Diff of the two buildlogs: -- --- b1/build.log 2024-10-03 14:57:50.989638955 +0000 +++ b2/build.log 2024-10-03 14:59:01.254650123 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Oct 3 02:56:46 -12 2024 -I: pbuilder-time-stamp: 1727967406 +I: Current time: Thu Nov 6 11:20:53 +14 2025 +I: pbuilder-time-stamp: 1762377653 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -31,51 +31,83 @@ dpkg-source: info: applying gcc14.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2629661/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1442533/tmp/hooks/D01_modify_environment starting +debug: Running on infom02-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 5 21:21 /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/1442533/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1442533/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' + 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=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + 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='86e4a13fb8bb49a8bbe29b009502d2f6' - 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='2629661' - PS1='# ' - PS2='> ' + INVOCATION_ID=ba8dfc1cb7994e3f90e0037472961eff + 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=1442533 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.xEXvWwwZ/pbuilderrc_9Fer --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.xEXvWwwZ/b1 --logfile b1/build.log paml_4.9j+dfsg-5.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + 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.xEXvWwwZ/pbuilderrc_C7H1 --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.xEXvWwwZ/b2 --logfile b2/build.log paml_4.9j+dfsg-5.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom01-amd64 6.1.0-25-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.106-3 (2024-08-26) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.10.6+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.6-1~bpo12+1 (2024-08-26) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2629661/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1442533/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -140,7 +172,7 @@ 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 0s (78.2 MB/s) +Fetched 19.8 MB in 1s (18.9 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 ... 19785 files and directories currently installed.) @@ -271,7 +303,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/paml-4.9j+dfsg/ && 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 > ../paml_4.9j+dfsg-5_source.changes +I: user script /srv/workspace/pbuilder/1442533/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/1442533/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/paml-4.9j+dfsg/ && 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 > ../paml_4.9j+dfsg-5_source.changes dpkg-buildpackage: info: source package paml dpkg-buildpackage: info: source version 4.9j+dfsg-5 dpkg-buildpackage: info: source distribution unstable @@ -307,7 +343,11 @@ cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/paml-4.9j+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O3 -o evolver evolver.c tools.c -Wl,-z,relro -Wl,-z,now -lm cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/paml-4.9j+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O3 -o yn00 yn00.c tools.c -Wl,-z,relro -Wl,-z,now -lm cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/paml-4.9j+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O3 -o chi2 chi2.c -Wl,-z,relro -Wl,-z,now -lm -In file included from basemlg.c:82: +chi2.c: In function 'main': +chi2.c:54:10: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 54 | scanf ("%d%lf", &df, &chi2); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from yn00.c:70: treesub.c: In function 'ReadSeq': treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 627 | fgets(line, lline, fseq); @@ -318,27 +358,8 @@ treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -chi2.c: In function 'main': -chi2.c:54:10: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 54 | scanf ("%d%lf", &df, &chi2); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from pamp.c:66: treesub.c: In function 'ReadSeq': -treesub.c: In function 'ReadTreeB': -treesub.c:2812:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 2812 | fscanf(ftree, "%d", &tree.nbranch); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:2827:17: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 2827 | if (popline) fgets(line, 254, ftree); - | ^~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'ReadTreeN': -treesub.c:3091:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 3151 | fgets(line, lline, ftree); - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'readx': treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ @@ -348,9 +369,7 @@ treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:3956:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 3956 | fscanf(finitials, "%lf", &xin[i = 0]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from evolver.c:67: treesub.c: In function 'ReadTreeB': treesub.c:2812:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); @@ -365,91 +384,38 @@ treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from mcmctree.c:192: -treesub.c: In function 'ReadMorphology': -pamp.c: In function 'main': -In file included from yn00.c:70: -treesub.c: In function 'ReadSeq': -treesub.c:447:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 447 | fscanf(fin, "%s", com.spname[i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:450:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 450 | fscanf(fin, "%lf", &data.zmorph[locus][i][j]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'GetNSfromTreeFile': +treesub.c:4159:16: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 4159 | fscanf(ftree, "%lf", &y); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +In file included from basemlg.c:82: treesub.c: In function 'ReadSeq': +treesub.c: In function 'CladeSupport': treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 627 | fgets(line, lline, fseq); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:660:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); | ^~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:4369:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 4369 | fscanf(fM, "%d%d", &i, &ntreeM); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:4397:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 4397 | fgets(line, lline, ft); + | ^~~~~~~~~~~~~~~~~~~~~~ +treesub.c:4419:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 4419 | fscanf(fM, "%d%d", &s, &ntreeM); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 949 | fscanf(fseq, "%lf", &com.fpatt[h]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -pamp.c:115:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 115 | fscanf(ftree, "%d%d", &i, &ntree); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 627 | fgets(line, lline, fseq); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:660:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); - | ^~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 949 | fscanf(fseq, "%lf", &com.fpatt[h]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'ReadTreeB': -treesub.c:2812:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 2812 | fscanf(ftree, "%d", &tree.nbranch); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:2827:17: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 2827 | if (popline) fgets(line, 254, ftree); - | ^~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'ReadTreeN': -treesub.c:3091:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 3151 | fgets(line, lline, ftree); - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'ReadTreeSeqs': -treesub.c:8742:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -mcmctree.c: In function 'ReadBlengthGH': -mcmctree.c:840:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 840 | fscanf(fBGH, "%d", &i); - | ^~~~~~~~~~~~~~~~~~~~~~ -mcmctree.c:861:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 861 | fscanf(fBGH, "%lf", &data.blMLE[locus][i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -mcmctree.c:868:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 868 | fscanf(fBGH, "%lf", &data.Gradient[locus][i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -mcmctree.c:870:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 870 | fscanf(fBGH, "%s", line); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -mcmctree.c: In function 'GenerateBlengthGH': -mcmctree.c:1028:7: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] - 1028 | system(line); - | ^~~~~~~~~~~~ -In file included from evolver.c:67: treesub.c: In function 'ReadTreeB': -mcmctree.c: In function 'Infinitesites': -In file included from baseml.c:131: -treesub.c: In function 'ReadSeq': treesub.c:2812:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ -mcmctree.c:1385:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 1385 | fscanf(fin, "%d", &i); - | ^~~~~~~~~~~~~~~~~~~~~ -mcmctree.c:1396:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 1396 | fscanf(fin, "%lf", &FixedDs[i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function 'ReadTreeN': treesub.c:3091:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); @@ -457,43 +423,7 @@ treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'GetNSfromTreeFile': -treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 627 | fgets(line, lline, fseq); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:660:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); - | ^~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 949 | fscanf(fseq, "%lf", &com.fpatt[h]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:4159:16: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 4159 | fscanf(ftree, "%lf", &y); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'CladeSupport': -treesub.c:4369:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 4369 | fscanf(fM, "%d%d", &i, &ntreeM); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:4397:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 4397 | fgets(line, lline, ft); - | ^~~~~~~~~~~~~~~~~~~~~~ -treesub.c:4419:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 4419 | fscanf(fM, "%d%d", &s, &ntreeM); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from codeml.c:238: -treesub.c: In function 'ReadSeq': evolver.c: In function 'main': -mcmctree.c: In function 'DescriptiveStatisticsSimpleMCMCTREE': -treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 627 | fgets(line, lline, fseq); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:660:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); - | ^~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 949 | fscanf(fseq, "%lf", &com.fpatt[h]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'ReadTreeB': evolver.c:156:10: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 156 | scanf("%d", &option); | ^~~~~~~~~~~~~~~~~~~~ @@ -513,9 +443,6 @@ 214 | scanf("%s%s", treefile, mastertreefile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c: In function 'between_f_and_x': -mcmctree.c:3824:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 3824 | fscanf(fin, "%lf", &dat[j*n + i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:244:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 244 | scanf("%d", &fromf); | ^~~~~~~~~~~~~~~~~~~ @@ -555,25 +482,22 @@ evolver.c:459:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 459 | scanf("%d", &k); | ^~~~~~~~~~~~~~~ +pamp.c: In function 'main': +pamp.c:115:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 115 | fscanf(ftree, "%d%d", &i, &ntree); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c: In function 'GetDaa': evolver.c:639:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 639 | fscanf(fdaa, "%lf", &daa[i*n + j]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c: In function 'Simulate': +treesub.c: In function 'ReadTreeB': treesub.c:2812:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:2827:17: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 2827 | if (popline) fgets(line, 254, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'ReadTreeN': -treesub.c:3091:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 3151 | fgets(line, lline, ftree); - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'readx': +evolver.c: In function 'Simulate': evolver.c:810:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 810 | fscanf(fin, "%d", &format); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -619,12 +543,16 @@ evolver.c:883:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 883 | fscanf(fin, "%d", &com.ncatG); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'ReadTreeN': evolver.c:883:43: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 883 | fscanf(fin, "%d", &com.ncatG); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ evolver.c:885:28: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 885 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:3091:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:885:64: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 885 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -637,6 +565,9 @@ evolver.c:892:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 892 | fscanf(fin, "%d", &com.ncatG); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 3151 | fgets(line, lline, ftree); + | ^~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c:892:43: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 892 | fscanf(fin, "%d", &com.ncatG); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -682,10 +613,32 @@ evolver.c:971:40: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 971 | fscanf(fin, "%d", &com.icode); fgets(line, lline, fin); | ^~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'readx': +treesub.c:3956:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 3956 | fscanf(finitials, "%lf", &xin[i = 0]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ evolver.c: In function 'CladeMrBayesProbabilities': evolver.c:1269:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 1269 | fscanf(ftree, "%d%d", &i, &k); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from mcmctree.c:192: +treesub.c: In function 'ReadMorphology': +treesub.c:447:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 447 | fscanf(fin, "%s", com.spname[i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:450:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 450 | fscanf(fin, "%lf", &data.zmorph[locus][i][j]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'ReadSeq': +treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 627 | fgets(line, lline, fseq); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:660:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); + | ^~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 949 | fscanf(fseq, "%lf", &com.fpatt[h]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function 'ReadTreeB': treesub.c:2812:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 2812 | fscanf(ftree, "%d", &tree.nbranch); @@ -700,21 +653,63 @@ treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 3151 | fgets(line, lline, ftree); | ^~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:3956:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 3956 | fscanf(finitials, "%lf", &xin[i = 0]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'Perturbation': -treesub.c:4565:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 4565 | fscanf(ftree, "%d%d", &i, &ntree); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'StarDecomposition': -treesub.c:4867:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 4867 | fscanf(ftree, "%d%d", &i, &ntree); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from baseml.c:131: +treesub.c: In function 'ReadSeq': +treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 627 | fgets(line, lline, fseq); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:660:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); + | ^~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 949 | fscanf(fseq, "%lf", &com.fpatt[h]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'ReadTreeSeqs': +treesub.c:8742:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'ReadTreeB': +treesub.c:2812:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 2812 | fscanf(ftree, "%d", &tree.nbranch); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:2827:17: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 2827 | if (popline) fgets(line, 254, ftree); + | ^~~~~~~~~~~~~~~~~~~~~~~ +mcmctree.c: In function 'ReadBlengthGH': +mcmctree.c:840:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 840 | fscanf(fBGH, "%d", &i); + | ^~~~~~~~~~~~~~~~~~~~~~ +mcmctree.c:861:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 861 | fscanf(fBGH, "%lf", &data.blMLE[locus][i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +mcmctree.c:868:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 868 | fscanf(fBGH, "%lf", &data.Gradient[locus][i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +mcmctree.c:870:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 870 | fscanf(fBGH, "%s", line); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'ReadTreeN': +treesub.c:3091:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 3151 | fgets(line, lline, ftree); + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +mcmctree.c: In function 'GenerateBlengthGH': +mcmctree.c:1028:7: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] + 1028 | system(line); + | ^~~~~~~~~~~~ treesub.c: In function 'readx': +mcmctree.c: In function 'Infinitesites': treesub.c:3956:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3956 | fscanf(finitials, "%lf", &xin[i = 0]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +mcmctree.c:1385:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 1385 | fscanf(fin, "%d", &i); + | ^~~~~~~~~~~~~~~~~~~~~ +mcmctree.c:1396:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 1396 | fscanf(fin, "%lf", &FixedDs[i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function 'Perturbation': treesub.c:4565:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 4565 | fscanf(ftree, "%d%d", &i, &ntree); @@ -736,6 +731,65 @@ treesub.c:5763:10: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 5763 | fgets(line, lline, flnf); | ^~~~~~~~~~~~~~~~~~~~~~~~ +mcmctree.c: In function 'DescriptiveStatisticsSimpleMCMCTREE': +mcmctree.c:3824:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 3824 | fscanf(fin, "%lf", &dat[j*n + i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'ReadTreeSeqs': +treesub.c:8742:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'AdHocRateSmoothing': +treesub.c:9574:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 9574 | fscanf(finStep1, "%lf", &x[i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:9672:36: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 9672 | for (i = 0; i < com.np; i++) fscanf(finStep2, "%lf", &x[i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:9765:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 9765 | scanf("%lf", &Rj[j]); + | ^~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'DatingHeteroData': +treesub.c:9884:10: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 9884 | scanf("%lf%d? ", &nu_AHRS, &nbrate); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from codeml.c:238: +treesub.c: In function 'ReadSeq': +treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 627 | fgets(line, lline, fseq); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:660:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 660 | if (com.ngene > 9) fscanf(fseq, "%d", &ch); + | ^~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:949:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 949 | fscanf(fseq, "%lf", &com.fpatt[h]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'ReadTreeB': +treesub.c:2812:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 2812 | fscanf(ftree, "%d", &tree.nbranch); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:2827:17: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 2827 | if (popline) fgets(line, 254, ftree); + | ^~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'ReadTreeN': +treesub.c:3091:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 3091 | fscanf(ftree, "%lf", &nodes[inode].branch); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c:3151:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 3151 | fgets(line, lline, ftree); + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'readx': +treesub.c:3956:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 3956 | fscanf(finitials, "%lf", &xin[i = 0]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'Perturbation': +treesub.c:4565:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 4565 | fscanf(ftree, "%d%d", &i, &ntree); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +treesub.c: In function 'StarDecomposition': +treesub.c:4867:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 4867 | fscanf(ftree, "%d%d", &i, &ntree); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function 'rell': treesub.c:5728:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 5728 | fscanf(flnf, "%d%d%d", &ntree0, &ls0, &npatt0); @@ -750,25 +804,10 @@ 5763 | fgets(line, lline, flnf); | ^~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function 'ReadTreeSeqs': -treesub.c: In function 'ReadTreeSeqs': -treesub.c:8742:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c:8742:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 8742 | fscanf(ftree, "%d%d", &stree.nspecies, &i); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ treesub.c: In function 'AdHocRateSmoothing': -treesub.c: In function 'AdHocRateSmoothing': -treesub.c:9574:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 9574 | fscanf(finStep1, "%lf", &x[i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:9672:36: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 9672 | for (i = 0; i < com.np; i++) fscanf(finStep2, "%lf", &x[i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:9765:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 9765 | scanf("%lf", &Rj[j]); - | ^~~~~~~~~~~~~~~~~~~~ -treesub.c: In function 'DatingHeteroData': treesub.c:9574:13: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 9574 | fscanf(finStep1, "%lf", &x[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -782,9 +821,6 @@ treesub.c:9884:10: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 9884 | scanf("%lf%d? ", &nu_AHRS, &nbrate); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -treesub.c:9884:10: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 9884 | scanf("%lf%d? ", &nu_AHRS, &nbrate); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codeml.c: In function 'GetDaa': codeml.c:3911:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3911 | fscanf(fdaa, "%lf", &daa[i*naa + j]); @@ -840,6 +876,36 @@ tools.c:5689:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +tools.c: In function 'gfopen': +tools.c:1148:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 1148 | scanf("%s", filename); + | ^~~~~~~~~~~~~~~~~~~~~ +tools.c: In function 'scanfile': +tools.c:5356:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 5356 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +tools.c: In function 'DescriptiveStatistics': +tools.c:5678:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 5678 | fscanf(fin, "%lf", &data[j*n + i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +tools.c:5689:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +tools.c: In function 'gfopen': +tools.c:1148:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 1148 | scanf("%s", filename); + | ^~~~~~~~~~~~~~~~~~~~~ +tools.c: In function 'scanfile': +tools.c:5356:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 5356 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +tools.c: In function 'DescriptiveStatistics': +tools.c:5678:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 5678 | fscanf(fin, "%lf", &data[j*n + i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +tools.c:5689:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:3861:54: warning: '%.6g' directive writing between 1 and 13 bytes into a region of size between 7 and 19 [-Wformat-overflow=] 3861 | sprintf(nodes[j].annotation, "[&95%%HPD={%.6g, %.6g}]", xHPD025[jj], xHPD975[jj]); | ^~~~ @@ -888,21 +954,6 @@ tools.c:5689:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -tools.c: In function 'gfopen': -tools.c:1148:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 1148 | scanf("%s", filename); - | ^~~~~~~~~~~~~~~~~~~~~ -tools.c: In function 'scanfile': -tools.c:5356:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 5356 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -tools.c: In function 'DescriptiveStatistics': -tools.c:5678:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 5678 | fscanf(fin, "%lf", &data[j*n + i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -tools.c:5689:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/paml-4.9j+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -O3 -o infinitesites -D INFINITESITES mcmctree.c tools.c -Wl,-z,relro -Wl,-z,now -lm In file included from mcmctree.c:192: treesub.c: In function 'ReadMorphology': @@ -983,21 +1034,6 @@ tools.c:5689:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -tools.c: In function 'gfopen': -tools.c:1148:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 1148 | scanf("%s", filename); - | ^~~~~~~~~~~~~~~~~~~~~ -tools.c: In function 'scanfile': -tools.c:5356:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 5356 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -tools.c: In function 'DescriptiveStatistics': -tools.c:5678:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 5678 | fscanf(fin, "%lf", &data[j*n + i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -tools.c:5689:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 5689 | scanf("%d%d", &ivar_f2d[i][0], &ivar_f2d[i][1]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmctree.c:3861:54: warning: '%.6g' directive writing between 1 and 13 bytes into a region of size between 7 and 19 [-Wformat-overflow=] 3861 | sprintf(nodes[j].annotation, "[&95%%HPD={%.6g, %.6g}]", xHPD025[jj], xHPD975[jj]); | ^~~~ @@ -1097,12 +1133,14 @@ 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/1442533/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1442533/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/2629661 and its subdirectories -I: Current time: Thu Oct 3 02:57:50 -12 2024 -I: pbuilder-time-stamp: 1727967470 +I: removing directory /srv/workspace/pbuilder/1442533 and its subdirectories +I: Current time: Thu Nov 6 11:22:00 +14 2025 +I: pbuilder-time-stamp: 1762377720