=> Building biology/mrbayes Started : Wednesday, 24 JUL 2019 at 17:07:18 UTC Platform: 5.7-DEVELOPMENT DragonFly v5.7.0.83.g49866-DEVELOPMENT #40: Sun Jun 30 03:00:04 PDT 2019 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.6-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.6-SYNTH UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 TERM=dumb PKG_CACHEDIR=/var/cache/pkg8 PKG_DBDIR=/var/db/pkg8 PORTSDIR=/xports LANG=C HOME=/root USER=root -------------------------------------------------- -- Options -------------------------------------------------- ===> The following configuration options are available for mrbayes-3.1.2_3: EXAMPLES=on: Build and/or install examples ===> Use 'make config' to modify these settings -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- MAKE=gmake XDG_DATA_HOME=/construction/biology/mrbayes XDG_CONFIG_HOME=/construction/biology/mrbayes HOME=/construction/biology/mrbayes TMPDIR="/tmp" PATH=/construction/biology/mrbayes/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/biology/mrbayes XDG_CONFIG_HOME=/construction/biology/mrbayes HOME=/construction/biology/mrbayes TMPDIR="/tmp" PATH=/construction/biology/mrbayes/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc80 PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-I/usr/local/include" LDFLAGS=" -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- DESTDIR=/construction/biology/mrbayes/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- PORTEXAMPLES="" OSREL=5.6 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/mrbayes" EXAMPLESDIR="share/examples/mrbayes" DATADIR="share/mrbayes" WWWDIR="www/mrbayes" ETCDIR="etc/mrbayes" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/mrbayes DOCSDIR=/usr/local/share/doc/mrbayes EXAMPLESDIR=/usr/local/share/examples/mrbayes WWWDIR=/usr/local/www/mrbayes ETCDIR=/usr/local/etc/mrbayes -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=Release-5.6 USE_PACKAGE_DEPENDS_ONLY=yes PACKAGE_BUILDING=yes BATCH=yes PKG_CREATE_VERBOSE=yes PORTSDIR=/xports DISTDIR=/distfiles WRKDIRPREFIX=/construction PORT_DBDIR=/options PACKAGES=/packages MAKE_JOBS_NUMBER_LIMIT=5 LICENSES_ACCEPTED= NONE HAVE_COMPAT_IA32_KERN= CONFIGURE_MAX_CMD_LEN=262144 _PERL5_FROM_BIN=5.28.1 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=8 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500601 OSVERSION=9999999 OSREL=5.6 _OSRELEASE=5.6-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> mrbayes-3.1.2_3 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.11.1.txz Installing pkg-1.11.1... Extracting pkg-1.11.1: .......... done ===> mrbayes-3.1.2_3 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of mrbayes-3.1.2_3 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> Fetching all distfiles required by mrbayes-3.1.2_3 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> Fetching all distfiles required by mrbayes-3.1.2_3 for building => SHA256 Checksum OK for mrbayes-3.1.2.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> Fetching all distfiles required by mrbayes-3.1.2_3 for building ===> Extracting for mrbayes-3.1.2_3 => SHA256 Checksum OK for mrbayes-3.1.2.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for mrbayes-3.1.2_3 ===> Applying ports patches for mrbayes-3.1.2_3 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> mrbayes-3.1.2_3 depends on executable: gmake - not found ===> Installing existing package /packages/All/gmake-4.2.1_3.txz Installing gmake-4.2.1_3... `-- Installing gettext-runtime-0.20.1... | `-- Installing indexinfo-0.3.1... | `-- Extracting indexinfo-0.3.1: .... done `-- Extracting gettext-runtime-0.20.1: .......... done Extracting gmake-4.2.1_3: .......... done ===> mrbayes-3.1.2_3 depends on executable: gmake - found ===> Returning to build of mrbayes-3.1.2_3 -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- ===> mrbayes-3.1.2_3 depends on shared library: libreadline.so.8 - not found ===> Installing existing package /packages/All/readline-8.0.0.txz Installing readline-8.0.0... `-- Installing ncurses-6.1.20190525... `-- Extracting ncurses-6.1.20190525: .......... done Extracting readline-8.0.0: .......... done ===> mrbayes-3.1.2_3 depends on shared library: libreadline.so.8 - found (/usr/local/lib/libreadline.so.8) ===> Returning to build of mrbayes-3.1.2_3 -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for mrbayes-3.1.2_3 -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for mrbayes-3.1.2_3 gmake[1]: Entering directory '/construction/biology/mrbayes/mrbayes-3.1.2' cc -pipe -O2 -fno-strict-aliasing -DUNIX_VERSION -DUSE_READLINE -O3 -Wall -I/usr/local/include -c -o mb.o mb.c cc -pipe -O2 -fno-strict-aliasing -DUNIX_VERSION -DUSE_READLINE -O3 -Wall -I/usr/local/include -c -o mcmc.o mcmc.c cc -pipe -O2 -fno-strict-aliasing -DUNIX_VERSION -DUSE_READLINE -O3 -Wall -I/usr/local/include -c -o command.o command.c cc -pipe -O2 -fno-strict-aliasing -DUNIX_VERSION -DUSE_READLINE -O3 -Wall -I/usr/local/include -c -o mbmath.o mbmath.c cc -pipe -O2 -fno-strict-aliasing -DUNIX_VERSION -DUSE_READLINE -O3 -Wall -I/usr/local/include -c -o model.o model.c cc -pipe -O2 -fno-strict-aliasing -DUNIX_VERSION -DUSE_READLINE -O3 -Wall -I/usr/local/include -c -o plot.o plot.c plot.c: In function 'DoPlot': plot.c:70:20: warning: variable 'numLinesToRead' set but not used [-Wunused-but-set-variable] numParamLines, numLinesToRead, numLinesRead, firstNumCols=0, nLines, ^~~~~~~~~~~~~~ mbmath.c: In function 'MultiplyMatrixNTimes': mbmath.c:4399:24: warning: variable 'numRemaining' set but not used [-Wunused-but-set-variable] int k, numSquares, numRemaining; ^~~~~~~~~~~~ mbmath.c: In function 'QuantileGamma': mbmath.c:4727:10: warning: variable 'lnga1' set but not used [-Wunused-but-set-variable] MrBFlt lnga1, quantile; ^~~~~ mcmc.c: In function 'CheckCharCodingType': mcmc.c:3011:12: warning: '<<' in boolean context, did you mean '<' ? [-Wint-in-bool-context] x &= !(1<length = brlen[2]; ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ mcmc.c:20556:25: warning: 'brlenNode[6]' may be used uninitialized in this function [-Wmaybe-uninitialized] brlenNode[6]->length = brlen[2]; ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ mcmc.c: In function 'PreparePrintFiles': mcmc.c:29135:26: warning: '.run' directive writing 4 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.run%d.p", localFileName, n+1); ^~~~ mcmc.c:29135:23: note: directive argument in the range [1, 2147483647] sprintf (fileName, "%s.run%d.p", localFileName, n+1); ^~~~~~~~~~~~ mcmc.c:29135:4: note: 'sprintf' output between 8 and 116 bytes into a destination of size 100 sprintf (fileName, "%s.run%d.p", localFileName, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29133:26: warning: '.p' directive writing 2 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.p", localFileName); ^~ mcmc.c:29133:4: note: 'sprintf' output between 3 and 102 bytes into a destination of size 100 sprintf (fileName, "%s.p", localFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29147:27: warning: '.tree' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.tree%d.t", localFileName, i+1); ^~~~~ mcmc.c:29147:5: note: 'sprintf' output between 9 and 118 bytes into a destination of size 100 sprintf (fileName, "%s.tree%d.t", localFileName, i+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29149:27: warning: '.run' directive writing 4 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~ mcmc.c:29149:24: note: using the range [-2147483648, 2147483647] for directive argument sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~~~~~~~~~ mcmc.c:29149:5: note: 'sprintf' output between 8 and 117 bytes into a destination of size 100 sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29145:27: warning: '.t' directive writing 2 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.t", localFileName); ^~ mcmc.c:29145:5: note: 'sprintf' output between 3 and 102 bytes into a destination of size 100 sprintf (fileName, "%s.t", localFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29151:27: warning: '.tree' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~ mcmc.c:29151:24: note: directive argument in the range [1, 2147483647] sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~~~~~~~~~~~~~~~ mcmc.c:29151:24: note: directive argument in the range [1, 2147483647] mcmc.c:29151:5: note: 'sprintf' output between 14 and 131 bytes into a destination of size 100 sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29164:27: warning: '.tree' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.tree%d.cal", localFileName, i+1); ^~~~~ mcmc.c:29164:5: note: 'sprintf' output between 11 and 120 bytes into a destination of size 100 sprintf (fileName, "%s.tree%d.cal", localFileName, i+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29166:27: warning: '.run' directive writing 4 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.run%d.cal", localFileName, n+1); ^~~~ mcmc.c:29166:24: note: using the range [-2147483648, 2147483647] for directive argument sprintf (fileName, "%s.run%d.cal", localFileName, n+1); ^~~~~~~~~~~~~~ mcmc.c:29166:5: note: 'sprintf' output between 10 and 119 bytes into a destination of size 100 sprintf (fileName, "%s.run%d.cal", localFileName, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29162:27: warning: '.cal' directive writing 4 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.cal", localFileName); ^~~~ mcmc.c:29162:5: note: 'sprintf' output between 5 and 104 bytes into a destination of size 100 sprintf (fileName, "%s.cal", localFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29168:27: warning: '.tree' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.tree%d.run%d.cal", localFileName, i+1, n+1); ^~~~~ mcmc.c:29168:24: note: directive argument in the range [1, 2147483647] sprintf (fileName, "%s.tree%d.run%d.cal", localFileName, i+1, n+1); ^~~~~~~~~~~~~~~~~~~~~ mcmc.c:29168:24: note: directive argument in the range [1, 2147483647] mcmc.c:29168:5: note: 'sprintf' output between 16 and 133 bytes into a destination of size 100 sprintf (fileName, "%s.tree%d.run%d.cal", localFileName, i+1, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:29180:25: warning: '.mcmc' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.mcmc", chainParams.chainFileName); ^~~~~ mcmc.c:29180:3: note: 'sprintf' output between 6 and 105 bytes into a destination of size 100 sprintf (fileName, "%s.mcmc", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c: In function 'ReopenMBPrintFiles': mcmc.c:32864:26: warning: '.run' directive writing 4 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.run%d.p", localFileName, n+1); ^~~~ mcmc.c:32864:23: note: directive argument in the range [1, 2147483647] sprintf (fileName, "%s.run%d.p", localFileName, n+1); ^~~~~~~~~~~~ mcmc.c:32864:4: note: 'sprintf' output between 8 and 116 bytes into a destination of size 100 sprintf (fileName, "%s.run%d.p", localFileName, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32862:26: warning: '.p' directive writing 2 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.p", localFileName); ^~ mcmc.c:32862:4: note: 'sprintf' output between 3 and 102 bytes into a destination of size 100 sprintf (fileName, "%s.p", localFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32877:27: warning: '.tree' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.tree%d.t", localFileName, i+1); ^~~~~ mcmc.c:32877:5: note: 'sprintf' output between 9 and 118 bytes into a destination of size 100 sprintf (fileName, "%s.tree%d.t", localFileName, i+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32879:27: warning: '.run' directive writing 4 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~ mcmc.c:32879:24: note: using the range [-2147483648, 2147483647] for directive argument sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~~~~~~~~~ mcmc.c:32879:5: note: 'sprintf' output between 8 and 117 bytes into a destination of size 100 sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32875:27: warning: '.t' directive writing 2 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.t", localFileName); ^~ mcmc.c:32875:5: note: 'sprintf' output between 3 and 102 bytes into a destination of size 100 sprintf (fileName, "%s.t", localFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32881:27: warning: '.tree' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~ mcmc.c:32881:24: note: directive argument in the range [1, 2147483647] sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~~~~~~~~~~~~~~~ mcmc.c:32881:24: note: directive argument in the range [1, 2147483647] mcmc.c:32881:5: note: 'sprintf' output between 14 and 131 bytes into a destination of size 100 sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32895:27: warning: '.tree' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.tree%d.t", localFileName, i+1); ^~~~~ mcmc.c:32895:5: note: 'sprintf' output between 9 and 118 bytes into a destination of size 100 sprintf (fileName, "%s.tree%d.t", localFileName, i+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32897:27: warning: '.run' directive writing 4 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~ mcmc.c:32897:24: note: using the range [-2147483648, 2147483647] for directive argument sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~~~~~~~~~ mcmc.c:32897:5: note: 'sprintf' output between 8 and 117 bytes into a destination of size 100 sprintf (fileName, "%s.run%d.t", localFileName, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32893:27: warning: '.t' directive writing 2 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.t", localFileName); ^~ mcmc.c:32893:5: note: 'sprintf' output between 3 and 102 bytes into a destination of size 100 sprintf (fileName, "%s.t", localFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32899:27: warning: '.tree' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~ mcmc.c:32899:24: note: directive argument in the range [1, 2147483647] sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~~~~~~~~~~~~~~~ mcmc.c:32899:24: note: directive argument in the range [1, 2147483647] mcmc.c:32899:5: note: 'sprintf' output between 14 and 131 bytes into a destination of size 100 sprintf (fileName, "%s.tree%d.run%d.t", localFileName, i+1, n+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:32918:25: warning: '.mcmc' directive writing 5 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (fileName, "%s.mcmc", chainParams.chainFileName); ^~~~~ mcmc.c:32918:3: note: 'sprintf' output between 6 and 105 bytes into a destination of size 100 sprintf (fileName, "%s.mcmc", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c: In function 'RunChain': mcmc.c:33130:46: warning: '.t' directive writing 2 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (comptreeParams.comptFileName1, "%s.t", chainParams.chainFileName); ^~ mcmc.c:33130:3: note: 'sprintf' output between 3 and 102 bytes into a destination of size 100 sprintf (comptreeParams.comptFileName1, "%s.t", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:33128:46: warning: '.run1.t' directive writing 7 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (comptreeParams.comptFileName1, "%s.run1.t", chainParams.chainFileName); ^~~~~~~ mcmc.c:33128:3: note: 'sprintf' output between 8 and 107 bytes into a destination of size 100 sprintf (comptreeParams.comptFileName1, "%s.run1.t", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:33126:46: warning: '.tree1.t' directive writing 8 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (comptreeParams.comptFileName1, "%s.tree1.t", chainParams.chainFileName); ^~~~~~~~ mcmc.c:33126:3: note: 'sprintf' output between 9 and 108 bytes into a destination of size 100 sprintf (comptreeParams.comptFileName1, "%s.tree1.t", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:33124:46: warning: '.tree1.run1.t' directive writing 13 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (comptreeParams.comptFileName1, "%s.tree1.run1.t", chainParams.chainFileName); ^~~~~~~~~~~~~ mcmc.c:33124:3: note: 'sprintf' output between 14 and 113 bytes into a destination of size 100 sprintf (comptreeParams.comptFileName1, "%s.tree1.run1.t", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c: In function 'DoMcmc': mcmc.c:7254:47: warning: '.t' directive writing 2 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (comptreeParams.comptFileName1, "%s.t", chainParams.chainFileName); ^~ mcmc.c:7254:4: note: 'sprintf' output between 3 and 102 bytes into a destination of size 100 sprintf (comptreeParams.comptFileName1, "%s.t", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:7252:47: warning: '.run1.t' directive writing 7 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (comptreeParams.comptFileName1, "%s.run1.t", chainParams.chainFileName); ^~~~~~~ mcmc.c:7252:4: note: 'sprintf' output between 8 and 107 bytes into a destination of size 100 sprintf (comptreeParams.comptFileName1, "%s.run1.t", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:7260:41: warning: '.p' directive writing 2 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (plotParams.plotFileName, "%s.p", chainParams.chainFileName); ^~ mcmc.c:7260:4: note: 'sprintf' output between 3 and 102 bytes into a destination of size 100 sprintf (plotParams.plotFileName, "%s.p", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mcmc.c:7258:41: warning: '.run1.p' directive writing 7 bytes into a region of size between 1 and 100 [-Wformat-overflow=] sprintf (plotParams.plotFileName, "%s.run1.p", chainParams.chainFileName); ^~~~~~~ mcmc.c:7258:4: note: 'sprintf' output between 8 and 107 bytes into a destination of size 100 sprintf (plotParams.plotFileName, "%s.run1.p", chainParams.chainFileName); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -pipe -O2 -fno-strict-aliasing -DUNIX_VERSION -DUSE_READLINE -O3 -Wall -I/usr/local/include -c -o bayes.o bayes.c cc -L/usr/local/lib -pipe -O2 -fno-strict-aliasing -DUNIX_VERSION -DUSE_READLINE -O3 -Wall mb.o bayes.o command.o mbmath.o mcmc.o model.o plot.o sump.o sumt.o -lncurses -lreadline -lm -o mb gmake[1]: Leaving directory '/construction/biology/mrbayes/mrbayes-3.1.2' -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for mrbayes-3.1.2_3 ===> Generating temporary packing list install -s -m 555 /construction/biology/mrbayes/mrbayes-3.1.2/mb /construction/biology/mrbayes/stage/usr/local/bin/ install -m 0644 /construction/biology/mrbayes/mrbayes-3.1.2/adh.nex /construction/biology/mrbayes/stage/usr/local/share/examples/mrbayes install -m 0644 /construction/biology/mrbayes/mrbayes-3.1.2/anolis.nex /construction/biology/mrbayes/stage/usr/local/share/examples/mrbayes install -m 0644 /construction/biology/mrbayes/mrbayes-3.1.2/avian_ovomucoids.nex /construction/biology/mrbayes/stage/usr/local/share/examples/mrbayes install -m 0644 /construction/biology/mrbayes/mrbayes-3.1.2/bglobin.nex /construction/biology/mrbayes/stage/usr/local/share/examples/mrbayes install -m 0644 /construction/biology/mrbayes/mrbayes-3.1.2/cynmix.nex /construction/biology/mrbayes/stage/usr/local/share/examples/mrbayes install -m 0644 /construction/biology/mrbayes/mrbayes-3.1.2/kim.nex /construction/biology/mrbayes/stage/usr/local/share/examples/mrbayes install -m 0644 /construction/biology/mrbayes/mrbayes-3.1.2/primates.nex /construction/biology/mrbayes/stage/usr/local/share/examples/mrbayes install -m 0644 /construction/biology/mrbayes/mrbayes-3.1.2/replicase.nex /construction/biology/mrbayes/stage/usr/local/share/examples/mrbayes ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for mrbayes-3.1.2_3 file sizes/checksums [9]: . done packing files [9]: . done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Wednesday, 24 JUL 2019 at 17:09:27 UTC Duration: 00:02:08