE_PROJECT_HEADER -I. -Wdate-time -D_FORTIFY_SOURCE=2 -c -o stringptr.o stringptr.c -In file included from black_flag.c:4: -black_flag.c: In function 'black_flag_init_args': +In file included from stringptr.c:2: +stringptr.c: In function 'stringptr_cat_pos': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -black_flag.c:109:3: note: in expansion of macro 'CALLOC' - 109 | CALLOC(Program_name,len,char); +stringptr.c:30:3: note: in expansion of macro 'CALLOC' + 30 | CALLOC(s2_temp,s2_len,char); /* ALLOCATE TEMP STORAGE */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -329,15 +365,16 @@ | | | int | %ld -In file included from align_lpo_po2.c:2: -align_lpo_po2.c: In function 'get_lpo_stats': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:41:3: note: in expansion of macro 'CALLOC' - 41 | CALLOC (node_type, len, int); +default.h:242:5: note: in expansion of macro 'CALLOC' + 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~ +stringptr.c:40:3: note: in expansion of macro 'GETMEM' + 40 | GETMEM(s1->p,total_len, | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -345,72 +382,131 @@ | | | int | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo_po2.c:42:3: note: in expansion of macro 'CALLOC' - 42 | CALLOC (refs_from_right, len, int); +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +default.h:246:5: note: in expansion of macro 'REALLOC' + 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~~ +stringptr.c:40:3: note: in expansion of macro 'GETMEM' + 40 | GETMEM(s1->p,total_len, | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -In file included from lpo.c:3: -lpo.c: In function 'lpo_init': -In file included from buildup_lpo.c:3: -buildup_lpo.c: In function 'clip_unaligned_ends': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +stringptr.c: In function 'stringptr_cpy': +default.h:148:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] + 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 149 | __FILE__,__LINE__,STRINGIFY(memptr),(N)); \ + | ~~~ +default.h:242:5: note: in expansion of macro 'CALLOC' + 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~ +stringptr.c:67:3: note: in expansion of macro 'GETMEM' + 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); + | ^~~~~~ +default.h:148:68: note: format string is defined here + 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ + | ~^ + | | + | int + | %ld +In file included from ./lpo.h:6, + from numeric_data.c:3: +numeric_data.c: In function 'new_numeric_data': +In file included from align_lpo2.c:2: +align_lpo2.c: In function 'get_seq_left_and_final': +./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:15:3: note: in expansion of macro 'CALLOC' - 15 | CALLOC(seq->letter,seq->length,LPOLetter_T); +./default.h:213:5: note: in expansion of macro 'CALLOC' + 213 | CALLOC(memptr,BUF,ATYPE) } \ + | ^~~~~~ +numeric_data.c:18:3: note: in expansion of macro 'REBUFF' + 18 | 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 'size_t' {aka 'long unsigned int'} [-Wformat=] + 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ +default.h:242:5: note: in expansion of macro 'CALLOC' + 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~ +stringptr.c:67:3: note: in expansion of macro 'GETMEM' + 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ -In file included from msa_format.h:17, - from msa_format.c:17: -msa_format.c: In function 'read_clustal': -In file included from seq_util.c:2: -seq_util.c: In function 'read_score_matrix': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:43:3: note: in expansion of macro 'CALLOC' - 43 | CALLOC (tmp, len, int); +align_lpo2.c:60:3: note: in expansion of macro 'CALLOC' + 60 | CALLOC (is_final_node_x, len_x, int); | ^~~~~~ -default.h:156:37: note: format string is defined here +./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:155:49: note: format string is defined here + 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ + | ~^ + | | + | int + | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ +default.h:242:5: note: in expansion of macro 'CALLOC' + 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~ +stringptr.c:67:3: note: in expansion of macro 'GETMEM' + 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); + | ^~~~~~ +default.h:156:32: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:146:3: note: in expansion of macro 'CALLOC' - 146 | CALLOC(temp,seq->length,LPOLetter_T); /* ALLOCATE NEW letter[] COPY */ +default.h:242:5: note: in expansion of macro 'CALLOC' + 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~ +stringptr.c:67:3: note: in expansion of macro 'GETMEM' + 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -seq_util.c:170:3: note: in expansion of macro 'CALLOC' - 170 | CALLOC (m->gap_penalty_x, m->max_gap_length+2, LPOScore_T); +align_lpo2.c:66:3: note: in expansion of macro 'CALLOC' + 66 | CALLOC (x_left, len_x, LPOLetterLink_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -418,63 +514,108 @@ | | | int | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:169:7: note: in expansion of macro 'REALLOC' - 169 | REALLOC (seq_names, n_seqs, char *); - | ^~~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:197:39: note: format string is defined here +./default.h:216:5: note: in expansion of macro 'REALLOC' + 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ + | ^~~~~~~ +numeric_data.c:18:3: note: in expansion of macro 'REBUFF' + 18 | REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); + | ^~~~~~ +./default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] + 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ + | ~~~~~ +default.h:246:5: note: in expansion of macro 'REALLOC' + 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~~ +stringptr.c:67:3: note: in expansion of macro 'GETMEM' + 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); + | ^~~~~~ +default.h:185:68: note: format string is defined here + 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:44:3: note: in expansion of macro 'CALLOC' - 44 | CALLOC (left_links, len, LPOLetterLink_T *); - | ^~~~~~ +align_lpo2.c:70:7: note: in expansion of macro 'CALLOC' + 70 | CALLOC (x_left[i], 1, LPOLetterLink_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ +default.h:246:5: note: in expansion of macro 'REALLOC' + 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~~ +stringptr.c:67:3: note: in expansion of macro 'GETMEM' + 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); + | ^~~~~~ +default.h:197:34: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +numeric_data.c:25:3: note: in expansion of macro 'CALLOC' + 25 | CALLOC(data->data,source_seq->length,double); /* ALLOCATE THE ARRAY */ + | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:171:7: note: in expansion of macro 'REALLOC' - 171 | REALLOC (seq_titles, n_seqs, char *); - | ^~~~~~~ +default.h:246:5: note: in expansion of macro 'REALLOC' + 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~~ +stringptr.c:67:3: note: in expansion of macro 'GETMEM' + 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); + | ^~~~~~ +./default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld -In file included from lpo_format.c:3: -lpo_format.c: In function 'read_lpo': +align_lpo2.c: In function 'trace_back_lpo_alignment': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -seq_util.c:171:3: note: in expansion of macro 'CALLOC' - 171 | CALLOC (m->gap_penalty_y, m->max_gap_length+2, LPOScore_T); +align_lpo2.c:96:3: note: in expansion of macro 'CALLOC' + 96 | CALLOC (x_al, len_x, LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -487,50 +628,24 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:60:3: note: in expansion of macro 'CALLOC' - 60 | CALLOC(seq,1,LPOSequence_T); +align_lpo2.c:97:3: note: in expansion of macro 'CALLOC' + 97 | CALLOC (y_al, len_y, LPOLetterRef_T); | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo_po2.c:71:7: note: in expansion of macro 'CALLOC' - 71 | CALLOC (left_links[i], 1, LPOLetterLink_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -msa_format.c:174:7: note: in expansion of macro 'REALLOC' - 174 | REALLOC (aln_mat, n_seqs, char *); - | ^~~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld +In file included from heaviest_bundle.c:3: +heaviest_bundle.c: In function 'heaviest_bundle': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:71:3: note: in expansion of macro 'CALLOC' - 71 | CALLOC(seq->letter,length,LPOLetter_T); +heaviest_bundle.c:27:3: note: in expansion of macro 'CALLOC' + 27 | CALLOC(path,len,LPOLetterRef_T); /* GET MEMORY FOR DYNAMIC PROGRAMMING */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -538,63 +653,42 @@ | | | int | %ld -lpo.c: In function 'build_seq_to_po_index': -align_lpo_po2.c: In function 'trace_back_lpo_alignment': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:120:3: note: in expansion of macro 'CALLOC' - 120 | CALLOC (x_al, len_x, LPOLetterRef_T); +heaviest_bundle.c:28:3: note: in expansion of macro 'CALLOC' + 28 | CALLOC(score,len,LPOScore_T); | ^~~~~~ -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -msa_format.c:176:7: note: in expansion of macro 'REALLOC' - 176 | REALLOC (aln_lengths, n_seqs, int); - | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +align_lpo2.c: In function 'align_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:157:5: note: in expansion of macro 'CALLOC' - 157 | CALLOC(seq->source_seq[i].seq_to_po,seq->source_seq[i].length,int); - | ^~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld +heaviest_bundle.c:29:3: note: in expansion of macro 'CALLOC' + 29 | CALLOC(contains_pos,nsource_seq,int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -In file included from lpo.h:6, - from main.c:3: -main.c: In function 'main': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:242:5: note: in expansion of macro 'CALLOC' - 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~ -lpo_format.c:72:3: note: in expansion of macro 'GETMEM' - 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); +align_lpo2.c:185:3: note: in expansion of macro 'CALLOC' + 185 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -602,33 +696,37 @@ | | | int | %ld +In file included from lpo.h:6, + from main.c:3: +main.c: In function 'main': +In file included from msa_format.h:17, + from msa_format.c:17: +msa_format.c: In function 'read_clustal': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:121:3: note: in expansion of macro 'CALLOC' - 121 | CALLOC (y_al, len_y, LPOLetterRef_T); +align_lpo2.c:186:3: note: in expansion of macro 'CALLOC' + 186 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:158:5: note: in expansion of macro 'CALLOC' - 158 | CALLOC(seq->source_seq[i].po_to_seq,seq->length,int); - | ^~~~~~ -default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] - 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - | | - | size_t {aka long unsigned int} - 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ - | ~~~~~ -msa_format.c:185:5: note: in expansion of macro 'REALLOC' - 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); - | ^~~~~~~ -default.h:156:37: note: format string is defined here +main.c:183:3: note: in expansion of macro 'CALLOC' + 183 | CALLOC (input_seqs, max_input_seqs, LPOSequence_T *); + | ^~~~~~ +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +msa_format.c:169:7: note: in expansion of macro 'REALLOC' + 169 | REALLOC (seq_names, n_seqs, char *); + | ^~~~~~~ +./default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | @@ -640,100 +738,105 @@ | | | int | %ld -default.h:185:68: note: format string is defined here - 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ - | ~^ - | | - | int - | %ld -./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -main.c:183:3: note: in expansion of macro 'CALLOC' - 183 | CALLOC (input_seqs, max_input_seqs, LPOSequence_T *); +align_lpo2.c:199:3: note: in expansion of macro 'CALLOC' + 199 | CALLOC (move, len_y, DPMove_T *); | ^~~~~~ -In file included from create_seq.c:3: -create_seq.c: In function 'create_seq': -./default.h:156:37: note: format string is defined here +default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ -msa_format.c:185:5: note: in expansion of macro 'REALLOC' - 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); - | ^~~~~~~ -In file included from heaviest_bundle.c:3: -heaviest_bundle.c: In function 'heaviest_bundle': -default.h:197:34: note: format string is defined here + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +msa_format.c:171:7: note: in expansion of macro 'REALLOC' + 171 | REALLOC (seq_titles, n_seqs, char *); + | ^~~~~~~ +default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:213:5: note: in expansion of macro 'CALLOC' - 213 | CALLOC(memptr,BUF,ATYPE) } \ +align_lpo2.c:201:5: note: in expansion of macro 'CALLOC' + 201 | CALLOC (move[i], len_x, DPMove_T); | ^~~~~~ -create_seq.c:29:3: note: in expansion of macro 'REBUFF' - 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ - | ^~~~~~ -buildup_lpo.c: In function 'read_seqpair_scorefile': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +main.c:221:9: note: in expansion of macro 'REALLOC' + 221 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); + | ^~~~~~~ +./default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:185:5: note: in expansion of macro 'REALLOC' - 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); - | ^~~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -heaviest_bundle.c:27:3: note: in expansion of macro 'CALLOC' - 27 | CALLOC(path,len,LPOLetterRef_T); /* GET MEMORY FOR DYNAMIC PROGRAMMING */ - | ^~~~~~ +msa_format.c:174:7: note: in expansion of macro 'REALLOC' + 174 | REALLOC (aln_mat, n_seqs, char *); + | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld +In file included from ./default.h:16: +main.c:225:30: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'FILE *' [-Wformat=] + 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 226 | po_list_file),"$Revision: 1.2.2.9 $"); + | ~~~~~~~~~~~~ + | | + | FILE * +./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' + 212 | (sprintf MESSAGE,\ + | ^~~~~~~ +main.c:225:59: note: format string is defined here + 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", + | ~^ + | | + | char * default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:159:5: note: in expansion of macro 'CALLOC' - 159 | CALLOC(seq->source_seq[i].sequence,seq->source_seq[i].length+1,char); - | ^~~~~~ -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -default.h:246:5: note: in expansion of macro 'REALLOC' - 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~~ -lpo_format.c:72:3: note: in expansion of macro 'GETMEM' - 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); +align_lpo2.c:204:3: note: in expansion of macro 'CALLOC' + 204 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -741,12 +844,14 @@ | | | int | %ld -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +msa_format.c:176:7: note: in expansion of macro 'REALLOC' + 176 | REALLOC (aln_lengths, n_seqs, int); + | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ @@ -758,8 +863,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:327:3: note: in expansion of macro 'CALLOC' - 327 | CALLOC (adj_score, nseq, int); +align_lpo2.c:207:3: note: in expansion of macro 'CALLOC' + 207 | CALLOC (curr_score, len_x+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -767,77 +872,103 @@ | | | int | %ld +./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +main.c:254:9: note: in expansion of macro 'REALLOC' + 254 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); + | ^~~~~~~ +./default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] + 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + | | + | size_t {aka long unsigned int} + 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ + | ~~~~~ +msa_format.c:185:5: note: in expansion of macro 'REALLOC' + 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); + | ^~~~~~~ +default.h:185:68: note: format string is defined here + 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:73:3: note: in expansion of macro 'CALLOC' - 73 | CALLOC(pos_count,nsource_seq,int); +align_lpo2.c:209:3: note: in expansion of macro 'CALLOC' + 209 | CALLOC (prev_score, len_x+1, DPScore_T); | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -heaviest_bundle.c:28:3: note: in expansion of macro 'CALLOC' - 28 | CALLOC(score,len,LPOScore_T); - | ^~~~~~ + | ~^ + | | + | int + | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ +msa_format.c:185:5: note: in expansion of macro 'REALLOC' + 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); + | ^~~~~~~ +default.h:197:34: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:216:5: note: in expansion of macro 'REALLOC' - 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ +msa_format.c:185:5: note: in expansion of macro 'REALLOC' + 185 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); | ^~~~~~~ -create_seq.c:29:3: note: in expansion of macro 'REBUFF' - 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ - | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -align_lpo_po2.c: In function 'align_lpo_po': +numeric_data.c: In function 'read_numeric_data': +numeric_data.c:139:11: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 139 | fscanf(ifile," %lf",data->data+j); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -heaviest_bundle.c:29:3: note: in expansion of macro 'CALLOC' - 29 | CALLOC(contains_pos,nsource_seq,int); +heaviest_bundle.c:67:3: note: in expansion of macro 'CALLOC' + 67 | CALLOC(best_path,len,LPOLetterRef_T); /* MEMORY FOR STORING BEST PATH */ | ^~~~~~ -In file included from align_lpo2.c:2: -align_lpo2.c: In function 'get_seq_left_and_final': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo_po2.c:227:3: note: in expansion of macro 'CALLOC' - 227 | CALLOC (next_gap_array, max_gap_length + 2, int); - | ^~~~~~ + | ~^ + | | + | int + | %ld +In file included from align_lpo_po2.c:2: +align_lpo_po2.c: In function 'get_lpo_stats': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:330:3: note: in expansion of macro 'CALLOC' - 330 | CALLOC (score_list, max_nscore, SeqPairScore_T); +align_lpo_po2.c:41:3: note: in expansion of macro 'CALLOC' + 41 | CALLOC (node_type, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -845,25 +976,29 @@ | | | int | %ld -default.h:156:37: note: format string is defined here +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +align_lpo_po2.c:42:3: note: in expansion of macro 'CALLOC' + 42 | CALLOC (refs_from_right, len, int); + | ^~~~~~ +heaviest_bundle.c: In function 'assign_sequence_bundle_id': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +msa_format.c: In function 'read_pir': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:60:3: note: in expansion of macro 'CALLOC' - 60 | CALLOC (is_final_node_x, len_x, int); +heaviest_bundle.c:90:3: note: in expansion of macro 'CALLOC' + 90 | CALLOC(bundle_count,seq->nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -871,18 +1006,27 @@ | | | int | %ld -lpo.c: In function 'save_lpo_source': -In file included from stringptr.c:2: -stringptr.c: In function 'stringptr_cat_pos': -In file included from remove_bundle.c:4: -remove_bundle.c: In function 'compact_links': +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +msa_format.c:248:7: note: in expansion of macro 'REALLOC' + 248 | REALLOC (seq_names, n_seqs, char *); + | ^~~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -stringptr.c:30:3: note: in expansion of macro 'CALLOC' - 30 | CALLOC(s2_temp,s2_len,char); /* ALLOCATE TEMP STORAGE */ +align_lpo_po2.c:43:3: note: in expansion of macro 'CALLOC' + 43 | CALLOC (tmp, len, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -895,19 +1039,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -remove_bundle.c:16:3: note: in expansion of macro 'CALLOC' - 16 | CALLOC(link,1,LPOLetterLink_T); - | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -default.h:213:5: note: in expansion of macro 'CALLOC' - 213 | CALLOC(memptr,BUF,ATYPE) } \ - | ^~~~~~ -lpo.c:189:3: note: in expansion of macro 'REBUFF' - 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, +align_lpo_po2.c:44:3: note: in expansion of macro 'CALLOC' + 44 | CALLOC (left_links, len, LPOLetterLink_T *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -915,57 +1048,52 @@ | | | int | %ld -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -main.c:221:9: note: in expansion of macro 'REALLOC' - 221 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); - | ^~~~~~~ -./default.h:197:39: note: format string is defined here +msa_format.c:250:7: note: in expansion of macro 'REALLOC' + 250 | REALLOC (seq_titles, n_seqs, char *); + | ^~~~~~~ +default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld +In file included from seq_util.c:2: +seq_util.c: In function 'read_score_matrix': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:66:3: note: in expansion of macro 'CALLOC' - 66 | CALLOC (x_left, len_x, LPOLetterLink_T *); +seq_util.c:170:3: note: in expansion of macro 'CALLOC' + 170 | CALLOC (m->gap_penalty_x, m->max_gap_length+2, LPOScore_T); | ^~~~~~ -msa_format.c: In function 'read_pir': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo_po2.c:228:3: note: in expansion of macro 'CALLOC' - 228 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); - | ^~~~~~ default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:248:7: note: in expansion of macro 'REALLOC' - 248 | REALLOC (seq_names, n_seqs, char *); +msa_format.c:252:7: note: in expansion of macro 'REALLOC' + 252 | REALLOC (aln_mat, n_seqs, char *); | ^~~~~~~ +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +seq_util.c:171:3: note: in expansion of macro 'CALLOC' + 171 | CALLOC (m->gap_penalty_y, m->max_gap_length+2, LPOScore_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -978,92 +1106,68 @@ | | | int | %ld -In file included from ./default.h:16: -main.c:225:30: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'FILE *' [-Wformat=] - 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 226 | po_list_file),"$Revision: 1.2.2.9 $"); - | ~~~~~~~~~~~~ - | | - | FILE * -./black_flag.h:212:10: note: in definition of macro 'WARN_MSG' - 212 | (sprintf MESSAGE,\ - | ^~~~~~~ -main.c:225:59: note: format string is defined here - 225 | WARN_MSG(USERR,(ERRTXT,"Error reading PO list file %s.\nExiting", - | ~^ - | | - | char * default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:353:9: note: in expansion of macro 'REALLOC' - 353 | REALLOC (score_list, max_nscore, SeqPairScore_T); - | ^~~~~~~ +msa_format.c:254:7: note: in expansion of macro 'REALLOC' + 254 | REALLOC (aln_lengths, n_seqs, int); + | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] + 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ + | ~~~~~ +msa_format.c:268:7: note: in expansion of macro 'REALLOC' + 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); + | ^~~~~~~ +default.h:185:68: note: format string is defined here + 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ + | ~^ + | | + | int + | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ +msa_format.c:268:7: note: in expansion of macro 'REALLOC' + 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); + | ^~~~~~~ +default.h:197:34: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:216:5: note: in expansion of macro 'REALLOC' - 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ - | ^~~~~~~ -lpo.c:189:3: note: in expansion of macro 'REBUFF' - 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, - | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -default.h:242:5: note: in expansion of macro 'CALLOC' - 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~ -stringptr.c:40:3: note: in expansion of macro 'GETMEM' - 40 | GETMEM(s1->p,total_len, - | ^~~~~~ +msa_format.c:268:7: note: in expansion of macro 'REALLOC' + 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); + | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -remove_bundle.c: In function 'compact_sources': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo2.c:70:7: note: in expansion of macro 'CALLOC' - 70 | CALLOC (x_left[i], 1, LPOLetterLink_T); - | ^~~~~~ -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld +msa_format.c: In function 'lpo_from_aln_mat': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -remove_bundle.c:59:3: note: in expansion of macro 'CALLOC' - 59 | CALLOC(source,1,LPOLetterSource_T); +msa_format.c:318:3: note: in expansion of macro 'CALLOC' + 318 | CALLOC (column_ids, n_seqs+1, int *); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1076,106 +1180,47 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -heaviest_bundle.c:67:3: note: in expansion of macro 'CALLOC' - 67 | CALLOC(best_path,len,LPOLetterRef_T); /* MEMORY FOR STORING BEST PATH */ - | ^~~~~~ +align_lpo_po2.c:71:7: note: in expansion of macro 'CALLOC' + 71 | CALLOC (left_links[i], 1, LPOLetterLink_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +align_lpo_po2.c: In function 'trace_back_lpo_alignment': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:254:3: note: in expansion of macro 'CALLOC' - 254 | CALLOC (move, len_y, DPMove_T *); +align_lpo_po2.c:120:3: note: in expansion of macro 'CALLOC' + 120 | CALLOC (x_al, len_x, LPOLetterRef_T); | ^~~~~~ -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -msa_format.c:250:7: note: in expansion of macro 'REALLOC' - 250 | REALLOC (seq_titles, n_seqs, char *); - | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -default.h:246:5: note: in expansion of macro 'REALLOC' - 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~~ -stringptr.c:40:3: note: in expansion of macro 'GETMEM' - 40 | GETMEM(s1->p,total_len, - | ^~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -lpo_format.c: In function 'read_lpo_select': -./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -main.c:254:9: note: in expansion of macro 'REALLOC' - 254 | REALLOC (input_seqs, max_input_seqs, LPOSequence_T *); - | ^~~~~~~ -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -buildup_lpo.c:374:9: note: in expansion of macro 'REALLOC' - 374 | REALLOC (score_list, max_nscore, SeqPairScore_T); - | ^~~~~~~ -align_lpo2.c: In function 'trace_back_lpo_alignment': -lpo.c: In function 'save_lpo_source_list': -./default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld +In file included from remove_bundle.c:4: +remove_bundle.c: In function 'compact_links': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:159:3: note: in expansion of macro 'CALLOC' - 159 | CALLOC(seq,1,LPOSequence_T); +remove_bundle.c:16:3: note: in expansion of macro 'CALLOC' + 16 | CALLOC(link,1,LPOLetterLink_T); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:96:3: note: in expansion of macro 'CALLOC' - 96 | CALLOC (x_al, len_x, LPOLetterRef_T); +align_lpo_po2.c:121:3: note: in expansion of macro 'CALLOC' + 121 | CALLOC (y_al, len_y, LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1194,61 +1239,47 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:213:3: note: in expansion of macro 'CALLOC' - 213 | CALLOC(list,nsource_seq,int); +msa_format.c:319:3: note: in expansion of macro 'CALLOC' + 319 | CALLOC (res_ids, n_seqs+1, int *); | ^~~~~~ -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -msa_format.c:252:7: note: in expansion of macro 'REALLOC' - 252 | REALLOC (aln_mat, n_seqs, char *); - | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld +remove_bundle.c: In function 'compact_sources': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:256:5: note: in expansion of macro 'CALLOC' - 256 | CALLOC (move[i], len_x, DPMove_T); - | ^~~~~~ +remove_bundle.c:59:3: note: in expansion of macro 'CALLOC' + 59 | CALLOC(source,1,LPOLetterSource_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -heaviest_bundle.c: In function 'assign_sequence_bundle_id': +align_lpo_po2.c: In function 'align_lpo_po': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:97:3: note: in expansion of macro 'CALLOC' - 97 | CALLOC (y_al, len_y, LPOLetterRef_T); - | ^~~~~~ +msa_format.c:326:5: note: in expansion of macro 'CALLOC' + 326 | CALLOC (column_ids[i], max_aln_length, int); + | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -heaviest_bundle.c:90:3: note: in expansion of macro 'CALLOC' - 90 | CALLOC(bundle_count,seq->nsource_seq,int); +align_lpo_po2.c:227:3: note: in expansion of macro 'CALLOC' + 227 | CALLOC (next_gap_array, max_gap_length + 2, int); | ^~~~~~ -stringptr.c: In function 'stringptr_cpy': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1261,32 +1292,14 @@ | | | int | %ld +remove_bundle.c: In function 'remove_bundle': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:170:3: note: in expansion of macro 'CALLOC' - 170 | CALLOC(seq->letter,length,LPOLetter_T); - | ^~~~~~ -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -msa_format.c:254:7: note: in expansion of macro 'REALLOC' - 254 | REALLOC (aln_lengths, n_seqs, int); - | ^~~~~~~ -default.h:148:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] - 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 149 | __FILE__,__LINE__,STRINGIFY(memptr),(N)); \ - | ~~~ -default.h:242:5: note: in expansion of macro 'CALLOC' - 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~ -stringptr.c:67:3: note: in expansion of macro 'GETMEM' - 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); +remove_bundle.c:128:3: note: in expansion of macro 'CALLOC' + 128 | CALLOC(old_to_new,seq->length,int); /* CREATE MAPPING ARRAY */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1294,123 +1307,51 @@ | | | int | %ld -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:148:68: note: format string is defined here - 148 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ - | ~^ - | | - | int - | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:259:3: note: in expansion of macro 'CALLOC' - 259 | CALLOC (init_col_score, len_y+1, DPScore_T); - | ^~~~~~ -lpo.c: In function 'add_lpo_link': -default.h:156:37: note: format string is defined here - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -buildup_lpo.c:394:9: note: in expansion of macro 'REALLOC' - 394 | REALLOC (score_list, max_nscore, SeqPairScore_T); - | ^~~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -lpo.c:238:3: note: in expansion of macro 'CALLOC' - 238 | CALLOC(list->more,1,LPOLetterLink_T); /* ADD ENTRY TO LINKED LIST */ - | ^~~~~~ +msa_format.c:327:5: note: in expansion of macro 'CALLOC' + 327 | CALLOC (res_ids[i], max_aln_length, int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:155:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] - 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ -default.h:242:5: note: in expansion of macro 'CALLOC' - 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~ -stringptr.c:67:3: note: in expansion of macro 'GETMEM' - 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); - | ^~~~~~ -remove_bundle.c: In function 'remove_bundle': -default.h:155:49: note: format string is defined here - 155 | fprintf(stderr,"Unable to meet request: %s[%d]\n",STRINGIFY(memptr),(N)); \ - | ~^ - | | - | int - | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:242:5: note: in expansion of macro 'CALLOC' - 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~ -lpo_format.c:171:3: note: in expansion of macro 'GETMEM' - 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); +align_lpo_po2.c:228:3: note: in expansion of macro 'CALLOC' + 228 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); | ^~~~~~ -default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] - 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ - | ~~~~~ -msa_format.c:268:7: note: in expansion of macro 'REALLOC' - 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); - | ^~~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:185:68: note: format string is defined here - 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ - | ~^ - | | - | int - | %ld +In file included from lpo.c:3: +lpo.c: In function 'lpo_init': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:262:3: note: in expansion of macro 'CALLOC' - 262 | CALLOC (score_rows, len_y+1, DPScore_T *); +msa_format.c:334:3: note: in expansion of macro 'CALLOC' + 334 | CALLOC (consens_row, max_aln_length, char); | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -remove_bundle.c:128:3: note: in expansion of macro 'CALLOC' - 128 | CALLOC(old_to_new,seq->length,int); /* CREATE MAPPING ARRAY */ +lpo.c:15:3: note: in expansion of macro 'CALLOC' + 15 | CALLOC(seq->letter,seq->length,LPOLetter_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1424,61 +1365,43 @@ | | | int | %ld -lpo.c: In function 'add_lpo_sources': -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~ -default.h:242:5: note: in expansion of macro 'CALLOC' - 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~ -stringptr.c:67:3: note: in expansion of macro 'GETMEM' - 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +msa_format.c:347:3: note: in expansion of macro 'CALLOC' + 347 | CALLOC (lposeq, 1, LPOSequence_T); | ^~~~~~ -default.h:156:32: note: format string is defined here +default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ -msa_format.c:268:7: note: in expansion of macro 'REALLOC' - 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); - | ^~~~~~~ -align_lpo2.c: In function 'align_lpo': + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:242:5: note: in expansion of macro 'CALLOC' - 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~ -stringptr.c:67:3: note: in expansion of macro 'GETMEM' - 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); +msa_format.c:351:3: note: in expansion of macro 'CALLOC' + 351 | CALLOC (lposeq->sequence, max_aln_length+1, char); | ^~~~~~ -buildup_lpo.c: In function 'buildup_progressive_lpo': -default.h:197:34: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +lpo.c: In function 'build_seq_to_po_index': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:252:7: note: in expansion of macro 'CALLOC' - 252 | CALLOC(new_s->more,1,LPOLetterSource_T); - | ^~~~~~ +lpo.c:157:5: note: in expansion of macro 'CALLOC' + 157 | CALLOC(seq->source_seq[i].seq_to_po,seq->source_seq[i].length,int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1490,26 +1413,23 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:264:3: note: in expansion of macro 'CALLOC' - 264 | CALLOC (score_rows[-1], len_x+1, DPScore_T); - | ^~~~~~ -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -default.h:246:5: note: in expansion of macro 'REALLOC' - 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~~ -lpo_format.c:171:3: note: in expansion of macro 'GETMEM' - 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); - | ^~~~~~ +lpo.c:158:5: note: in expansion of macro 'CALLOC' + 158 | CALLOC(seq->source_seq[i].po_to_seq,seq->length,int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +msa_format.c:369:3: note: in expansion of macro 'REALLOC' + 369 | REALLOC (lposeq->sequence, len+1, char); + | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ @@ -1521,91 +1441,65 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:185:3: note: in expansion of macro 'CALLOC' - 185 | CALLOC (next_gap_array, max_gap_length + 2, int); - | ^~~~~~ +lpo.c:159:5: note: in expansion of macro 'CALLOC' + 159 | CALLOC(seq->source_seq[i].sequence,seq->source_seq[i].length+1,char); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -msa_format.c:268:7: note: in expansion of macro 'REALLOC' - 268 | REALLOC (aln_mat[curr_seq], aln_lengths[curr_seq] + strlen(aln), char); - | ^~~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:445:3: note: in expansion of macro 'CALLOC' - 445 | CALLOC(seq_cluster,nseq,int); /* MAPS SEQS (or CLUSTERS) TO CLUSTER THEY'RE IN */ - | ^~~~~~ +msa_format.c:375:5: note: in expansion of macro 'CALLOC' + 375 | CALLOC (curr_seq, 1, LPOSequence_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld -lpo.c: In function 'reindex_lpo_source_seqs': -default.h:185:22: warning: format '%d' expects argument of type 'int', but argument 6 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] - 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 186 | __FILE__,__LINE__,STRINGIFY(memptr),(NUM)); \ - | ~~~~~ -default.h:246:5: note: in expansion of macro 'REALLOC' - 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~~ -stringptr.c:67:3: note: in expansion of macro 'GETMEM' - 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); - | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:172:3: note: in expansion of macro 'CALLOC' - 172 | CALLOC(pos_count,nsource_seq,int); - | ^~~~~~ +msa_format.c:380:5: note: in expansion of macro 'CALLOC' + 380 | CALLOC (curr_seq->sequence, aln_lengths[i]+1, char); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:185:68: note: format string is defined here - 185 | fprintf(stderr,"%s, line %d: *** invalid memory request: %s[%d].\n",\ - | ~^ - | | - | int - | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:186:3: note: in expansion of macro 'CALLOC' - 186 | CALLOC (next_perp_gap_array, max_gap_length + 2, int); +align_lpo_po2.c:254:3: note: in expansion of macro 'CALLOC' + 254 | CALLOC (move, len_y, DPMove_T *); | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:446:3: note: in expansion of macro 'CALLOC' - 446 | CALLOC(seq_id_in_cluster,nseq,int); /* INDEXES SEQS (or CLUSTERS) WITHIN EACH CLUSTER */ - | ^~~~~~ +align_lpo_po2.c:256:5: note: in expansion of macro 'CALLOC' + 256 | CALLOC (move[i], len_x, DPMove_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1617,8 +1511,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:270:3: note: in expansion of macro 'CALLOC' - 270 | CALLOC (map, len, int); +align_lpo_po2.c:259:3: note: in expansion of macro 'CALLOC' + 259 | CALLOC (init_col_score, len_y+1, DPScore_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1626,35 +1520,28 @@ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +align_lpo_po2.c:262:3: note: in expansion of macro 'CALLOC' + 262 | CALLOC (score_rows, len_y+1, DPScore_T *); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' {aka 'long unsigned int'} [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ -default.h:246:5: note: in expansion of macro 'REALLOC' - 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ - | ^~~~~~~ -stringptr.c:67:3: note: in expansion of macro 'GETMEM' - 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); - | ^~~~~~ -default.h:197:34: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo_po2.c:312:5: note: in expansion of macro 'CALLOC' - 312 | CALLOC (score_rows[i], len_x+1, DPScore_T); - | ^~~~~~ +align_lpo_po2.c:264:3: note: in expansion of macro 'CALLOC' + 264 | CALLOC (score_rows[-1], len_x+1, DPScore_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1666,12 +1553,9 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -default.h:246:5: note: in expansion of macro 'REALLOC' - 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ +msa_format.c:398:5: note: in expansion of macro 'REALLOC' + 398 | REALLOC (curr_seq->sequence, len+1, char); | ^~~~~~~ -stringptr.c:67:3: note: in expansion of macro 'GETMEM' - 67 | GETMEM(s1->p,strlen(s2)+1,s1->last_alloc,STRINGPTR_BUFFER_CHUNK,char); - | ^~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ @@ -1683,17 +1567,9 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:196:3: note: in expansion of macro 'CALLOC' - 196 | CALLOC(iseq_compact,nsource_seq,int); - | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -buildup_lpo.c:447:3: note: in expansion of macro 'CALLOC' - 447 | CALLOC(cluster_size,nseq,int); /* COUNTS SEQS IN SAME CLUSTER (updated w/ merges) */ - | ^~~~~~ +align_lpo_po2.c:312:5: note: in expansion of macro 'CALLOC' + 312 | CALLOC (score_rows[i], len_x+1, DPScore_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1705,51 +1581,88 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:271:3: note: in expansion of macro 'CALLOC' - 271 | CALLOC (invmap, len, int); - | ^~~~~~ +msa_format.c:406:5: note: in expansion of macro 'CALLOC' + 406 | CALLOC (al_x, len, int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +msa_format.c:407:5: note: in expansion of macro 'CALLOC' + 407 | CALLOC (al_y, lposeq->length, int); + | ^~~~~~ +align_lpo_po2.c:438:44: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=] + 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); + | ~~^ ~~~~~~~~~ + | | | + | long int int + | %d +align_lpo_po2.c:438:69: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'int' [-Wformat=] + 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); + | ~~^ ~~~~~~~~~ + | | | + | long int int + | %d default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -msa_format.c: In function 'lpo_from_aln_mat': -In file included from ./lpo.h:6, - from numeric_data.c:3: -numeric_data.c: In function 'new_numeric_data': -./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +In file included from create_seq.c:3: +create_seq.c: In function 'create_seq': +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -./default.h:213:5: note: in expansion of macro 'CALLOC' +default.h:213:5: note: in expansion of macro 'CALLOC' 213 | CALLOC(memptr,BUF,ATYPE) } \ | ^~~~~~ -numeric_data.c:18:3: note: in expansion of macro 'REBUFF' - 18 | REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); +create_seq.c:29:3: note: in expansion of macro 'REBUFF' + 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -align_lpo2.c:199:3: note: in expansion of macro 'CALLOC' - 199 | CALLOC (move, len_y, DPMove_T *); + | ~^ + | | + | int + | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +default.h:216:5: note: in expansion of macro 'REALLOC' + 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ + | ^~~~~~~ +create_seq.c:29:3: note: in expansion of macro 'REBUFF' + 29 | REBUFF(*p_seq,nseq,SEQUENCE_BUFFER_CHUNK,Sequence_T); /* ALLOCATE MEMORY*/ | ^~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +lpo.c: In function 'save_lpo_source': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:318:3: note: in expansion of macro 'CALLOC' - 318 | CALLOC (column_ids, n_seqs+1, int *); +default.h:213:5: note: in expansion of macro 'CALLOC' + 213 | CALLOC(memptr,BUF,ATYPE) } \ + | ^~~~~~ +lpo.c:189:3: note: in expansion of macro 'REBUFF' + 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1757,25 +1670,48 @@ | | | int | %ld -./default.h:156:37: note: format string is defined here +In file included from black_flag.c:4: +black_flag.c: In function 'black_flag_init_args': +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +black_flag.c:109:3: note: in expansion of macro 'CALLOC' + 109 | CALLOC(Program_name,len,char); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +default.h:216:5: note: in expansion of macro 'REALLOC' + 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ + | ^~~~~~~ +lpo.c:189:3: note: in expansion of macro 'REBUFF' + 189 | REBUFF(seq->source_seq,seq->nsource_seq,SOURCE_SEQ_BUFFER_CHUNK, + | ^~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +msa_format.c: In function 'filter_sequence_set': +lpo.c: In function 'save_lpo_source_list': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:448:3: note: in expansion of macro 'CALLOC' - 448 | CALLOC(initial_nseq,nseq,int); /* COUNTS SEQS INITIALLY IN EACH CLUSTER (not updated w/ merges) */ +msa_format.c:485:3: note: in expansion of macro 'CALLOC' + 485 | CALLOC (keep_seq, n_seqs, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1788,8 +1724,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:197:3: note: in expansion of macro 'CALLOC' - 197 | CALLOC(last_pos,nsource_seq,int); +lpo.c:213:3: note: in expansion of macro 'CALLOC' + 213 | CALLOC(list,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1797,28 +1733,46 @@ | | | int | %ld +lpo.c: In function 'add_lpo_link': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:319:3: note: in expansion of macro 'CALLOC' - 319 | CALLOC (res_ids, n_seqs+1, int *); +lpo.c:238:3: note: in expansion of macro 'CALLOC' + 238 | CALLOC(list->more,1,LPOLetterLink_T); /* ADD ENTRY TO LINKED LIST */ | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +lpo.c: In function 'add_lpo_sources': +In file included from lpo_format.c:3: +lpo_format.c: In function 'read_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:201:5: note: in expansion of macro 'CALLOC' - 201 | CALLOC (move[i], len_x, DPMove_T); - | ^~~~~~ +lpo_format.c:60:3: note: in expansion of macro 'CALLOC' + 60 | CALLOC(seq,1,LPOSequence_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +lpo_format.c:71:3: note: in expansion of macro 'CALLOC' + 71 | CALLOC(seq->letter,length,LPOLetter_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1830,88 +1784,102 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:198:3: note: in expansion of macro 'CALLOC' - 198 | CALLOC(match_pos,nsource_seq,int); +default.h:242:5: note: in expansion of macro 'CALLOC' + 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~ +lpo_format.c:72:3: note: in expansion of macro 'GETMEM' + 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ -./default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -./default.h:216:5: note: in expansion of macro 'REALLOC' - 216 | REALLOC(memptr,(NUM)+(BUF),ATYPE); \ +default.h:246:5: note: in expansion of macro 'REALLOC' + 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ | ^~~~~~~ -numeric_data.c:18:3: note: in expansion of macro 'REBUFF' - 18 | REBUFF(source_seq->data,source_seq->ndata,NUMDATA_BUFFER_CHUNK,LPONumericData_T); +lpo_format.c:72:3: note: in expansion of macro 'GETMEM' + 72 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ -./default.h:197:39: note: format string is defined here +default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +lpo_format.c:73:3: note: in expansion of macro 'CALLOC' + 73 | CALLOC(pos_count,nsource_seq,int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -./default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -numeric_data.c:25:3: note: in expansion of macro 'CALLOC' - 25 | CALLOC(data->data,source_seq->length,double); /* ALLOCATE THE ARRAY */ - | ^~~~~~ default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:326:5: note: in expansion of macro 'CALLOC' - 326 | CALLOC (column_ids[i], max_aln_length, int); - | ^~~~~~ -align_lpo_po2.c:438:44: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'int' [-Wformat=] - 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); - | ~~^ ~~~~~~~~~ - | | | - | long int int - | %d +lpo.c:252:7: note: in expansion of macro 'CALLOC' + 252 | CALLOC(new_s->more,1,LPOLetterSource_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +lpo.c: In function 'reindex_lpo_source_seqs': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:204:3: note: in expansion of macro 'CALLOC' - 204 | CALLOC (init_col_score, len_y+1, DPScore_T); +lpo.c:270:3: note: in expansion of macro 'CALLOC' + 270 | CALLOC (map, len, int); | ^~~~~~ -./default.h:156:37: note: format string is defined here +default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +lpo.c:271:3: note: in expansion of macro 'CALLOC' + 271 | CALLOC (invmap, len, int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -lpo.c: In function 'reindex_lpo_fusion': +In file included from buildup_lpo.c:3: +buildup_lpo.c: In function 'clip_unaligned_ends': +lpo_format.c: In function 'read_lpo_select': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:229:3: note: in expansion of macro 'CALLOC' - 229 | CALLOC(link_list,seq->length,int); /*TEMPORARY DATA FOR COMPACTION MAPPING */ +lpo_format.c:159:3: note: in expansion of macro 'CALLOC' + 159 | CALLOC(seq,1,LPOSequence_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1924,9 +1892,9 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:327:5: note: in expansion of macro 'CALLOC' - 327 | CALLOC (res_ids[i], max_aln_length, int); - | ^~~~~~ +buildup_lpo.c:146:3: note: in expansion of macro 'CALLOC' + 146 | CALLOC(temp,seq->length,LPOLetter_T); /* ALLOCATE NEW letter[] COPY */ + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -1938,16 +1906,23 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -buildup_lpo.c:538:5: note: in expansion of macro 'CALLOC' - 538 | CALLOC (perm, nseq_tot, int); - | ^~~~~~ +lpo_format.c:170:3: note: in expansion of macro 'CALLOC' + 170 | CALLOC(seq->letter,length,LPOLetter_T); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +buildup_lpo.c: In function 'read_seqpair_scorefile': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:207:3: note: in expansion of macro 'CALLOC' - 207 | CALLOC (curr_score, len_x+1, DPScore_T); +buildup_lpo.c:327:3: note: in expansion of macro 'CALLOC' + 327 | CALLOC (adj_score, nseq, int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1955,19 +1930,44 @@ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:330:3: note: in expansion of macro 'CALLOC' + 330 | CALLOC (score_list, max_nscore, SeqPairScore_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:353:9: note: in expansion of macro 'REALLOC' + 353 | REALLOC (score_list, max_nscore, SeqPairScore_T); + | ^~~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:427:3: note: in expansion of macro 'CALLOC' - 427 | CALLOC(do_fuse,len_y,char); /* MARK POSITIONS TO FUSE seq_y TO seq_x */ +default.h:242:5: note: in expansion of macro 'CALLOC' + 242 | CALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~ +lpo_format.c:171:3: note: in expansion of macro 'GETMEM' + 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -1975,35 +1975,45 @@ | | | int | %ld -align_lpo_po2.c:438:69: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'int' [-Wformat=] - 438 | fprintf (stderr, "aligned (%d nodes, %ld edges) to (%d nodes, %ld edges): ", len_x, n_edges_x, len_y, n_edges_y); - | ~~^ ~~~~~~~~~ - | | | - | long int int - | %d +lpo.c: In function 'reindex_lpo_fusion': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:230:3: note: in expansion of macro 'CALLOC' - 230 | CALLOC(pos_compact,seq->length,int); +lpo.c:427:3: note: in expansion of macro 'CALLOC' + 427 | CALLOC(do_fuse,len_y,char); /* MARK POSITIONS TO FUSE seq_y TO seq_x */ | ^~~~~~ -default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] +default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -msa_format.c:334:3: note: in expansion of macro 'CALLOC' - 334 | CALLOC (consens_row, max_aln_length, char); + | ~^ + | | + | int + | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +default.h:246:5: note: in expansion of macro 'REALLOC' + 246 | REALLOC(memptr,((NUM)+1)-((NUM)+1)%(BUF)+(BUF),TYPE);\ + | ^~~~~~~ +lpo_format.c:171:3: note: in expansion of macro 'GETMEM' + 171 | GETMEM(seq->source_seq,nsource_seq,last_alloc,SOURCE_SEQ_BUFFER_CHUNK,LPOSourceInfo_T); | ^~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -align_lpo2.c:209:3: note: in expansion of macro 'CALLOC' - 209 | CALLOC (prev_score, len_x+1, DPScore_T); +lpo_format.c:172:3: note: in expansion of macro 'CALLOC' + 172 | CALLOC(pos_count,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2011,12 +2021,15 @@ | | | int | %ld -default.h:156:37: note: format string is defined here +lpo.c: In function 'copy_fuse_lpo_remap': +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +lpo.c:500:3: note: in expansion of macro 'CALLOC' + 500 | CALLOC(new_seq,1,LPOSequence_T); /* CREATE A NEW HOLDER */ + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -2028,17 +2041,22 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:347:3: note: in expansion of macro 'CALLOC' - 347 | CALLOC (lposeq, 1, LPOSequence_T); +lpo_format.c:196:3: note: in expansion of macro 'CALLOC' + 196 | CALLOC(iseq_compact,nsource_seq,int); | ^~~~~~ -lpo.c: In function 'copy_fuse_lpo_remap': +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:231:3: note: in expansion of macro 'CALLOC' - 231 | CALLOC(ring_old,seq->length,int); +lpo.c:501:3: note: in expansion of macro 'CALLOC' + 501 | CALLOC(new_x,len_x,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2046,6 +2064,14 @@ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +lpo_format.c:197:3: note: in expansion of macro 'CALLOC' + 197 | CALLOC(last_pos,nsource_seq,int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -2057,8 +2083,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:500:3: note: in expansion of macro 'CALLOC' - 500 | CALLOC(new_seq,1,LPOSequence_T); /* CREATE A NEW HOLDER */ +lpo_format.c:198:3: note: in expansion of macro 'CALLOC' + 198 | CALLOC(match_pos,nsource_seq,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2071,8 +2097,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:351:3: note: in expansion of macro 'CALLOC' - 351 | CALLOC (lposeq->sequence, max_aln_length+1, char); +lpo.c:502:3: note: in expansion of macro 'CALLOC' + 502 | CALLOC(new_y,len_y,LPOLetterRef_T); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2085,8 +2111,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:501:3: note: in expansion of macro 'CALLOC' - 501 | CALLOC(new_x,len_x,LPOLetterRef_T); +lpo_format.c:229:3: note: in expansion of macro 'CALLOC' + 229 | CALLOC(link_list,seq->length,int); /*TEMPORARY DATA FOR COMPACTION MAPPING */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2099,23 +2125,22 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:369:3: note: in expansion of macro 'REALLOC' - 369 | REALLOC (lposeq->sequence, len+1, char); - | ^~~~~~~ +buildup_lpo.c:374:9: note: in expansion of macro 'REALLOC' + 374 | REALLOC (score_list, max_nscore, SeqPairScore_T); + | ^~~~~~~ default.h:197:39: note: format string is defined here 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ | ~^ | | | int | %ld -lpo_format.c: In function 'xlate_lpo_to_al': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:502:3: note: in expansion of macro 'CALLOC' - 502 | CALLOC(new_y,len_y,LPOLetterRef_T); +lpo.c:505:3: note: in expansion of macro 'CALLOC' + 505 | CALLOC(new_lpo,new_len,LPOLetter_T); /* ALLOCATE NEW LINEARIZED PO */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2128,8 +2153,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:353:3: note: in expansion of macro 'CALLOC' - 353 | CALLOC(seq_pos,seq->nsource_seq,char *); /* ALLOCATE MAP ARRAY*/ +lpo_format.c:230:3: note: in expansion of macro 'CALLOC' + 230 | CALLOC(pos_compact,seq->length,int); | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2142,40 +2167,52 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:375:5: note: in expansion of macro 'CALLOC' - 375 | CALLOC (curr_seq, 1, LPOSequence_T); - | ^~~~~~ +lpo_format.c:231:3: note: in expansion of macro 'CALLOC' + 231 | CALLOC(ring_old,seq->length,int); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:394:9: note: in expansion of macro 'REALLOC' + 394 | REALLOC (score_list, max_nscore, SeqPairScore_T); + | ^~~~~~~ +default.h:197:39: note: format string is defined here + 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld +lpo.c: In function 'copy_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:354:3: note: in expansion of macro 'CALLOC' - 354 | CALLOC(p,seq->nsource_seq*nring,char); +lpo.c:564:3: note: in expansion of macro 'CALLOC' + 564 | CALLOC(x_to_y,holder_x->length,LPOLetterRef_T); | ^~~~~~ -numeric_data.c: In function 'read_numeric_data': default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -numeric_data.c:139:11: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 139 | fscanf(ifile," %lf",data->data+j); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +buildup_lpo.c: In function 'buildup_progressive_lpo': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:505:3: note: in expansion of macro 'CALLOC' - 505 | CALLOC(new_lpo,new_len,LPOLetter_T); /* ALLOCATE NEW LINEARIZED PO */ +buildup_lpo.c:445:3: note: in expansion of macro 'CALLOC' + 445 | CALLOC(seq_cluster,nseq,int); /* MAPS SEQS (or CLUSTERS) TO CLUSTER THEY'RE IN */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2183,56 +2220,43 @@ | | | int | %ld +lpo.c: In function 'fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:380:5: note: in expansion of macro 'CALLOC' - 380 | CALLOC (curr_seq->sequence, aln_lengths[i]+1, char); - | ^~~~~~ +buildup_lpo.c:446:3: note: in expansion of macro 'CALLOC' + 446 | CALLOC(seq_id_in_cluster,nseq,int); /* INDEXES SEQS (or CLUSTERS) WITHIN EACH CLUSTER */ + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld +lpo_format.c: In function 'xlate_lpo_to_al': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo_format.c:374:5: note: in expansion of macro 'CALLOC' - 374 | CALLOC(include_in_save,nring,char); /* BLANK FLAGS: WHAT RINGS TO SHOW*/ - | ^~~~~~ +lpo.c:618:3: note: in expansion of macro 'CALLOC' + 618 | CALLOC(new_x,len_x,LPOLetterRef_T); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -lpo.c: In function 'copy_lpo': -default.h:197:22: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ - | | - | long unsigned int -msa_format.c:398:5: note: in expansion of macro 'REALLOC' - 398 | REALLOC (curr_seq->sequence, len+1, char); - | ^~~~~~~ -default.h:197:39: note: format string is defined here - 197 | fprintf(stderr,"requested %d x %d bytes \n",(NUM),sizeof(ATYPE)); \ - | ~^ - | | - | int - | %ld default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:564:3: note: in expansion of macro 'CALLOC' - 564 | CALLOC(x_to_y,holder_x->length,LPOLetterRef_T); +lpo_format.c:353:3: note: in expansion of macro 'CALLOC' + 353 | CALLOC(seq_pos,seq->nsource_seq,char *); /* ALLOCATE MAP ARRAY*/ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2245,9 +2269,9 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:406:5: note: in expansion of macro 'CALLOC' - 406 | CALLOC (al_x, len, int); - | ^~~~~~ +buildup_lpo.c:447:3: note: in expansion of macro 'CALLOC' + 447 | CALLOC(cluster_size,nseq,int); /* COUNTS SEQS IN SAME CLUSTER (updated w/ merges) */ + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -2259,23 +2283,22 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:407:5: note: in expansion of macro 'CALLOC' - 407 | CALLOC (al_y, lposeq->length, int); - | ^~~~~~ +lpo_format.c:354:3: note: in expansion of macro 'CALLOC' + 354 | CALLOC(p,seq->nsource_seq*nring,char); + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ | | | int | %ld -lpo.c: In function 'fuse_lpo_remap': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -lpo.c:618:3: note: in expansion of macro 'CALLOC' - 618 | CALLOC(new_x,len_x,LPOLetterRef_T); +buildup_lpo.c:448:3: note: in expansion of macro 'CALLOC' + 448 | CALLOC(initial_nseq,nseq,int); /* COUNTS SEQS INITIALLY IN EACH CLUSTER (not updated w/ merges) */ | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ @@ -2297,15 +2320,14 @@ | | | int | %ld -msa_format.c: In function 'filter_sequence_set': default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ | | | long unsigned int -msa_format.c:485:3: note: in expansion of macro 'CALLOC' - 485 | CALLOC (keep_seq, n_seqs, int); - | ^~~~~~ +lpo_format.c:374:5: note: in expansion of macro 'CALLOC' + 374 | CALLOC(include_in_save,nring,char); /* BLANK FLAGS: WHAT RINGS TO SHOW*/ + | ^~~~~~ default.h:156:37: note: format string is defined here 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ | ~^ @@ -2326,6 +2348,20 @@ | | | int | %ld +default.h:156:20: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long unsigned int' [-Wformat=] + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~~~~~ + | | + | long unsigned int +buildup_lpo.c:538:5: note: in expansion of macro 'CALLOC' + 538 | CALLOC (perm, nseq_tot, int); + | ^~~~~~ +default.h:156:37: note: format string is defined here + 156 | fprintf(stderr,"requested %d x %d bytes \n",(N),sizeof(ATYPE)); \ + | ~^ + | | + | int + | %ld 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] 61 | fscanf(ifile,"VERSION=%s",version); @@ -2387,7 +2423,7 @@ 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.aiKOHkN4R5... +...Wrote 4 sequences to CLUSTAL file /tmp/tmp.TzsTrUi1Ll... 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 @@ -2428,12 +2464,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1922306/tmp/hooks/B01_cleanup finished 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/813548 and its subdirectories -I: Current time: Sat Dec 27 04:01:30 -12 2025 -I: pbuilder-time-stamp: 1766851290 +I: removing directory /srv/workspace/pbuilder/1922306 and its subdirectories +I: Current time: Sun Nov 24 23:39:30 +14 2024 +I: pbuilder-time-stamp: 1732441170 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/poa_2.0+20060928-9.diff: 92.0% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/poa_2.0+20060928-9.diff.gz b2/build.log: 91.7% -- replaced with stdout Compressing the 1st log... b1/build.log: 91.9% -- replaced with stdout Sun Nov 24 09:39:33 UTC 2024 I: diffoscope 283 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_poa_unstable_amd64_1732441173 + touch /var/log/reproducible-builds/diffoscope_stamp_poa_unstable_amd64_1732441173 + RESULT=0 + systemd-run '--description=diffoscope on poa/2.0+20060928-9 in unstable/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_26-24486 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG --run-session -c jenkins-reproducible-unstable-diffoscope-5dff9d0b-da54-4560-84b2-f7fade7169c4 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/dbd-tmp-5IzvNBA ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/poa_2.0+20060928-9.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/poa_2.0+20060928-9.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/poa_2.0+20060928-9.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b1/poa_2.0+20060928-9_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b2/poa_2.0+20060928-9_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_26-24486.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/poa_2.0+20060928-9.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/poa_2.0+20060928-9.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/poa_2.0+20060928-9.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b1/poa_2.0+20060928-9_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.cwmlMUpG/b2/poa_2.0+20060928-9_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: 0.352s) 0.352s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.017s) 0.017s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 700ms CPU time consumed: 686ms _ __ ___ __ _ | '_ \ / _ \ / _` | | |_) | (_) | (_| | | .__/ \___/ \__,_| |_| Sun Nov 24 09:39:34 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Sun Nov 24 09:39:34 UTC 2024 I: poa from unstable built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2024-11-24 09:39:35] INFO: Starting at 2024-11-24 09:39:35.208011 [2024-11-24 09:39:35] INFO: Generating the pages of 1 package(s) [2024-11-24 09:39:35] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/amd64/poa didn't produce a buildlog, even though it has been built. [2024-11-24 09:39:35] INFO: Finished at 2024-11-24 09:39:35.777786, took: 0:00:00.569785 Sun Nov 24 09:39:35 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/poa.html Sun Nov 24 09:39:35 UTC 2024 I: Submitting .buildinfo files to external archives: Sun Nov 24 09:39:35 UTC 2024 I: Submitting 8.0K b1/poa_2.0+20060928-9_amd64.buildinfo.asc https://buildinfo.debian.net/47650c3bd0c6c15d2fd3a41babaf27ee2b68b69b/poa_2.0+20060928-9_amd64 Sun Nov 24 09:39:36 UTC 2024 I: Submitting 8.0K b2/poa_2.0+20060928-9_amd64.buildinfo.asc https://buildinfo.debian.net/4fd7643705cc69bc81794a615ff1ebd404217384/poa_2.0+20060928-9_amd64 Sun Nov 24 09:39:37 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Nov 24 09:39:37 UTC 2024 I: Done submitting .buildinfo files. Sun Nov 24 09:39:37 UTC 2024 I: Removing signed poa_2.0+20060928-9_amd64.buildinfo.asc files: removed './b1/poa_2.0+20060928-9_amd64.buildinfo.asc' removed './b2/poa_2.0+20060928-9_amd64.buildinfo.asc' 1732441177 amd64 unstable poa Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/poa_2.0+20060928-9.rbuild.log: 90.3% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/poa_2.0+20060928-9.rbuild.log.gz [2024-11-24 09:39:37] INFO: Starting at 2024-11-24 09:39:37.804340 [2024-11-24 09:39:37] INFO: Generating the pages of 1 package(s) [2024-11-24 09:39:38] INFO: Finished at 2024-11-24 09:39:38.414503, took: 0:00:00.610175 All cleanup done. Sun Nov 24 09:39:38 UTC 2024 - total duration: 0h 1m 40s. Sun Nov 24 09:39:38 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-3Q9r03nN, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 1min 43.985s CPU time consumed: 8.444s