=> Building biology/clustal-omega Started : Thursday, 30 AUG 2018 at 13:01:03 UTC Platform: 5.3-DEVELOPMENT DragonFly 5.3-DEVELOPMENT #140: Wed Aug 29 22:06:30 PDT 2018 root@test.backplane.com:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.3-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.3-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 -------------------------------------------------- -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/biology/clustal-omega XDG_CONFIG_HOME=/construction/biology/clustal-omega HOME=/construction/biology/clustal-omega TMPDIR="/tmp" PATH=/construction/biology/clustal-omega/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc50 CMAKE_PREFIX_PATH="/usr/local" CONFIG_SITE=/xports/Templates/config.site lt_cv_sys_max_cmd_len=262144 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/biology/clustal-omega XDG_CONFIG_HOME=/construction/biology/clustal-omega HOME=/construction/biology/clustal-omega TMPDIR="/tmp" PATH=/construction/biology/clustal-omega/.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=gcc50 PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -isystem /usr/local/include -fno-strict-aliasing" CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS="" LIBS="-L/usr/local/lib" CXX="c++" CXXFLAGS=" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include" 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/clustal-omega/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- PORTDOCS="" PORTEXAMPLES="" OSREL=5.3 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/clustal-omega" EXAMPLESDIR="share/examples/clustal-omega" DATADIR="share/clustal-omega" WWWDIR="www/clustal-omega" ETCDIR="etc/clustal-omega" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/clustal-omega DOCSDIR=/usr/local/share/doc/clustal-omega EXAMPLESDIR=/usr/local/share/examples/clustal-omega WWWDIR=/usr/local/www/clustal-omega ETCDIR=/usr/local/etc/clustal-omega -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=LiveSystem 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=12 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=32 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500316 OSVERSION=9999999 OSREL=5.3 _OSRELEASE=5.3-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License GPLv2 accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> clustal-omega-1.2.4 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.5_1.txz Installing pkg-1.10.5_1... Extracting pkg-1.10.5_1: .......... done ===> clustal-omega-1.2.4 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of clustal-omega-1.2.4 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by clustal-omega-1.2.4 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by clustal-omega-1.2.4 for building => SHA256 Checksum OK for clustal-omega-1.2.4.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by clustal-omega-1.2.4 for building ===> Extracting for clustal-omega-1.2.4 => SHA256 Checksum OK for clustal-omega-1.2.4.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for clustal-omega-1.2.4 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- ===> clustal-omega-1.2.4 depends on shared library: libargtable2.so - not found ===> Installing existing package /packages/All/argtable-2.13_2.txz Installing argtable-2.13_2... Extracting argtable-2.13_2: .......... done Message from argtable-2.13_2: ===> NOTICE: The argtable port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> clustal-omega-1.2.4 depends on shared library: libargtable2.so - found (/usr/local/lib/libargtable2.so) ===> Returning to build of clustal-omega-1.2.4 -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for clustal-omega-1.2.4 configure: loading site script /xports/Templates/config.site configure: Welcome to Clustal Omega - version 1.2.4 (AndreaGiacomo) +NMMMMMMMMMS= MMMMM? :MMMMM8 IMMMMS MMMMM, ~MMMMN ,MMMMM =MMMMM MMMMM ?MMMMM +MMMMM MMMMMS MMMMM MMMMM MMMMM: MMMMM MMMMM+ MMMMM MMMMM~ MMMMM MMMMM MMMMMZ MMMMM MMMMM ,MMMMZ MMMM8 MMMM+ MMMMS MMMM, MMMMO MMMM ,N SMMM MMM8 +8 ,M7 M+ M+ :M8 ,MMMMMMMMMMMMI MMMMMMMMMMMM8 ,MMMMMMMMMMMM8 MMMMMMMMMMMM8 ,MMMMMMMMMMMMN MMMMMMMMMMMM8 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes 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 for style of include used by make... GNU checking for gcc... cc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 dependency style of cc... gcc3 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... 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(cached) 262144 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... no checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for ar... ar checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from cc object... ok checking for dlfcn.h... (cached) yes checking for objdir... .libs checking if cc supports -fno-rtti -fno-exceptions... no checking for cc option to produce PIC... -fPIC -DPIC checking if cc PIC flag -fPIC -DPIC works... yes checking if cc static flag -static works... yes checking if cc supports -c -o file.o... yes checking if cc supports -c -o file.o... (cached) yes checking whether the cc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... dragonfly5.3 ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for a BSD-compatible install... /usr/bin/install -c checking for gcc... (cached) cc checking whether we are using the GNU C compiler... (cached) yes checking whether cc accepts -g... (cached) yes checking for cc option to accept ISO C89... (cached) none needed checking dependency style of cc... (cached) gcc3 checking how to run the C preprocessor... cpp checking whether we are using the GNU C++ compiler... yes checking whether c++ accepts -g... yes checking dependency style of c++... gcc3 checking whether we are using the GNU C++ compiler... (cached) yes checking whether c++ accepts -g... (cached) yes checking dependency style of c++... (cached) gcc3 checking how to run the C++ preprocessor... c++ -E checking for ld used by c++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the c++ linker (/usr/bin/ld) supports shared libraries... yes checking for c++ option to produce PIC... -fPIC -DPIC checking if c++ PIC flag -fPIC -DPIC works... yes checking if c++ static flag -static works... yes checking if c++ supports -c -o file.o... yes checking if c++ supports -c -o file.o... (cached) yes checking whether the c++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... dragonfly5.3 ld.so checking how to hardcode library paths into programs... immediate checking how to run the C++ preprocessor... c++ -E checking for ANSI C header files... (cached) yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking for ctype.h... (cached) yes checking for float.h... (cached) yes checking for limits.h... (cached) yes checking for math.h... (cached) yes checking for memory.h... (cached) yes checking for stdarg.h... (cached) yes checking for stdio.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for time.h... (cached) yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for size_t... (cached) yes checking for inline... inline checking for log in -lm... yes checking for log2 in -lm... yes checking argtable2.h usability... yes checking argtable2.h presence... yes checking for argtable2.h... yes checking for arg_parse in -largtable2... yes checking for OpenMP flag of C compiler... -fopenmp checking whether byte ordering is bigendian... no checking for ntohs... yes checking for ntohl... yes checking for ntons... no checking for ntonl... no checking size of unsigned short... 2 checking size of unsigned int... 4 checking size of unsigned long... 8 checking size of unsigned long long... 8 checking for stroul... no checking for strtoull... (cached) yes checking for ftello... yes checking for fseeko... yes checking for ftello64... no checking for fseeko64... no checking for ftell64... no checking for fseek64... no checking for off_t... (cached) yes checking size of fpos_t... 8 checking if malloc debugging is wanted... no checking whether to build with debug information... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating clustalo.pc config.status: creating Doxyfile config.status: creating src/clustal/Makefile config.status: creating src/hhalign/Makefile config.status: creating src/kmpp/Makefile config.status: creating src/squid/Makefile config.status: creating src/config.h config.status: executing src/clustal-omega-config.h commands config.status: creating src/clustal-omega-config.h - prefix CLUSTAL_OMEGA for src/config.h defines config.status: executing depfiles commands config.status: executing libtool commands -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for clustal-omega-1.2.4 --- all-recursive --- Making all in src --- all --- /usr/bin/make all-recursive --- all-recursive --- Making all in hhalign --- hhalign.lo --- /bin/sh ../../libtool --tag=CXX --mode=compile c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT hhalign.lo -MD -MP -MF .deps/hhalign.Tpo -c -o hhalign.lo hhalign.cpp libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT hhalign.lo -MD -MP -MF .deps/hhalign.Tpo -c hhalign.cpp -fPIC -DPIC -o .libs/hhalign.o libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT hhalign.lo -MD -MP -MF .deps/hhalign.Tpo -c hhalign.cpp -o hhalign.o >/dev/null 2>&1 mv -f .deps/hhalign.Tpo .deps/hhalign.Plo --- libhhalign.la --- /bin/sh ../../libtool --tag=CXX --mode=link c++ -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -o libhhalign.la hhalign.lo -largtable2 -lm -L/usr/local/lib libtool: link: ar cru .libs/libhhalign.a .libs/hhalign.o /usr/libexec/binutils227/elf/ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libhhalign.a libtool: link: ( cd ".libs" && rm -f "libhhalign.la" && ln -s "../libhhalign.la" "libhhalign.la" ) Making all in squid --- a2m.lo --- --- aligneval.lo --- --- alignio.lo --- --- clustal.lo --- --- cluster.lo --- --- dayhoff.lo --- --- eps.lo --- --- file.lo --- --- getopt.lo --- --- gki.lo --- --- gsi.lo --- --- gsi64.lo --- --- a2m.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT a2m.lo -MD -MP -MF .deps/a2m.Tpo -c -o a2m.lo a2m.c --- aligneval.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT aligneval.lo -MD -MP -MF .deps/aligneval.Tpo -c -o aligneval.lo aligneval.c --- alignio.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT alignio.lo -MD -MP -MF .deps/alignio.Tpo -c -o alignio.lo alignio.c --- clustal.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT clustal.lo -MD -MP -MF .deps/clustal.Tpo -c -o clustal.lo clustal.c --- cluster.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT cluster.lo -MD -MP -MF .deps/cluster.Tpo -c -o cluster.lo cluster.c --- dayhoff.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT dayhoff.lo -MD -MP -MF .deps/dayhoff.Tpo -c -o dayhoff.lo dayhoff.c --- eps.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT eps.lo -MD -MP -MF .deps/eps.Tpo -c -o eps.lo eps.c --- file.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT file.lo -MD -MP -MF .deps/file.Tpo -c -o file.lo file.c --- getopt.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c -o getopt.lo getopt.c --- gki.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gki.lo -MD -MP -MF .deps/gki.Tpo -c -o gki.lo gki.c --- gsi.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gsi.lo -MD -MP -MF .deps/gsi.Tpo -c -o gsi.lo gsi.c --- gsi64.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gsi64.lo -MD -MP -MF .deps/gsi64.Tpo -c -o gsi64.lo gsi64.c --- aligneval.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT aligneval.lo -MD -MP -MF .deps/aligneval.Tpo -c aligneval.c -fPIC -DPIC -o .libs/aligneval.o --- a2m.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT a2m.lo -MD -MP -MF .deps/a2m.Tpo -c a2m.c -fPIC -DPIC -o .libs/a2m.o --- clustal.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT clustal.lo -MD -MP -MF .deps/clustal.Tpo -c clustal.c -fPIC -DPIC -o .libs/clustal.o --- dayhoff.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT dayhoff.lo -MD -MP -MF .deps/dayhoff.Tpo -c dayhoff.c -fPIC -DPIC -o .libs/dayhoff.o --- eps.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT eps.lo -MD -MP -MF .deps/eps.Tpo -c eps.c -fPIC -DPIC -o .libs/eps.o --- file.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT file.lo -MD -MP -MF .deps/file.Tpo -c file.c -fPIC -DPIC -o .libs/file.o --- gsi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gsi.lo -MD -MP -MF .deps/gsi.Tpo -c gsi.c -fPIC -DPIC -o .libs/gsi.o --- cluster.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT cluster.lo -MD -MP -MF .deps/cluster.Tpo -c cluster.c -fPIC -DPIC -o .libs/cluster.o --- alignio.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT alignio.lo -MD -MP -MF .deps/alignio.Tpo -c alignio.c -fPIC -DPIC -o .libs/alignio.o --- gki.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gki.lo -MD -MP -MF .deps/gki.Tpo -c gki.c -fPIC -DPIC -o .libs/gki.o --- getopt.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c -fPIC -DPIC -o .libs/getopt.o --- eps.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT eps.lo -MD -MP -MF .deps/eps.Tpo -c eps.c -o eps.o >/dev/null 2>&1 --- gsi64.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gsi64.lo -MD -MP -MF .deps/gsi64.Tpo -c gsi64.c -fPIC -DPIC -o .libs/gsi64.o --- a2m.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT a2m.lo -MD -MP -MF .deps/a2m.Tpo -c a2m.c -o a2m.o >/dev/null 2>&1 --- getopt.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c -o getopt.o >/dev/null 2>&1 --- dayhoff.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT dayhoff.lo -MD -MP -MF .deps/dayhoff.Tpo -c dayhoff.c -o dayhoff.o >/dev/null 2>&1 --- file.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT file.lo -MD -MP -MF .deps/file.Tpo -c file.c -o file.o >/dev/null 2>&1 --- gsi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gsi.lo -MD -MP -MF .deps/gsi.Tpo -c gsi.c -o gsi.o >/dev/null 2>&1 --- gsi64.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gsi64.lo -MD -MP -MF .deps/gsi64.Tpo -c gsi64.c -o gsi64.o >/dev/null 2>&1 --- gki.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT gki.lo -MD -MP -MF .deps/gki.Tpo -c gki.c -o gki.o >/dev/null 2>&1 --- a2m.lo --- mv -f .deps/a2m.Tpo .deps/a2m.Plo --- hsregex.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT hsregex.lo -MD -MP -MF .deps/hsregex.Tpo -c -o hsregex.lo hsregex.c --- gsi64.lo --- mv -f .deps/gsi64.Tpo .deps/gsi64.Plo --- iupac.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT iupac.lo -MD -MP -MF .deps/iupac.Tpo -c -o iupac.lo iupac.c --- hsregex.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT hsregex.lo -MD -MP -MF .deps/hsregex.Tpo -c hsregex.c -fPIC -DPIC -o .libs/hsregex.o --- iupac.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT iupac.lo -MD -MP -MF .deps/iupac.Tpo -c iupac.c -fPIC -DPIC -o .libs/iupac.o --- aligneval.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT aligneval.lo -MD -MP -MF .deps/aligneval.Tpo -c aligneval.c -o aligneval.o >/dev/null 2>&1 --- eps.lo --- mv -f .deps/eps.Tpo .deps/eps.Plo --- msa.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT msa.lo -MD -MP -MF .deps/msa.Tpo -c -o msa.lo msa.c --- dayhoff.lo --- mv -f .deps/dayhoff.Tpo .deps/dayhoff.Plo --- msf.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT msf.lo -MD -MP -MF .deps/msf.Tpo -c -o msf.lo msf.c --- msa.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT msa.lo -MD -MP -MF .deps/msa.Tpo -c msa.c -fPIC -DPIC -o .libs/msa.o --- msf.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT msf.lo -MD -MP -MF .deps/msf.Tpo -c msf.c -fPIC -DPIC -o .libs/msf.o --- cluster.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT cluster.lo -MD -MP -MF .deps/cluster.Tpo -c cluster.c -o cluster.o >/dev/null 2>&1 --- iupac.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT iupac.lo -MD -MP -MF .deps/iupac.Tpo -c iupac.c -o iupac.o >/dev/null 2>&1 --- file.lo --- mv -f .deps/file.Tpo .deps/file.Plo --- phylip.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT phylip.lo -MD -MP -MF .deps/phylip.Tpo -c -o phylip.lo phylip.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT phylip.lo -MD -MP -MF .deps/phylip.Tpo -c phylip.c -fPIC -DPIC -o .libs/phylip.o --- iupac.lo --- mv -f .deps/iupac.Tpo .deps/iupac.Plo --- revcomp.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT revcomp.lo -MD -MP -MF .deps/revcomp.Tpo -c -o revcomp.lo revcomp.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT revcomp.lo -MD -MP -MF .deps/revcomp.Tpo -c revcomp.c -fPIC -DPIC -o .libs/revcomp.o --- getopt.lo --- mv -f .deps/getopt.Tpo .deps/getopt.Plo --- rk.lo --- --- phylip.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT phylip.lo -MD -MP -MF .deps/phylip.Tpo -c phylip.c -o phylip.o >/dev/null 2>&1 --- revcomp.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT revcomp.lo -MD -MP -MF .deps/revcomp.Tpo -c revcomp.c -o revcomp.o >/dev/null 2>&1 --- rk.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT rk.lo -MD -MP -MF .deps/rk.Tpo -c -o rk.lo rk.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT rk.lo -MD -MP -MF .deps/rk.Tpo -c rk.c -fPIC -DPIC -o .libs/rk.o --- msf.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT msf.lo -MD -MP -MF .deps/msf.Tpo -c msf.c -o msf.o >/dev/null 2>&1 --- hsregex.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT hsregex.lo -MD -MP -MF .deps/hsregex.Tpo -c hsregex.c -o hsregex.o >/dev/null 2>&1 --- cluster.lo --- mv -f .deps/cluster.Tpo .deps/cluster.Plo --- selex.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT selex.lo -MD -MP -MF .deps/selex.Tpo -c -o selex.lo selex.c --- gki.lo --- mv -f .deps/gki.Tpo .deps/gki.Plo --- seqencode.lo --- --- gsi.lo --- mv -f .deps/gsi.Tpo .deps/gsi.Plo --- selex.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT selex.lo -MD -MP -MF .deps/selex.Tpo -c selex.c -fPIC -DPIC -o .libs/selex.o --- shuffle.lo --- --- seqencode.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT seqencode.lo -MD -MP -MF .deps/seqencode.Tpo -c -o seqencode.lo seqencode.c --- shuffle.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT shuffle.lo -MD -MP -MF .deps/shuffle.Tpo -c -o shuffle.lo shuffle.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT shuffle.lo -MD -MP -MF .deps/shuffle.Tpo -c shuffle.c -fPIC -DPIC -o .libs/shuffle.o --- seqencode.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT seqencode.lo -MD -MP -MF .deps/seqencode.Tpo -c seqencode.c -fPIC -DPIC -o .libs/seqencode.o --- phylip.lo --- mv -f .deps/phylip.Tpo .deps/phylip.Plo --- sqerror.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sqerror.lo -MD -MP -MF .deps/sqerror.Tpo -c -o sqerror.lo sqerror.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sqerror.lo -MD -MP -MF .deps/sqerror.Tpo -c sqerror.c -fPIC -DPIC -o .libs/sqerror.o --- aligneval.lo --- mv -f .deps/aligneval.Tpo .deps/aligneval.Plo --- sqio.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sqio.lo -MD -MP -MF .deps/sqio.Tpo -c -o sqio.lo sqio.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sqio.lo -MD -MP -MF .deps/sqio.Tpo -c sqio.c -fPIC -DPIC -o .libs/sqio.o --- clustal.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT clustal.lo -MD -MP -MF .deps/clustal.Tpo -c clustal.c -o clustal.o >/dev/null 2>&1 --- sqerror.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sqerror.lo -MD -MP -MF .deps/sqerror.Tpo -c sqerror.c -o sqerror.o >/dev/null 2>&1 --- seqencode.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT seqencode.lo -MD -MP -MF .deps/seqencode.Tpo -c seqencode.c -o seqencode.o >/dev/null 2>&1 --- revcomp.lo --- mv -f .deps/revcomp.Tpo .deps/revcomp.Plo --- squidcore.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT squidcore.lo -MD -MP -MF .deps/squidcore.Tpo -c -o squidcore.lo squidcore.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT squidcore.lo -MD -MP -MF .deps/squidcore.Tpo -c squidcore.c -fPIC -DPIC -o .libs/squidcore.o --- msf.lo --- mv -f .deps/msf.Tpo .deps/msf.Plo --- sre_ctype.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_ctype.lo -MD -MP -MF .deps/sre_ctype.Tpo -c -o sre_ctype.lo sre_ctype.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_ctype.lo -MD -MP -MF .deps/sre_ctype.Tpo -c sre_ctype.c -fPIC -DPIC -o .libs/sre_ctype.o --- squidcore.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT squidcore.lo -MD -MP -MF .deps/squidcore.Tpo -c squidcore.c -o squidcore.o >/dev/null 2>&1 --- alignio.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT alignio.lo -MD -MP -MF .deps/alignio.Tpo -c alignio.c -o alignio.o >/dev/null 2>&1 --- rk.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT rk.lo -MD -MP -MF .deps/rk.Tpo -c rk.c -o rk.o >/dev/null 2>&1 --- squidcore.lo --- mv -f .deps/squidcore.Tpo .deps/squidcore.Plo --- sre_math.lo --- --- seqencode.lo --- mv -f .deps/seqencode.Tpo .deps/seqencode.Plo --- sre_math.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_math.lo -MD -MP -MF .deps/sre_math.Tpo -c -o sre_math.lo sre_math.c --- sre_random.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_random.lo -MD -MP -MF .deps/sre_random.Tpo -c -o sre_random.lo sre_random.c --- rk.lo --- mv -f .deps/rk.Tpo .deps/rk.Plo --- sre_string.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_string.lo -MD -MP -MF .deps/sre_string.Tpo -c -o sre_string.lo sre_string.c --- sre_math.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_math.lo -MD -MP -MF .deps/sre_math.Tpo -c sre_math.c -fPIC -DPIC -o .libs/sre_math.o --- sre_string.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_string.lo -MD -MP -MF .deps/sre_string.Tpo -c sre_string.c -fPIC -DPIC -o .libs/sre_string.o --- sre_random.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_random.lo -MD -MP -MF .deps/sre_random.Tpo -c sre_random.c -fPIC -DPIC -o .libs/sre_random.o --- sre_ctype.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_ctype.lo -MD -MP -MF .deps/sre_ctype.Tpo -c sre_ctype.c -o sre_ctype.o >/dev/null 2>&1 --- sqerror.lo --- mv -f .deps/sqerror.Tpo .deps/sqerror.Plo --- ssi.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ssi.lo -MD -MP -MF .deps/ssi.Tpo -c -o ssi.lo ssi.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ssi.lo -MD -MP -MF .deps/ssi.Tpo -c ssi.c -fPIC -DPIC -o .libs/ssi.o --- sre_ctype.lo --- mv -f .deps/sre_ctype.Tpo .deps/sre_ctype.Plo --- stack.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stack.lo -MD -MP -MF .deps/stack.Tpo -c -o stack.lo stack.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stack.lo -MD -MP -MF .deps/stack.Tpo -c stack.c -fPIC -DPIC -o .libs/stack.o --- selex.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT selex.lo -MD -MP -MF .deps/selex.Tpo -c selex.c -o selex.o >/dev/null 2>&1 --- sre_string.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_string.lo -MD -MP -MF .deps/sre_string.Tpo -c sre_string.c -o sre_string.o >/dev/null 2>&1 --- clustal.lo --- mv -f .deps/clustal.Tpo .deps/clustal.Plo --- sre_math.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_math.lo -MD -MP -MF .deps/sre_math.Tpo -c sre_math.c -o sre_math.o >/dev/null 2>&1 --- stockholm.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stockholm.lo -MD -MP -MF .deps/stockholm.Tpo -c -o stockholm.lo stockholm.c --- stack.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stack.lo -MD -MP -MF .deps/stack.Tpo -c stack.c -o stack.o >/dev/null 2>&1 --- stockholm.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stockholm.lo -MD -MP -MF .deps/stockholm.Tpo -c stockholm.c -fPIC -DPIC -o .libs/stockholm.o --- shuffle.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT shuffle.lo -MD -MP -MF .deps/shuffle.Tpo -c shuffle.c -o shuffle.o >/dev/null 2>&1 --- sre_random.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sre_random.lo -MD -MP -MF .deps/sre_random.Tpo -c sre_random.c -o sre_random.o >/dev/null 2>&1 --- hsregex.lo --- mv -f .deps/hsregex.Tpo .deps/hsregex.Plo --- stopwatch.lo --- --- stack.lo --- mv -f .deps/stack.Tpo .deps/stack.Plo --- stopwatch.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stopwatch.lo -MD -MP -MF .deps/stopwatch.Tpo -c -o stopwatch.lo stopwatch.c --- translate.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT translate.lo -MD -MP -MF .deps/translate.Tpo -c -o translate.lo translate.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT translate.lo -MD -MP -MF .deps/translate.Tpo -c translate.c -fPIC -DPIC -o .libs/translate.o --- stopwatch.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stopwatch.lo -MD -MP -MF .deps/stopwatch.Tpo -c stopwatch.c -fPIC -DPIC -o .libs/stopwatch.o --- alignio.lo --- mv -f .deps/alignio.Tpo .deps/alignio.Plo --- types.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT types.lo -MD -MP -MF .deps/types.Tpo -c -o types.lo types.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT types.lo -MD -MP -MF .deps/types.Tpo -c types.c -fPIC -DPIC -o .libs/types.o --- sre_random.lo --- mv -f .deps/sre_random.Tpo .deps/sre_random.Plo --- vectorops.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT vectorops.lo -MD -MP -MF .deps/vectorops.Tpo -c -o vectorops.lo vectorops.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT vectorops.lo -MD -MP -MF .deps/vectorops.Tpo -c vectorops.c -fPIC -DPIC -o .libs/vectorops.o --- translate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT translate.lo -MD -MP -MF .deps/translate.Tpo -c translate.c -o translate.o >/dev/null 2>&1 --- sre_math.lo --- mv -f .deps/sre_math.Tpo .deps/sre_math.Plo --- weight.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT weight.lo -MD -MP -MF .deps/weight.Tpo -c -o weight.lo weight.c --- types.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT types.lo -MD -MP -MF .deps/types.Tpo -c types.c -o types.o >/dev/null 2>&1 --- weight.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT weight.lo -MD -MP -MF .deps/weight.Tpo -c weight.c -fPIC -DPIC -o .libs/weight.o --- shuffle.lo --- mv -f .deps/shuffle.Tpo .deps/shuffle.Plo --- msa.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT msa.lo -MD -MP -MF .deps/msa.Tpo -c msa.c -o msa.o >/dev/null 2>&1 --- selex.lo --- mv -f .deps/selex.Tpo .deps/selex.Plo --- stopwatch.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stopwatch.lo -MD -MP -MF .deps/stopwatch.Tpo -c stopwatch.c -o stopwatch.o >/dev/null 2>&1 --- vectorops.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT vectorops.lo -MD -MP -MF .deps/vectorops.Tpo -c vectorops.c -o vectorops.o >/dev/null 2>&1 --- translate.lo --- mv -f .deps/translate.Tpo .deps/translate.Plo --- types.lo --- mv -f .deps/types.Tpo .deps/types.Plo --- stopwatch.lo --- mv -f .deps/stopwatch.Tpo .deps/stopwatch.Plo --- sre_string.lo --- mv -f .deps/sre_string.Tpo .deps/sre_string.Plo --- stockholm.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT stockholm.lo -MD -MP -MF .deps/stockholm.Tpo -c stockholm.c -o stockholm.o >/dev/null 2>&1 --- weight.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT weight.lo -MD -MP -MF .deps/weight.Tpo -c weight.c -o weight.o >/dev/null 2>&1 --- stockholm.lo --- mv -f .deps/stockholm.Tpo .deps/stockholm.Plo --- sqio.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT sqio.lo -MD -MP -MF .deps/sqio.Tpo -c sqio.c -o sqio.o >/dev/null 2>&1 --- weight.lo --- mv -f .deps/weight.Tpo .deps/weight.Plo --- ssi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ssi.lo -MD -MP -MF .deps/ssi.Tpo -c ssi.c -o ssi.o >/dev/null 2>&1 --- msa.lo --- mv -f .deps/msa.Tpo .deps/msa.Plo --- vectorops.lo --- mv -f .deps/vectorops.Tpo .deps/vectorops.Plo --- ssi.lo --- mv -f .deps/ssi.Tpo .deps/ssi.Plo --- sqio.lo --- mv -f .deps/sqio.Tpo .deps/sqio.Plo --- libsquid.la --- /bin/sh ../../libtool --tag=CC --mode=link cc -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -o libsquid.la a2m.lo aligneval.lo alignio.lo clustal.lo cluster.lo dayhoff.lo eps.lo file.lo getopt.lo gki.lo gsi.lo gsi64.lo hsregex.lo iupac.lo msa.lo msf.lo phylip.lo revcomp.lo rk.lo selex.lo seqencode.lo shuffle.lo sqerror.lo sqio.lo squidcore.lo sre_ctype.lo sre_math.lo sre_random.lo sre_string.lo ssi.lo stack.lo stockholm.lo stopwatch.lo translate.lo types.lo vectorops.lo weight.lo -largtable2 -lm -L/usr/local/lib libtool: link: ar cru .libs/libsquid.a .libs/a2m.o .libs/aligneval.o .libs/alignio.o .libs/clustal.o .libs/cluster.o .libs/dayhoff.o .libs/eps.o .libs/file.o .libs/getopt.o .libs/gki.o .libs/gsi.o .libs/gsi64.o .libs/hsregex.o .libs/iupac.o .libs/msa.o .libs/msf.o .libs/phylip.o .libs/revcomp.o .libs/rk.o .libs/selex.o .libs/seqencode.o .libs/shuffle.o .libs/sqerror.o .libs/sqio.o .libs/squidcore.o .libs/sre_ctype.o .libs/sre_math.o .libs/sre_random.o .libs/sre_string.o .libs/ssi.o .libs/stack.o .libs/stockholm.o .libs/stopwatch.o .libs/translate.o .libs/types.o .libs/vectorops.o .libs/weight.o /usr/libexec/binutils227/elf/ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libsquid.a libtool: link: ( cd ".libs" && rm -f "libsquid.la" && ln -s "../libsquid.la" "libsquid.la" ) Making all in kmpp --- KMeans.lo --- --- KmTree.lo --- --- KmUtils.lo --- --- KMeans.lo --- /bin/sh ../../libtool --tag=CXX --mode=compile c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KMeans.lo -MD -MP -MF .deps/KMeans.Tpo -c -o KMeans.lo KMeans.cpp --- KmTree.lo --- /bin/sh ../../libtool --tag=CXX --mode=compile c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KmTree.lo -MD -MP -MF .deps/KmTree.Tpo -c -o KmTree.lo KmTree.cpp --- KmUtils.lo --- /bin/sh ../../libtool --tag=CXX --mode=compile c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KmUtils.lo -MD -MP -MF .deps/KmUtils.Tpo -c -o KmUtils.lo KmUtils.cpp libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KmUtils.lo -MD -MP -MF .deps/KmUtils.Tpo -c KmUtils.cpp -fPIC -DPIC -o .libs/KmUtils.o --- KmTree.lo --- libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KmTree.lo -MD -MP -MF .deps/KmTree.Tpo -c KmTree.cpp -fPIC -DPIC -o .libs/KmTree.o --- KMeans.lo --- libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KMeans.lo -MD -MP -MF .deps/KMeans.Tpo -c KMeans.cpp -fPIC -DPIC -o .libs/KMeans.o --- KmUtils.lo --- libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KmUtils.lo -MD -MP -MF .deps/KmUtils.Tpo -c KmUtils.cpp -o KmUtils.o >/dev/null 2>&1 mv -f .deps/KmUtils.Tpo .deps/KmUtils.Plo --- KmTree.lo --- libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KmTree.lo -MD -MP -MF .deps/KmTree.Tpo -c KmTree.cpp -o KmTree.o >/dev/null 2>&1 --- KMeans.lo --- libtool: compile: c++ -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT KMeans.lo -MD -MP -MF .deps/KMeans.Tpo -c KMeans.cpp -o KMeans.o >/dev/null 2>&1 --- KmTree.lo --- mv -f .deps/KmTree.Tpo .deps/KmTree.Plo --- KMeans.lo --- mv -f .deps/KMeans.Tpo .deps/KMeans.Plo --- libkmpp.la --- /bin/sh ../../libtool --tag=CXX --mode=link c++ -DCLUSTALO -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -o libkmpp.la KMeans.lo KmTree.lo KmUtils.lo -largtable2 -lm -L/usr/local/lib libtool: link: ar cru .libs/libkmpp.a .libs/KMeans.o .libs/KmTree.o .libs/KmUtils.o /usr/libexec/binutils227/elf/ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libkmpp.a libtool: link: ( cd ".libs" && rm -f "libkmpp.la" && ln -s "../libkmpp.la" "libkmpp.la" ) Making all in clustal --- hhalign_wrapper.lo --- --- ktuple_pair.lo --- --- list.lo --- --- log.lo --- --- muscle_upgma.lo --- --- muscle_tree.lo --- --- mbed.lo --- --- pair_dist.lo --- --- progress.lo --- --- seq.lo --- --- symmatrix.lo --- --- tree.lo --- --- hhalign_wrapper.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT hhalign_wrapper.lo -MD -MP -MF .deps/hhalign_wrapper.Tpo -c -o hhalign_wrapper.lo hhalign_wrapper.c --- ktuple_pair.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ktuple_pair.lo -MD -MP -MF .deps/ktuple_pair.Tpo -c -o ktuple_pair.lo ktuple_pair.c --- list.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT list.lo -MD -MP -MF .deps/list.Tpo -c -o list.lo list.c --- log.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT log.lo -MD -MP -MF .deps/log.Tpo -c -o log.lo log.c --- muscle_upgma.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT muscle_upgma.lo -MD -MP -MF .deps/muscle_upgma.Tpo -c -o muscle_upgma.lo muscle_upgma.c --- muscle_tree.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT muscle_tree.lo -MD -MP -MF .deps/muscle_tree.Tpo -c -o muscle_tree.lo muscle_tree.c --- mbed.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT mbed.lo -MD -MP -MF .deps/mbed.Tpo -c -o mbed.lo mbed.c --- pair_dist.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT pair_dist.lo -MD -MP -MF .deps/pair_dist.Tpo -c -o pair_dist.lo pair_dist.c --- progress.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT progress.lo -MD -MP -MF .deps/progress.Tpo -c -o progress.lo progress.c --- seq.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT seq.lo -MD -MP -MF .deps/seq.Tpo -c -o seq.lo seq.c --- symmatrix.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT symmatrix.lo -MD -MP -MF .deps/symmatrix.Tpo -c -o symmatrix.lo symmatrix.c --- tree.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT tree.lo -MD -MP -MF .deps/tree.Tpo -c -o tree.lo tree.c --- log.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT log.lo -MD -MP -MF .deps/log.Tpo -c log.c -fPIC -DPIC -o .libs/log.o --- pair_dist.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT pair_dist.lo -MD -MP -MF .deps/pair_dist.Tpo -c pair_dist.c -fPIC -DPIC -o .libs/pair_dist.o --- muscle_upgma.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT muscle_upgma.lo -MD -MP -MF .deps/muscle_upgma.Tpo -c muscle_upgma.c -fPIC -DPIC -o .libs/muscle_upgma.o --- seq.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT seq.lo -MD -MP -MF .deps/seq.Tpo -c seq.c -fPIC -DPIC -o .libs/seq.o --- mbed.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT mbed.lo -MD -MP -MF .deps/mbed.Tpo -c mbed.c -fPIC -DPIC -o .libs/mbed.o --- symmatrix.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT symmatrix.lo -MD -MP -MF .deps/symmatrix.Tpo -c symmatrix.c -fPIC -DPIC -o .libs/symmatrix.o --- ktuple_pair.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ktuple_pair.lo -MD -MP -MF .deps/ktuple_pair.Tpo -c ktuple_pair.c -fPIC -DPIC -o .libs/ktuple_pair.o --- progress.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT progress.lo -MD -MP -MF .deps/progress.Tpo -c progress.c -fPIC -DPIC -o .libs/progress.o --- muscle_tree.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT muscle_tree.lo -MD -MP -MF .deps/muscle_tree.Tpo -c muscle_tree.c -fPIC -DPIC -o .libs/muscle_tree.o --- list.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT list.lo -MD -MP -MF .deps/list.Tpo -c list.c -fPIC -DPIC -o .libs/list.o --- hhalign_wrapper.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT hhalign_wrapper.lo -MD -MP -MF .deps/hhalign_wrapper.Tpo -c hhalign_wrapper.c -fPIC -DPIC -o .libs/hhalign_wrapper.o --- tree.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT tree.lo -MD -MP -MF .deps/tree.Tpo -c tree.c -fPIC -DPIC -o .libs/tree.o --- log.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT log.lo -MD -MP -MF .deps/log.Tpo -c log.c -o log.o >/dev/null 2>&1 --- list.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT list.lo -MD -MP -MF .deps/list.Tpo -c list.c -o list.o >/dev/null 2>&1 --- tree.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT tree.lo -MD -MP -MF .deps/tree.Tpo -c tree.c -o tree.o >/dev/null 2>&1 --- progress.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT progress.lo -MD -MP -MF .deps/progress.Tpo -c progress.c -o progress.o >/dev/null 2>&1 --- muscle_upgma.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT muscle_upgma.lo -MD -MP -MF .deps/muscle_upgma.Tpo -c muscle_upgma.c -o muscle_upgma.o >/dev/null 2>&1 --- pair_dist.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT pair_dist.lo -MD -MP -MF .deps/pair_dist.Tpo -c pair_dist.c -o pair_dist.o >/dev/null 2>&1 --- log.lo --- mv -f .deps/log.Tpo .deps/log.Plo --- util.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT util.lo -MD -MP -MF .deps/util.Tpo -c -o util.lo util.c --- progress.lo --- mv -f .deps/progress.Tpo .deps/progress.Plo --- weights.lo --- --- list.lo --- mv -f .deps/list.Tpo .deps/list.Plo --- weights.lo --- /bin/sh ../../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT weights.lo -MD -MP -MF .deps/weights.Tpo -c -o weights.lo weights.c --- symmatrix.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT symmatrix.lo -MD -MP -MF .deps/symmatrix.Tpo -c symmatrix.c -o symmatrix.o >/dev/null 2>&1 --- util.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT util.lo -MD -MP -MF .deps/util.Tpo -c util.c -fPIC -DPIC -o .libs/util.o --- weights.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT weights.lo -MD -MP -MF .deps/weights.Tpo -c weights.c -fPIC -DPIC -o .libs/weights.o --- tree.lo --- mv -f .deps/tree.Tpo .deps/tree.Plo --- pair_dist.lo --- mv -f .deps/pair_dist.Tpo .deps/pair_dist.Plo --- symmatrix.lo --- mv -f .deps/symmatrix.Tpo .deps/symmatrix.Plo --- muscle_upgma.lo --- mv -f .deps/muscle_upgma.Tpo .deps/muscle_upgma.Plo --- ktuple_pair.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ktuple_pair.lo -MD -MP -MF .deps/ktuple_pair.Tpo -c ktuple_pair.c -o ktuple_pair.o >/dev/null 2>&1 --- util.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT util.lo -MD -MP -MF .deps/util.Tpo -c util.c -o util.o >/dev/null 2>&1 --- mbed.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT mbed.lo -MD -MP -MF .deps/mbed.Tpo -c mbed.c -o mbed.o >/dev/null 2>&1 --- util.lo --- mv -f .deps/util.Tpo .deps/util.Plo --- muscle_tree.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT muscle_tree.lo -MD -MP -MF .deps/muscle_tree.Tpo -c muscle_tree.c -o muscle_tree.o >/dev/null 2>&1 --- ktuple_pair.lo --- mv -f .deps/ktuple_pair.Tpo .deps/ktuple_pair.Plo --- mbed.lo --- mv -f .deps/mbed.Tpo .deps/mbed.Plo --- weights.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT weights.lo -MD -MP -MF .deps/weights.Tpo -c weights.c -o weights.o >/dev/null 2>&1 mv -f .deps/weights.Tpo .deps/weights.Plo --- seq.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT seq.lo -MD -MP -MF .deps/seq.Tpo -c seq.c -o seq.o >/dev/null 2>&1 --- muscle_tree.lo --- mv -f .deps/muscle_tree.Tpo .deps/muscle_tree.Plo --- hhalign_wrapper.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I../../src -isystem /usr/local/include -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT hhalign_wrapper.lo -MD -MP -MF .deps/hhalign_wrapper.Tpo -c hhalign_wrapper.c -o hhalign_wrapper.o >/dev/null 2>&1 --- seq.lo --- mv -f .deps/seq.Tpo .deps/seq.Plo --- hhalign_wrapper.lo --- mv -f .deps/hhalign_wrapper.Tpo .deps/hhalign_wrapper.Plo --- libclustal.la --- /bin/sh ../../libtool --tag=CC --mode=link cc -fopenmp -O3 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -o libclustal.la hhalign_wrapper.lo ktuple_pair.lo list.lo log.lo muscle_upgma.lo muscle_tree.lo mbed.lo pair_dist.lo progress.lo seq.lo symmatrix.lo tree.lo util.lo weights.lo -largtable2 -lm -L/usr/local/lib libtool: link: ar cru .libs/libclustal.a .libs/hhalign_wrapper.o .libs/ktuple_pair.o .libs/list.o .libs/log.o .libs/muscle_upgma.o .libs/muscle_tree.o .libs/mbed.o .libs/pair_dist.o .libs/progress.o .libs/seq.o .libs/symmatrix.o .libs/tree.o .libs/util.o .libs/weights.o /usr/libexec/binutils227/elf/ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libclustal.a libtool: link: ( cd ".libs" && rm -f "libclustal.la" && ln -s "../libclustal.la" "libclustal.la" ) --- clustal-omega.lo --- --- main.o --- --- mymain.o --- --- clustal-omega.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -O3 -fopenmp -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT clustal-omega.lo -MD -MP -MF .deps/clustal-omega.Tpo -c -o clustal-omega.lo clustal-omega.c --- main.o --- c++ -DHAVE_CONFIG_H -I. -isystem /usr/local/include -O3 -fopenmp -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.cpp --- mymain.o --- cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -O3 -fopenmp -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT mymain.o -MD -MP -MF .deps/mymain.Tpo -c -o mymain.o mymain.c --- clustal-omega.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -O3 -fopenmp -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT clustal-omega.lo -MD -MP -MF .deps/clustal-omega.Tpo -c clustal-omega.c -fPIC -DPIC -o .libs/clustal-omega.o --- main.o --- mv -f .deps/main.Tpo .deps/main.Po --- mymain.o --- mv -f .deps/mymain.Tpo .deps/mymain.Po --- clustal-omega.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -O3 -fopenmp -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -MT clustal-omega.lo -MD -MP -MF .deps/clustal-omega.Tpo -c clustal-omega.c -o clustal-omega.o >/dev/null 2>&1 mv -f .deps/clustal-omega.Tpo .deps/clustal-omega.Plo --- libclustalo.la --- /bin/sh ../libtool --tag=CC --mode=link cc -O3 -fopenmp -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -static -o libclustalo.la -rpath /usr/local/lib clustal-omega.lo clustal/libclustal.la hhalign/libhhalign.la squid/libsquid.la kmpp/libkmpp.la -largtable2 -lm -L/usr/local/lib libtool: link: (cd .libs/libclustalo.lax/libclustal.a && ar x "/construction/biology/clustal-omega/clustal-omega-1.2.4/src/clustal/.libs/libclustal.a") libtool: link: (cd .libs/libclustalo.lax/libhhalign.a && ar x "/construction/biology/clustal-omega/clustal-omega-1.2.4/src/hhalign/.libs/libhhalign.a") libtool: link: (cd .libs/libclustalo.lax/libsquid.a && ar x "/construction/biology/clustal-omega/clustal-omega-1.2.4/src/squid/.libs/libsquid.a") libtool: link: (cd .libs/libclustalo.lax/libkmpp.a && ar x "/construction/biology/clustal-omega/clustal-omega-1.2.4/src/kmpp/.libs/libkmpp.a") libtool: link: ar cru .libs/libclustalo.a clustal-omega.o .libs/libclustalo.lax/libclustal.a/ktuple_pair.o .libs/libclustalo.lax/libclustal.a/weights.o .libs/libclustalo.lax/libclustal.a/util.o .libs/libclustalo.lax/libclustal.a/hhalign_wrapper.o .libs/libclustalo.lax/libclustal.a/muscle_tree.o .libs/libclustalo.lax/libclustal.a/mbed.o .libs/libclustalo.lax/libclustal.a/pair_dist.o .libs/libclustalo.lax/libclustal.a/progress.o .libs/libclustalo.lax/libclustal.a/seq.o .libs/libclustalo.lax/libclustal.a/list.o .libs/libclustalo.lax/libclustal.a/muscle_upgma.o .libs/libclustalo.lax/libclustal.a/log.o .libs/libclustalo.lax/libclustal.a/tree.o .libs/libclustalo.lax/libclustal.a/symmatrix.o .libs/libclustalo.lax/libhhalign.a/hhalign.o .libs/libclustalo.lax/libsquid.a/a2m.o .libs/libclustalo.lax/libsquid.a/eps.o .libs/libclustalo.lax/libsquid.a/sqio.o .libs/libclustalo.lax/libsquid.a/gki.o .libs/libclustalo.lax/libsquid.a/gsi64.o .libs/libclustalo.lax/libsquid.a/cluster.o .libs/libclustalo.lax/libsquid.a/gsi.o .libs/libclustalo.lax/libsquid.a/hsregex.o .libs/libclustalo.lax/libsquid.a/file.o .libs/libclustalo.lax/libsquid.a/getopt.o .libs/libclustalo.lax/libsquid.a/iupac.o .libs/libclustalo.lax/libsquid.a/msa.o .libs/libclustalo.lax/libsquid.a/dayhoff.o .libs/libclustalo.lax/libsquid.a/clustal.o .libs/libclustalo.lax/libsquid.a/alignio.o .libs/libclustalo.lax/libsquid.a/sqerror.o .libs/libclustalo.lax/libsquid.a/vectorops.o .libs/libclustalo.lax/libsquid.a/weight.o .libs/libclustalo.lax/libsquid.a/shuffle.o .libs/libclustalo.lax/libsquid.a/aligneval.o .libs/libclustalo.lax/libsquid.a/stockholm.o .libs/libclustalo.lax/libsquid.a/sre_string.o .libs/libclustalo.lax/libsquid.a/stack.o .libs/libclustalo.lax/libsquid.a/rk.o .libs/libclustalo.lax/libsquid.a/selex.o .libs/libclustalo.lax/libsquid.a/revcomp.o .libs/libclustalo.lax/libsquid.a/sre_random.o .libs/libclustalo.lax/libsquid.a/squidcore.o .libs/libclustalo.lax/libsquid.a/sre_ctype.o .libs/libclustalo.lax/libsquid.a/msf.o .libs/libclustalo.lax/libsquid.a/phylip.o .libs/libclustalo.lax/libsquid.a/sre_math.o .libs/libclustalo.lax/libsquid.a/ssi.o .libs/libclustalo.lax/libsquid.a/translate.o .libs/libclustalo.lax/libsquid.a/seqencode.o .libs/libclustalo.lax/libsquid.a/stopwatch.o .libs/libclustalo.lax/libsquid.a/types.o .libs/libclustalo.lax/libkmpp.a/KmUtils.o .libs/libclustalo.lax/libkmpp.a/KMeans.o .libs/libclustalo.lax/libkmpp.a/KmTree.o /usr/libexec/binutils227/elf/ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libclustalo.a libtool: link: rm -fr .libs/libclustalo.lax libtool: link: ( cd ".libs" && rm -f "libclustalo.la" && ln -s "../libclustalo.la" "libclustalo.la" ) --- clustalo --- /bin/sh ../libtool --tag=CXX --mode=link c++ -O3 -fopenmp -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -o clustalo main.o mymain.o libclustalo.la -largtable2 -lm -L/usr/local/lib libtool: link: c++ -O3 -fopenmp -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -o clustalo main.o mymain.o ./.libs/libclustalo.a -L/usr/local/lib -largtable2 -lm ./.libs/libclustalo.a(clustal-omega.o):clustal-omega.c:function AlnToHHMFile: warning: warning: mktemp() possibly used unsafely; consider using mkstemp() ./.libs/libclustalo.a(clustal-omega.o):clustal-omega.c:function AlnToHMMFile: warning: warning: mktemp() possibly used unsafely; consider using mkstemp() ./.libs/libclustalo.a(clustal-omega.o):clustal-omega.c:function AlnToHMMFile: warning: warning: mktemp() possibly used unsafely; consider using mkstemp() ./.libs/libclustalo.a(clustal-omega.o):clustal-omega.c:function AlnToHMM: warning: warning: mktemp() possibly used unsafely; consider using mkstemp() -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for clustal-omega-1.2.4 ===> Generating temporary packing list Making install in src Making install in hhalign test -z "/usr/local/include/clustalo/hhalign" || /bin/mkdir -p "/construction/biology/clustal-omega/stage/usr/local/include/clustalo/hhalign" install -m 0644 'general.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/hhalign/general.h' install -m 0644 'hhfunc.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/hhalign/hhfunc.h' Making install in squid test -z "/usr/local/include/clustalo/squid" || /bin/mkdir -p "/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid" install -m 0644 'gki.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/gki.h' install -m 0644 'gsi64.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/gsi64.h' install -m 0644 'msa.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/msa.h' install -m 0644 'rk.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/rk.h' install -m 0644 'squid.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/squid.h' install -m 0644 'stopwatch.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/stopwatch.h' install -m 0644 'sqfuncs.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/sqfuncs.h' install -m 0644 'sre_random.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/sre_random.h' install -m 0644 'ssi.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/ssi.h' install -m 0644 'stockholm.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/stockholm.h' install -m 0644 'vectorops.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/vectorops.h' install -m 0644 'version.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/squid/version.h' Making install in kmpp Making install in clustal test -z "/usr/local/include/clustalo/clustal" || /bin/mkdir -p "/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal" install -m 0644 'hhalign_wrapper.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/hhalign_wrapper.h' install -m 0644 'ktuple_pair.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/ktuple_pair.h' install -m 0644 'log.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/log.h' install -m 0644 'mbed.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/mbed.h' install -m 0644 'muscle_tree.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/muscle_tree.h' install -m 0644 'pair_dist.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/pair_dist.h' install -m 0644 'progress.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/progress.h' install -m 0644 'seq.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/seq.h' install -m 0644 'symmatrix.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/symmatrix.h' install -m 0644 'tree.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/tree.h' install -m 0644 'util.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/util.h' install -m 0644 'weights.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo/clustal/weights.h' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/biology/clustal-omega/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c 'libclustalo.la' '/construction/biology/clustal-omega/stage/usr/local/lib/libclustalo.la' libtool: install: /usr/bin/install -c .libs/libclustalo.lai /construction/biology/clustal-omega/stage/usr/local/lib/libclustalo.la libtool: install: /usr/bin/install -c .libs/libclustalo.a /construction/biology/clustal-omega/stage/usr/local/lib/libclustalo.a libtool: install: chmod 644 /construction/biology/clustal-omega/stage/usr/local/lib/libclustalo.a libtool: install: ranlib /construction/biology/clustal-omega/stage/usr/local/lib/libclustalo.a libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/bin" || /bin/mkdir -p "/construction/biology/clustal-omega/stage/usr/local/bin" /bin/sh ../libtool --mode=install install -s -m 555 'clustalo' '/construction/biology/clustal-omega/stage/usr/local/bin/clustalo' libtool: install: install -m 555 -s clustalo /construction/biology/clustal-omega/stage/usr/local/bin/clustalo test -z "/usr/local/include/clustalo/" || /bin/mkdir -p "/construction/biology/clustal-omega/stage/usr/local/include/clustalo/" install -m 0644 'clustal-omega-config.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo//clustal-omega-config.h' install -m 0644 'clustal-omega.h' '/construction/biology/clustal-omega/stage/usr/local/include/clustalo//clustal-omega.h' test -z "/usr/local/share/doc/clustal-omega" || /bin/mkdir -p "/construction/biology/clustal-omega/stage/usr/local/share/doc/clustal-omega" install -m 0644 'README' '/construction/biology/clustal-omega/stage/usr/local/share/doc/clustal-omega/README' test -z "/usr/local/lib/pkgconfig" || /bin/mkdir -p "/construction/biology/clustal-omega/stage/usr/local/lib/pkgconfig" install -m 0644 'clustalo.pc' '/construction/biology/clustal-omega/stage/usr/local/lib/pkgconfig/clustalo.pc' ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for clustal-omega-1.2.4 file sizes/checksums [35]: . done packing files [35]: . done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Thursday, 30 AUG 2018 at 13:02:54 UTC Duration: 00:01:50