Diff of the two buildlogs: -- --- b1/build.log 2024-07-20 12:29:43.035037076 +0000 +++ b2/build.log 2024-07-20 12:35:30.464294950 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Jul 20 00:08:05 -12 2024 -I: pbuilder-time-stamp: 1721477285 +I: Current time: Sun Jul 21 02:29:59 +14 2024 +I: pbuilder-time-stamp: 1721478599 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -31,52 +31,84 @@ dpkg-source: info: applying gcc14.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/6968/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/28247/tmp/hooks/D01_modify_environment starting +debug: Running on ff64a. +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 Jul 20 12:30 /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/28247/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/28247/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='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='armhf' + 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]="21" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='a57beeb2671241f092d6ffd34b584739' - 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='6968' - PS1='# ' - PS2='> ' + INVOCATION_ID=21d54ae004fa44afb03220915c1247cf + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + 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=28247 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.DSlMC36i/pbuilderrc_dsdm --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.DSlMC36i/b1 --logfile b1/build.log paml_4.9j+dfsg-5.dsc' - SUDO_GID='113' - SUDO_UID='107' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + 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.DSlMC36i/pbuilderrc_CBSD --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.DSlMC36i/b2 --logfile b2/build.log paml_4.9j+dfsg-5.dsc' + SUDO_GID=114 + SUDO_UID=109 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux cbxi4a 6.1.0-23-armmp #1 SMP Debian 6.1.99-1 (2024-07-15) armv7l GNU/Linux + Linux i-capture-the-hostname 6.1.0-23-arm64 #1 SMP Debian 6.1.99-1 (2024-07-15) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 22:35 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/6968/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/28247/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 trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf debhelper all 13.16 [891 kB] -Fetched 18.9 MB in 3s (7084 kB/s) +Fetched 18.9 MB in 1s (35.4 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 ... 19416 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/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/28247/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/28247/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 @@ -284,7 +320,7 @@ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/paml-4.9j+dfsg' dh_auto_clean - cd src && make -j3 clean + cd src && make -j6 clean make[2]: Entering directory '/build/reproducible-path/paml-4.9j+dfsg/src' rm -f baseml codeml basemlg mcmctree pamp evolver yn00 chi2 infinitesites make[2]: Leaving directory '/build/reproducible-path/paml-4.9j+dfsg/src' @@ -298,11 +334,230 @@ dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src dh_auto_build -O--sourcedirectory=src - cd src && make -j3 "INSTALL=install --strip-program=true" + cd src && make -j6 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/paml-4.9j+dfsg/src' cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o baseml baseml.c tools.c -Wl,-z,relro -Wl,-z,now -lm cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o codeml codeml.c tools.c -Wl,-z,relro -Wl,-z,now -lm cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o basemlg basemlg.c tools.c -Wl,-z,relro -Wl,-z,now -lm +cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o mcmctree mcmctree.c tools.c -Wl,-z,relro -Wl,-z,now -lm +cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o pamp pamp.c tools.c -Wl,-z,relro -Wl,-z,now -lm +cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o evolver evolver.c tools.c -Wl,-z,relro -Wl,-z,now -lm +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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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 'GetNSfromTreeFile': +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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c: In function 'main': +evolver.c:156:10: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 156 | scanf("%d", &option); + | ^~~~~~~~~~~~~~~~~~~~ +evolver.c:162:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 162 | scanf("%d", &com.ns); + | ^~~~~~~~~~~~~~~~~~~~ +evolver.c:169:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 169 | scanf("%d%d", &ntree, &i); + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:172:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 172 | scanf("%d", &BD); + | ^~~~~~~~~~~~~~~~ +evolver.c:192:16: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 192 | scanf("%lf%lf%lf%lf", &birth, &death, &sample, &mut); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:214:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 214 | scanf("%s%s", treefile, mastertreefile); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c: In function 'between_f_and_x': +evolver.c:244:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 244 | scanf("%d", &fromf); + | ^~~~~~~~~~~~~~~~~~~ +evolver.c:246:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 246 | scanf("%d", &n); if (n > 100) error2("too many classes"); + | ^~~~~~~~~~~~~~~ +evolver.c:248:21: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 248 | FOR(i, n - 1) scanf("%lf", &x[i]); + | ^~~~~~~~~~~~~~~~~~~ +evolver.c: In function 'LabelClades': +evolver.c:270:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 270 | scanf("%s", treef); + | ^~~~~~~~~~~~~~~~~~ +evolver.c:272:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 272 | scanf("%d", &unrooted); + | ^~~~~~~~~~~~~~~~~~~~~~ +evolver.c:275:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 275 | fscanf(ftree, "%d%d", &com.ns, &j); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:292:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 292 | scanf("%s", key); + | ^~~~~~~~~~~~~~~~ +evolver.c: In function 'TreeDistanceDistribution': +evolver.c:391:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 391 | scanf("%s", treef); + | ^~~~~~~~~~~~~~~~~~ +evolver.c:394:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 394 | fscanf(ftree, "%d%d", &com.ns, &ntree); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c: In function 'TreeDistances': +evolver.c:447:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 447 | scanf("%s", treef); + | ^~~~~~~~~~~~~~~~~~ +evolver.c:450:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 450 | fscanf(ftree, "%d%d", &com.ns, &ntree); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:459:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 459 | scanf("%d", &k); + | ^~~~~~~~~~~~~~~ +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': +evolver.c:810:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 810 | fscanf(fin, "%d", &format); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:811:4: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 811 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:815:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 815 | fscanf(fin, "%d", &i); + | ^~~~~~~~~~~~~~~~~~~~~ +evolver.c:816:4: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 816 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:818:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 818 | fscanf(fin, "%d%d%d", &com.ns, &com.ls, &nr); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:819:4: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 819 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:831:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 831 | fscanf(fin, "%lf", &tlength); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:831:39: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 831 | fscanf(fin, "%lf", &tlength); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:855:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 855 | fscanf(fin, "%lf%lf%lf%lf", &birth, &death, &sample, &mut); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:856:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 856 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:861:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 861 | fscanf(fin, "%d", &com.model); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:862:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 862 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:869:21: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 869 | FOR(i, nrate) fscanf(fin, "%lf", &Qrates[i]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:870:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 870 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:886:28: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 886 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.rK[i]); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:886:64: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 886 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.rK[i]); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:894:28: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 894 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:894:64: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 894 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:925:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 925 | fscanf(fin, "%lf", &com.omega); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:926:10: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 926 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:932:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 932 | fscanf(fin, "%lf", &com.kappa); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:932:41: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 932 | fscanf(fin, "%lf", &com.kappa); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:937:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 937 | fscanf(fin, "%lf%d", &com.alpha, &com.ncatG); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:938:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 938 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:954:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 954 | fscanf(fin, "%d", &com.model); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:956:29: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 956 | if (com.model >= 2) { fscanf(fin, "%s", com.daafile); GetDaa(NULL, com.daa); } + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:957:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] + 957 | fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:964:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 964 | for (k = 0; k < com.ncode; k++) fscanf(fin, "%lf", &com.pi[k]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +evolver.c:971:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] + 971 | fscanf(fin, "%d", &com.icode); fgets(line, lline, fin); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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); + | ^~~~~~~~~~~~~~~~~~~~~~~ +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 pamp.c:66: +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]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from basemlg.c:82: treesub.c: In function 'ReadSeq': treesub.c:627:13: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] @@ -328,22 +583,58 @@ 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: 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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 '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]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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: In function 'ReadTreeB': 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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -365,10 +656,35 @@ 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 '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 '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 '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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +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 '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); @@ -386,31 +702,6 @@ 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); @@ -418,13 +709,37 @@ 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': treesub.c: In function 'ReadTreeN': +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: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); + | ^~~~~~~~~~~~ +mcmctree.c: In function 'Infinitesites': +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 '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]); @@ -464,6 +779,28 @@ treesub.c:9765:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] 9765 | scanf("%lf", &Rj[j]); | ^~~~~~~~~~~~~~~~~~~~ +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 '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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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); @@ -508,71 +845,6 @@ 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]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o mcmctree mcmctree.c tools.c -Wl,-z,relro -Wl,-z,now -lm -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~ -mcmctree.c: In function 'Infinitesites': -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]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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); @@ -606,36 +878,6 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ -cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o pamp pamp.c tools.c -Wl,-z,relro -Wl,-z,now -lm -In file included from pamp.c:66: -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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); @@ -666,6 +908,23 @@ 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 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o yn00 yn00.c tools.c -Wl,-z,relro -Wl,-z,now -lm +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); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +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]); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o chi2 chi2.c -Wl,-z,relro -Wl,-z,now -lm +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); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ 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); @@ -746,224 +1005,21 @@ 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]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o evolver evolver.c tools.c -Wl,-z,relro -Wl,-z,now -lm -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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 'GetNSfromTreeFile': -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c: In function 'main': -evolver.c:156:10: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 156 | scanf("%d", &option); - | ^~~~~~~~~~~~~~~~~~~~ -evolver.c:162:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 162 | scanf("%d", &com.ns); - | ^~~~~~~~~~~~~~~~~~~~ -evolver.c:169:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 169 | scanf("%d%d", &ntree, &i); - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:172:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 172 | scanf("%d", &BD); - | ^~~~~~~~~~~~~~~~ -evolver.c:192:16: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 192 | scanf("%lf%lf%lf%lf", &birth, &death, &sample, &mut); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:214:13: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 214 | scanf("%s%s", treefile, mastertreefile); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c: In function 'between_f_and_x': -evolver.c:244:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 244 | scanf("%d", &fromf); - | ^~~~~~~~~~~~~~~~~~~ -evolver.c:246:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 246 | scanf("%d", &n); if (n > 100) error2("too many classes"); - | ^~~~~~~~~~~~~~~ -evolver.c:248:21: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 248 | FOR(i, n - 1) scanf("%lf", &x[i]); - | ^~~~~~~~~~~~~~~~~~~ -evolver.c: In function 'LabelClades': -evolver.c:270:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 270 | scanf("%s", treef); - | ^~~~~~~~~~~~~~~~~~ -evolver.c:272:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 272 | scanf("%d", &unrooted); - | ^~~~~~~~~~~~~~~~~~~~~~ -evolver.c:275:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 275 | fscanf(ftree, "%d%d", &com.ns, &j); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:292:7: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 292 | scanf("%s", key); - | ^~~~~~~~~~~~~~~~ -evolver.c: In function 'TreeDistanceDistribution': -evolver.c:391:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 391 | scanf("%s", treef); - | ^~~~~~~~~~~~~~~~~~ -evolver.c:394:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 394 | fscanf(ftree, "%d%d", &com.ns, &ntree); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c: In function 'TreeDistances': -evolver.c:447:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 447 | scanf("%s", treef); - | ^~~~~~~~~~~~~~~~~~ -evolver.c:450:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 450 | fscanf(ftree, "%d%d", &com.ns, &ntree); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:459:4: warning: ignoring return value of 'scanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 459 | scanf("%d", &k); - | ^~~~~~~~~~~~~~~ -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': -evolver.c:810:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 810 | fscanf(fin, "%d", &format); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:811:4: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 811 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:815:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 815 | fscanf(fin, "%d", &i); - | ^~~~~~~~~~~~~~~~~~~~~ -evolver.c:816:4: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 816 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:818:4: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 818 | fscanf(fin, "%d%d%d", &com.ns, &com.ls, &nr); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:819:4: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 819 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:831:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 831 | fscanf(fin, "%lf", &tlength); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:831:39: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 831 | fscanf(fin, "%lf", &tlength); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:855:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 855 | fscanf(fin, "%lf%lf%lf%lf", &birth, &death, &sample, &mut); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:856:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 856 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:861:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 861 | fscanf(fin, "%d", &com.model); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:862:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 862 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:869:21: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 869 | FOR(i, nrate) fscanf(fin, "%lf", &Qrates[i]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:870:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 870 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:886:28: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 886 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.rK[i]); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:886:64: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 886 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.rK[i]); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:894:28: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 894 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:894:64: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 894 | FOR(i, com.ncatG) fscanf(fin, "%lf", &com.freqK[i]); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:925:10: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 925 | fscanf(fin, "%lf", &com.omega); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:926:10: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 926 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:932:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 932 | fscanf(fin, "%lf", &com.kappa); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:932:41: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 932 | fscanf(fin, "%lf", &com.kappa); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:937:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 937 | fscanf(fin, "%lf%d", &com.alpha, &com.ncatG); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:938:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 938 | fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:954:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 954 | fscanf(fin, "%d", &com.model); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:956:29: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 956 | if (com.model >= 2) { fscanf(fin, "%s", com.daafile); GetDaa(NULL, com.daa); } - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:957:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] - 957 | fgets(line, lline, fin); +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); | ^~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:964:39: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 964 | for (k = 0; k < com.ncode; k++) fscanf(fin, "%lf", &com.pi[k]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -evolver.c:971:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] - 971 | fscanf(fin, "%d", &com.icode); fgets(line, lline, fin); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~ -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o yn00 yn00.c tools.c -Wl,-z,relro -Wl,-z,now -lm -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -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]); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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); @@ -1012,26 +1068,6 @@ 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 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -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 -O3 -o chi2 chi2.c -Wl,-z,relro -Wl,-z,now -lm -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); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ make[1]: Leaving directory '/build/reproducible-path/paml-4.9j+dfsg/src' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp @@ -1102,12 +1138,14 @@ 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/28247/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/28247/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/6968 and its subdirectories -I: Current time: Sat Jul 20 00:29:38 -12 2024 -I: pbuilder-time-stamp: 1721478578 +I: removing directory /srv/workspace/pbuilder/28247 and its subdirectories +I: Current time: Sun Jul 21 02:35:25 +14 2024 +I: pbuilder-time-stamp: 1721478925