Building phyml-20121109.txz (origin /buildshare/ports/355755/biology/phyml) for powerpc-10-0 on XXX slot1: created x distfiles/ x distfiles/phyml/ x distfiles/phyml/20121109.patch x distfiles/phyml/phyml-20120412.tar.gz x packages/ x packages/autoconf-wrapper-20131203.txz x packages/automake-wrapper-20131203.txz x packages/p5-Locale-gettext-1.05_3.txz x packages/gmake-3.82_1.txz x packages/pkg-1.2.7_2.txz x packages/perl5-5.16.3_10.txz x packages/autoconf-2.69.txz x packages/help2man-1.43.3_1.txz x packages/gettext-0.18.3.1_1.txz x packages/automake-1.14.txz x packages/m4-1.4.17_1,1.txz ELF ldconfig path: /lib /usr/lib /usr/lib/compat Make depends ===> phyml-20121109 depends on file: /usr/local/sbin/pkg - not found ===> Verifying install for /usr/local/sbin/pkg in /buildshare/ports/355755/ports-mgmt/pkg ===> Installing existing package /packages/pkg-1.2.7_2.txz Installing pkg-1.2.7_2... done If you are upgrading from the old package format, first run: # pkg2ng ===> Returning to build of phyml-20121109 ===> phyml-20121109 depends on file: /usr/local/bin/automake-1.14 - not found ===> Verifying install for /usr/local/bin/automake-1.14 in /buildshare/ports/355755/devel/automake ===> Installing existing package /packages/automake-1.14.txz Installing automake-1.14...Installing autoconf-2.69...Installing autoconf-wrapper-20131203... done Installing m4-1.4.17_1,1... done Installing perl5-5.16.3_10... done done Installing automake-wrapper-20131203... done done ===> Returning to build of phyml-20121109 ===> phyml-20121109 depends on file: /usr/local/bin/autoconf-2.69 - found Make install ===> License GPLv2 accepted by the user ===> phyml-20121109 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by phyml-20121109 for building ===> Extracting for phyml-20121109 => SHA256 Checksum OK for phyml/phyml-20120412.tar.gz. => SHA256 Checksum OK for phyml/20121109.patch. ===> Patching for phyml-20121109 ===> Applying distribution patches for phyml-20121109 ===> phyml-20121109 depends on file: /usr/local/bin/automake-1.14 - found ===> phyml-20121109 depends on file: /usr/local/bin/autoconf-2.69 - found ===> Configuring for phyml-20121109 ===> FreeBSD 10 autotools fix applied to /obj/buildshare/ports/355755/biology/phyml/work/phyml-20120412/aclocal.m4 ===> FreeBSD 10 autotools fix applied to /obj/buildshare/ports/355755/biology/phyml/work/phyml-20120412/configure configure.ac:22: installing './compile' configure: loading site script /buildshare/ports/355755/Templates/config.site checking for a BSD-compatible install... /usr/bin/install -c -o root -g wheel checking whether build environment is sane... yes /obj/buildshare/ports/355755/biology/phyml/work/phyml-20120412/missing: Unknown `--is-lightweight' option Try `/obj/buildshare/ports/355755/biology/phyml/work/phyml-20120412/missing --help' for more information configure: WARNING: 'missing' script is too old or missing checking for a thread-safe mkdir -p... (cached) /bin/mkdir -p checking for gawk... (cached) /usr/bin/awk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports nested variables... (cached) yes checking build system type... powerpc-portbld-freebsd11.0 checking host system type... powerpc-portbld-freebsd11.0 checking for gcc... cc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether cc accepts -g... yes checking for cc option to accept ISO C89... none needed checking whether cc understands -c and -o together... yes checking for style of include used by make... GNU checking dependency style of cc... gcc3 checking dependency style of cc... (cached) gcc3 checking for log in -lm... yes checking how to run the C preprocessor... cpp checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep checking for ANSI C header files... (cached) yes checking for sys/types.h... (cached) yes checking for sys/stat.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for memory.h... (cached) yes checking for strings.h... (cached) yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for unistd.h... (cached) yes checking for float.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for size_t... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for vprintf... (cached) yes checking for _doprnt... no checking for floor... yes checking for pow... yes checking for rint... yes checking for sqrt... yes checking for strchr... yes checking for strstr... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating config.h config.status: executing depfiles commands ===> Building for phyml-20121109 (CDPATH="${ZSH_VERSION+.}:" && cd . && /usr/local/bin/autoheader-2.69) rm -f stamp-h1 touch ./config.h.in cd . && /bin/sh ./config.status config.h config.status: creating config.h config.status: config.h is unchanged /usr/bin/make all-recursive Making all in src cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.c mv -f .deps/main.Tpo .deps/main.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT utilities.o -MD -MP -MF .deps/utilities.Tpo -c -o utilities.o utilities.c utilities.c: In function 'Get_Token': utilities.c:1929: warning: comparison is always false due to limited range of data type utilities.c:1939: warning: comparison is always false due to limited range of data type utilities.c:1944: warning: comparison is always false due to limited range of data type utilities.c:1953: warning: comparison is always false due to limited range of data type utilities.c:1974: warning: comparison is always false due to limited range of data type utilities.c: In function 'Read_One_Line_Seq': utilities.c:3070: warning: comparison is always false due to limited range of data type utilities.c:3098: warning: comparison is always false due to limited range of data type utilities.c: In function 'Return_Tree_String_Phylip': utilities.c:3710: warning: comparison is always true due to limited range of data type utilities.c:3713: warning: comparison is always false due to limited range of data type utilities.c:3725: warning: comparison is always false due to limited range of data type utilities.c:3733: warning: comparison is always false due to limited range of data type utilities.c:3741: warning: comparison is always false due to limited range of data type utilities.c: In function 'Find_Root_Edge': utilities.c:12902: warning: comparison is always true due to limited range of data type utilities.c:12904: warning: comparison is always false due to limited range of data type utilities.c:12916: warning: comparison is always false due to limited range of data type utilities.c:12923: warning: comparison is always false due to limited range of data type utilities.c: In function 'Skip_Comment': utilities.c:13279: warning: comparison is always false due to limited range of data type mv -f .deps/utilities.Tpo .deps/utilities.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT optimiz.o -MD -MP -MF .deps/optimiz.Tpo -c -o optimiz.o optimiz.c mv -f .deps/optimiz.Tpo .deps/optimiz.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT lk.o -MD -MP -MF .deps/lk.Tpo -c -o lk.o lk.c mv -f .deps/lk.Tpo .deps/lk.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT bionj.o -MD -MP -MF .deps/bionj.Tpo -c -o bionj.o bionj.c mv -f .deps/bionj.Tpo .deps/bionj.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT models.o -MD -MP -MF .deps/models.Tpo -c -o models.o models.c mv -f .deps/models.Tpo .deps/models.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT free.o -MD -MP -MF .deps/free.Tpo -c -o free.o free.c mv -f .deps/free.Tpo .deps/free.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT help.o -MD -MP -MF .deps/help.Tpo -c -o help.o help.c mv -f .deps/help.Tpo .deps/help.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT simu.o -MD -MP -MF .deps/simu.Tpo -c -o simu.o simu.c mv -f .deps/simu.Tpo .deps/simu.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT eigen.o -MD -MP -MF .deps/eigen.Tpo -c -o eigen.o eigen.c mv -f .deps/eigen.Tpo .deps/eigen.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT pars.o -MD -MP -MF .deps/pars.Tpo -c -o pars.o pars.c mv -f .deps/pars.Tpo .deps/pars.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT alrt.o -MD -MP -MF .deps/alrt.Tpo -c -o alrt.o alrt.c mv -f .deps/alrt.Tpo .deps/alrt.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT interface.o -MD -MP -MF .deps/interface.Tpo -c -o interface.o interface.c mv -f .deps/interface.Tpo .deps/interface.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT cl.o -MD -MP -MF .deps/cl.Tpo -c -o cl.o cl.c mv -f .deps/cl.Tpo .deps/cl.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT spr.o -MD -MP -MF .deps/spr.Tpo -c -o spr.o spr.c mv -f .deps/spr.Tpo .deps/spr.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT draw.o -MD -MP -MF .deps/draw.Tpo -c -o draw.o draw.c mv -f .deps/draw.Tpo .deps/draw.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT stats.o -MD -MP -MF .deps/stats.Tpo -c -o stats.o stats.c mv -f .deps/stats.Tpo .deps/stats.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT rates.o -MD -MP -MF .deps/rates.Tpo -c -o rates.o rates.c mv -f .deps/rates.Tpo .deps/rates.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT mcmc.o -MD -MP -MF .deps/mcmc.Tpo -c -o mcmc.o mcmc.c mv -f .deps/mcmc.Tpo .deps/mcmc.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT times.o -MD -MP -MF .deps/times.Tpo -c -o times.o times.c mv -f .deps/times.Tpo .deps/times.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT tiporder.o -MD -MP -MF .deps/tiporder.Tpo -c -o tiporder.o tiporder.c mv -f .deps/tiporder.Tpo .deps/tiporder.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT mg.o -MD -MP -MF .deps/mg.Tpo -c -o mg.o mg.c mv -f .deps/mg.Tpo .deps/mg.Po cc -I. -I.. -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -MT m4.o -MD -MP -MF .deps/m4.Tpo -c -o m4.o m4.c mv -f .deps/m4.Tpo .deps/m4.Po cc -Wall -O2 -pipe -fno-strict-aliasing -fomit-frame-pointer -funroll-loops -o phyml main.o utilities.o optimiz.o lk.o bionj.o models.o free.o help.o simu.o eigen.o pars.o alrt.o interface.o cl.o spr.o draw.o stats.o rates.o mcmc.o times.o tiporder.o mg.o m4.o -lm -lm :: Building [phyml]. Version 20121109 :: Done. ===> Staging for phyml-20121109 ===> Generating temporary packing list Making install in src :: Building [phyml]. Version 20121109 :: Done. /bin/mkdir -p '/obj/buildshare/ports/355755/biology/phyml/work/stage/usr/local/bin' install -s -o root -g wheel -m 555 phyml '/obj/buildshare/ports/355755/biology/phyml/work/stage/usr/local/bin' ====> Compressing man pages (compress-man) ===> Installing for phyml-20121109 ===> Checking if biology/phyml already installed ===> Registering installation for phyml-20121109 Installing phyml-20121109... done Make package ===> Building package for phyml-20121109 slot1: removed