------------------------------------------------------------------------------- -- Phase: Environment ------------------------------------------------------------------------------- NO_DEPENDS=1 UNAME_r=6.5 UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=unknown UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 LANG=C HOME=/root USER=root TERM=dumb SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: showconfig ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ENV ------------------------------------------------------------------------------- PKG_CONFIG=pkgconf XDG_DATA_HOME=/construction/science/ghmm XDG_CONFIG_HOME=/construction/science/ghmm XDG_CACHE_HOME=/construction/science/ghmm/.cache HOME=/construction/science/ghmm TMPDIR="/tmp" PATH=/construction/science/ghmm/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/science/ghmm/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 DEFAULT_AUTOCONF=2.71 LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 CONFIG_SITE=/xports/Templates/config.site lt_cv_sys_max_cmd_len=262144 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ARGS ------------------------------------------------------------------------------- --without-python --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ENV ------------------------------------------------------------------------------- XDG_DATA_HOME=/construction/science/ghmm XDG_CONFIG_HOME=/construction/science/ghmm XDG_CACHE_HOME=/construction/science/ghmm/.cache HOME=/construction/science/ghmm TMPDIR="/tmp" PATH=/construction/science/ghmm/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/science/ghmm/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc80 DEFAULT_AUTOCONF=2.71 LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " 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" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ARGS ------------------------------------------------------------------------------- DESTDIR=/construction/science/ghmm/stage SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: PLIST_SUB ------------------------------------------------------------------------------- GTK2_VERSION="2.10.0" GTK3_VERSION="3.0.0" GTK4_VERSION="4.0.0" OSREL=6.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/ghmm" EXAMPLESDIR="share/examples/ghmm" DATADIR="share/ghmm" WWWDIR="www/ghmm" ETCDIR="etc/ghmm" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: SUB_LIST ------------------------------------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/ghmm DOCSDIR=/usr/local/share/doc/ghmm EXAMPLESDIR=/usr/local/share/examples/ghmm WWWDIR=/usr/local/www/ghmm ETCDIR=/usr/local/etc/ghmm SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: /etc/make.conf ------------------------------------------------------------------------------- DPORTS_BUILDER=yes DISABLE_LICENSES=yes DEFAULT_VERSIONS=ssl=openssl FORCE_PACKAGE=yes DEVELOPER=yes DFLY_STING_XFAIL=yes USE_PACKAGE_DEPENDS_ONLY=yes PORTSDIR=/xports PORT_DBDIR=/options PKG_DBDIR=/var/db/pkg PKG_CACHEDIR=/var/cache/pkg PKG_COMPRESSION_FORMAT=.tgz DEVELOPER=1 WITH_CCACHE_BUILD=yes CCACHE_DIR=/ccache UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=600503 OSVERSION=9999999 OSREL=6.5 _OSRELEASE=6.5-SYNTH DISTDIR=/distfiles WRKDIRPREFIX=/construction BATCH=yes PACKAGE_BUILDING=yes PKG_CREATE_VERBOSE=yes MAKE_JOBS_NUMBER=13 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/pkgconf-1.8.1,1.pkg Installing /packages/All/autoconf-switch-20220527.pkg Installing /packages/All/indexinfo-0.3.1.pkg Installing /packages/All/gettext-runtime-0.21.1.pkg Installing /packages/All/m4-1.4.19,1.pkg Installing /packages/All/perl5-5.32.1_3.pkg Installing /packages/All/autoconf-2.71.pkg Installing /packages/All/automake-1.16.5.pkg Installing /packages/All/libtool-2.4.7_1.pkg Installing /packages/All/ccache-3.7.12_4.pkg Create compiler links... create symlink for cc create symlink for cc (world) create symlink for c++ create symlink for c++ (world) create symlink for CC create symlink for CC (world) create symlink for gcc create symlink for gcc (world) create symlink for g++ create symlink for g++ (world) ===== Message from ccache-3.7.12_4: -- NOTE: Please read /usr/local/share/doc/ccache/ccache-howto-freebsd.txt for information on using ccache with FreeBSD ports and src. Installing /packages/All/ncurses-6.4.pkg ===== Message from ncurses-6.4: -- To get the terminfo database please install the terminfo-db package: pkg install terminfo-db Installing /packages/All/readline-8.2.1.pkg Installing /packages/All/libxml2-2.10.4.pkg SUCCEEDED 00:00:05 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> ghmm-0.9.r3_2 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> ghmm-0.9.r3_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by ghmm-0.9.r3_2 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> ghmm-0.9.r3_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by ghmm-0.9.r3_2 for building => SHA256 Checksum OK for ghmm-0.9-rc3.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> ghmm-0.9.r3_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by ghmm-0.9.r3_2 for building ===> Extracting for ghmm-0.9.r3_2 => SHA256 Checksum OK for ghmm-0.9-rc3.tar.gz. Extracted Memory Use: 3.62M SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for ghmm-0.9.r3_2 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> ghmm-0.9.r3_2 depends on package: pkgconf>=1.3.0_1 - found ===> ghmm-0.9.r3_2 depends on package: autoconf>=2.71 - found ===> ghmm-0.9.r3_2 depends on package: automake>=1.16.5 - found ===> ghmm-0.9.r3_2 depends on executable: libtoolize - found ===> ghmm-0.9.r3_2 depends on file: /usr/local/bin/ccache - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- ===> ghmm-0.9.r3_2 depends on shared library: libxml2.so - found (/usr/local/lib/libxml2.so) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> ghmm-0.9.r3_2 depends on package: pkgconf>=1.3.0_1 - found ===> ghmm-0.9.r3_2 depends on package: autoconf>=2.71 - found ===> ghmm-0.9.r3_2 depends on package: automake>=1.16.5 - found ===> ghmm-0.9.r3_2 depends on executable: libtoolize - found ===> ghmm-0.9.r3_2 depends on file: /usr/local/bin/ccache - found ===> ghmm-0.9.r3_2 depends on shared library: libxml2.so - found (/usr/local/lib/libxml2.so) ===> Configuring for ghmm-0.9.r3_2 autoreconf2.71: warning: autoconf input should be named 'configure.ac', not 'configure.in' aclocal: warning: autoconf input should be named 'configure.ac', not 'configure.in' libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.in, libtoolize: and rerunning libtoolize and aclocal. libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am. aclocal: warning: autoconf input should be named 'configure.ac', not 'configure.in' configure.in:47: warning: 'AM_CONFIG_HEADER': this macro is obsolete. configure.in:47: You should use the 'AC_CONFIG_HEADERS' macro instead. ./lib/autoconf/general.m4:2434: AC_DIAGNOSE is expanded from... aclocal.m4:9806: AM_CONFIG_HEADER is expanded from... configure.in:47: the top level configure.in:63: warning: The macro `AM_PROG_LIBTOOL' is obsolete. configure.in:63: You should run autoupdate. aclocal.m4:123: AM_PROG_LIBTOOL is expanded from... configure.in:63: the top level configure.in:75: warning: The macro `AC_HELP_STRING' is obsolete. configure.in:75: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.in:75: the top level configure.in:93: warning: The macro `AC_HELP_STRING' is obsolete. configure.in:93: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.in:93: the top level configure.in:104: warning: The macro `AC_LANG_C' is obsolete. configure.in:104: You should run autoupdate. ./lib/autoconf/c.m4:72: AC_LANG_C is expanded from... configure.in:104: the top level configure.in:111: warning: The macro `AC_HEADER_STDC' is obsolete. configure.in:111: You should run autoupdate. ./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from... configure.in:111: the top level configure.in:117: warning: The macro `AC_HEADER_TIME' is obsolete. configure.in:117: You should run autoupdate. ./lib/autoconf/headers.m4:743: AC_HEADER_TIME is expanded from... configure.in:117: the top level configure.in:136: warning: The macro `AC_HELP_STRING' is obsolete. configure.in:136: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.in:136: the top level configure.in:135: warning: The macro `AC_TRY_RUN' is obsolete. configure.in:135: You should run autoupdate. ./lib/autoconf/general.m4:2997: AC_TRY_RUN is expanded from... acinclude.m4:10: AM_PATH_GSL is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from... configure.in:135: the top level configure.in:135: warning: The macro `AC_TRY_LINK' is obsolete. configure.in:135: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... acinclude.m4:10: AM_PATH_GSL is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from... configure.in:135: the top level configure.in:135: warning: The macro `AC_TRY_COMPILE' is obsolete. configure.in:135: You should run autoupdate. ./lib/autoconf/general.m4:2847: AC_TRY_COMPILE is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from... configure.in:135: the top level configure.in:135: warning: The macro `AC_TRY_LINK' is obsolete. configure.in:135: You should run autoupdate. ./lib/autoconf/general.m4:2920: AC_TRY_LINK is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from... configure.in:135: the top level configure.in:194: warning: The macro `AC_HELP_STRING' is obsolete. configure.in:194: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.in:194: the top level configure.in:207: warning: The macro `AC_HELP_STRING' is obsolete. configure.in:207: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... configure.in:207: the top level configure.in:206: warning: The macro `AC_TRY_COMPILE' is obsolete. configure.in:206: You should run autoupdate. ./lib/autoconf/general.m4:2847: AC_TRY_COMPILE is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from... configure.in:206: the top level configure.in:332: warning: The macro `AC_HELP_STRING' is obsolete. configure.in:332: You should run autoupdate. ./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from... ./lib/autoconf/general.m4:1553: AC_ARG_WITH is expanded from... configure.in:332: the top level configure.in:363: warning: AC_OUTPUT should be used without arguments. configure.in:363: You should run autoupdate. autoheader2.71: warning: autoconf input should be named 'configure.ac', not 'configure.in' automake: warning: autoconf input should be named 'configure.ac', not 'configure.in' configure.in:62: installing './compile' configure.in:49: installing './missing' ghmm/Makefile.am:77: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS') automake: warning: autoconf input should be named 'configure.ac', not 'configure.in' ghmm/Makefile.am: installing './depcomp' tests/Makefile.am:51: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS') parallel-tests: installing './test-driver' tools/Makefile.am:48: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS') configure: loading site script /xports/Templates/config.site checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free 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 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 the compiler supports GNU C... yes checking whether cc accepts -g... yes checking for cc option to enable C11 features... none needed checking whether cc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of cc... gcc3 checking build system type... x86_64-portbld-dragonfly6.5 checking host system type... x86_64-portbld-dragonfly6.5 checking how to print strings... printf checking for a sed that does not truncate output... (cached) /usr/bin/sed checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep checking for fgrep... (cached) /usr/bin/fgrep checking for ld used by cc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... (cached) 262144 checking how to convert x86_64-portbld-dragonfly6.5 file names to x86_64-portbld-dragonfly6.5 format... func_convert_file_noop checking how to convert x86_64-portbld-dragonfly6.5 file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for file... file checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from cc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... mt checking if mt is a manifest tool... no checking for stdio.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for strings.h... (cached) yes checking for sys/stat.h... (cached) yes checking for sys/types.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/time.h... (cached) yes 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... dragonfly6.5 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 gawk... (cached) /usr/bin/awk checking for doxygen... no checking for rm... /bin/rm checking for pkg-config... /usr/local/bin/pkg-config checking for expect... no checking for runtest... no configure: obsolete features disabled configure: unsupported features disabled checking for pthread_join in -lpthread... yes checking for egrep... (cached) /usr/bin/egrep checking for an ANSI C-conforming const... yes checking for size_t... (cached) yes checking whether struct tm is in sys/time.h or time.h... time.h checking for sqrt in -lm... yes checking for exp in -lm... yes checking for pow in -lm... yes configure: "not using gsl" checking for cos in -lm... yes configure: "not using diagonal covariance matrix hack" configure: "not using lapack" configure: using internal Mersenne-Twister random number generator checking libxml2 version... ... ok checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating ghmm/Makefile config.status: creating ghmm/ghmmconfig.h config.status: creating tools/Makefile config.status: creating tests/Makefile config.status: creating tests/data/Makefile config.status: creating tools/ghmm-config config.status: creating ghmmwrapper/Makefile config.status: creating HMMEd/Makefile config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands rm: libtoolT: No such file or directory SUCCEEDED 00:00:12 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for ghmm-0.9.r3_2 --- all --- /usr/bin/make all-recursive --- all-recursive --- Making all in ghmm --- all-recursive --- Making all in . --- rng.lo --- --- randvar.lo --- --- matrixop.lo --- --- gauss_tail.lo --- --- mes.lo --- --- ghmm_internals.lo --- --- mprintf.lo --- --- vector.lo --- --- matrix.lo --- --- scanner.lo --- --- linkedlist.lo --- --- sequence.lo --- --- psequence.lo --- --- matrixop.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT matrixop.lo -MD -MP -MF .deps/matrixop.Tpo -c -o matrixop.lo matrixop.c --- gauss_tail.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT gauss_tail.lo -MD -MP -MF .deps/gauss_tail.Tpo -c -o gauss_tail.lo gauss_tail.c --- mes.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT mes.lo -MD -MP -MF .deps/mes.Tpo -c -o mes.lo mes.c --- ghmm_internals.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT ghmm_internals.lo -MD -MP -MF .deps/ghmm_internals.Tpo -c -o ghmm_internals.lo ghmm_internals.c --- vector.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT vector.lo -MD -MP -MF .deps/vector.Tpo -c -o vector.lo vector.c --- matrix.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c -o matrix.lo matrix.c --- rng.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT rng.lo -MD -MP -MF .deps/rng.Tpo -c -o rng.lo rng.c --- scanner.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT scanner.lo -MD -MP -MF .deps/scanner.Tpo -c -o scanner.lo scanner.c --- linkedlist.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT linkedlist.lo -MD -MP -MF .deps/linkedlist.Tpo -c -o linkedlist.lo linkedlist.c --- sequence.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sequence.lo -MD -MP -MF .deps/sequence.Tpo -c -o sequence.lo sequence.c --- randvar.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT randvar.lo -MD -MP -MF .deps/randvar.Tpo -c -o randvar.lo randvar.c --- mprintf.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT mprintf.lo -MD -MP -MF .deps/mprintf.Tpo -c -o mprintf.lo mprintf.c --- psequence.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT psequence.lo -MD -MP -MF .deps/psequence.Tpo -c -o psequence.lo psequence.c --- mes.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT mes.lo -MD -MP -MF .deps/mes.Tpo -c mes.c -fPIC -DPIC -o .libs/mes.o --- gauss_tail.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT gauss_tail.lo -MD -MP -MF .deps/gauss_tail.Tpo -c gauss_tail.c -fPIC -DPIC -o .libs/gauss_tail.o --- ghmm_internals.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT ghmm_internals.lo -MD -MP -MF .deps/ghmm_internals.Tpo -c ghmm_internals.c -fPIC -DPIC -o .libs/ghmm_internals.o --- gauss_tail.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT gauss_tail.lo -MD -MP -MF .deps/gauss_tail.Tpo -c gauss_tail.c -o gauss_tail.o >/dev/null 2>&1 --- ghmm_internals.lo --- In function 'process_external_log', inlined from 'ighmm_log_out' at ghmm_internals.c:83:5: ghmm_internals.c:68:17: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] message = strncpy(message, proc, proc_len+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ghmm_internals.c: In function 'ighmm_log_out': ghmm_internals.c:63:18: note: length computed here int proc_len = strlen(proc); ^~~~~~~~~~~~ In function 'process_external_log', inlined from 'ighmm_log_out' at ghmm_internals.c:83:5: ghmm_internals.c:69:17: warning: 'strncat' specified bound depends on the length of the source argument [-Wstringop-overflow=] message = strncat(message, error_str, slen); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ghmm_internals.c: In function 'ighmm_log_out': ghmm_internals.c:64:14: note: length computed here int slen = strlen(error_str); ^~~~~~~~~~~~~~~~~ libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT ghmm_internals.lo -MD -MP -MF .deps/ghmm_internals.Tpo -c ghmm_internals.c -o ghmm_internals.o >/dev/null 2>&1 --- mes.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT mes.lo -MD -MP -MF .deps/mes.Tpo -c mes.c -o mes.o >/dev/null 2>&1 --- psequence.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT psequence.lo -MD -MP -MF .deps/psequence.Tpo -c psequence.c -fPIC -DPIC -o .libs/psequence.o --- randvar.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT randvar.lo -MD -MP -MF .deps/randvar.Tpo -c randvar.c -fPIC -DPIC -o .libs/randvar.o --- vector.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT vector.lo -MD -MP -MF .deps/vector.Tpo -c vector.c -fPIC -DPIC -o .libs/vector.o --- gauss_tail.lo --- mv -f .deps/gauss_tail.Tpo .deps/gauss_tail.Plo --- xmlreader.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT xmlreader.lo -MD -MP -MF .deps/xmlreader.Tpo -c -o xmlreader.lo xmlreader.c --- sequence.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sequence.lo -MD -MP -MF .deps/sequence.Tpo -c sequence.c -fPIC -DPIC -o .libs/sequence.o --- scanner.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT scanner.lo -MD -MP -MF .deps/scanner.Tpo -c scanner.c -fPIC -DPIC -o .libs/scanner.o libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT scanner.lo -MD -MP -MF .deps/scanner.Tpo -c scanner.c -o scanner.o >/dev/null 2>&1 --- ghmm_internals.lo --- mv -f .deps/ghmm_internals.Tpo .deps/ghmm_internals.Plo --- xmlwriter.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT xmlwriter.lo -MD -MP -MF .deps/xmlwriter.Tpo -c -o xmlwriter.lo xmlwriter.c --- scanner.lo --- mv -f .deps/scanner.Tpo .deps/scanner.Plo --- model.lo --- --- matrixop.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT matrixop.lo -MD -MP -MF .deps/matrixop.Tpo -c matrixop.c -fPIC -DPIC -o .libs/matrixop.o --- model.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT model.lo -MD -MP -MF .deps/model.Tpo -c -o model.lo model.c --- matrix.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.c -fPIC -DPIC -o .libs/matrix.o --- matrixop.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT matrixop.lo -MD -MP -MF .deps/matrixop.Tpo -c matrixop.c -o matrixop.o >/dev/null 2>&1 --- linkedlist.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT linkedlist.lo -MD -MP -MF .deps/linkedlist.Tpo -c linkedlist.c -fPIC -DPIC -o .libs/linkedlist.o --- rng.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT rng.lo -MD -MP -MF .deps/rng.Tpo -c rng.c -fPIC -DPIC -o .libs/rng.o --- vector.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT vector.lo -MD -MP -MF .deps/vector.Tpo -c vector.c -o vector.o >/dev/null 2>&1 --- rng.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT rng.lo -MD -MP -MF .deps/rng.Tpo -c rng.c -o rng.o >/dev/null 2>&1 --- matrixop.lo --- mv -f .deps/matrixop.Tpo .deps/matrixop.Plo --- foba.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT foba.lo -MD -MP -MF .deps/foba.Tpo -c -o foba.lo foba.c --- rng.lo --- mv -f .deps/rng.Tpo .deps/rng.Plo --- viterbi.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT viterbi.lo -MD -MP -MF .deps/viterbi.Tpo -c -o viterbi.lo viterbi.c --- linkedlist.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT linkedlist.lo -MD -MP -MF .deps/linkedlist.Tpo -c linkedlist.c -o linkedlist.o >/dev/null 2>&1 --- xmlreader.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT xmlreader.lo -MD -MP -MF .deps/xmlreader.Tpo -c xmlreader.c -fPIC -DPIC -o .libs/xmlreader.o --- mes.lo --- mv -f .deps/mes.Tpo .deps/mes.Plo --- reestimate.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT reestimate.lo -MD -MP -MF .deps/reestimate.Tpo -c -o reestimate.lo reestimate.c --- xmlwriter.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT xmlwriter.lo -MD -MP -MF .deps/xmlwriter.Tpo -c xmlwriter.c -fPIC -DPIC -o .libs/xmlwriter.o --- model.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT model.lo -MD -MP -MF .deps/model.Tpo -c model.c -fPIC -DPIC -o .libs/model.o --- linkedlist.lo --- mv -f .deps/linkedlist.Tpo .deps/linkedlist.Plo --- gradescent.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT gradescent.lo -MD -MP -MF .deps/gradescent.Tpo -c -o gradescent.lo gradescent.c --- viterbi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT viterbi.lo -MD -MP -MF .deps/viterbi.Tpo -c viterbi.c -fPIC -DPIC -o .libs/viterbi.o --- reestimate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT reestimate.lo -MD -MP -MF .deps/reestimate.Tpo -c reestimate.c -fPIC -DPIC -o .libs/reestimate.o --- gradescent.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT gradescent.lo -MD -MP -MF .deps/gradescent.Tpo -c gradescent.c -fPIC -DPIC -o .libs/gradescent.o --- xmlwriter.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT xmlwriter.lo -MD -MP -MF .deps/xmlwriter.Tpo -c xmlwriter.c -o xmlwriter.o >/dev/null 2>&1 --- psequence.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT psequence.lo -MD -MP -MF .deps/psequence.Tpo -c psequence.c -o psequence.o >/dev/null 2>&1 --- mprintf.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT mprintf.lo -MD -MP -MF .deps/mprintf.Tpo -c mprintf.c -fPIC -DPIC -o .libs/mprintf.o libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT mprintf.lo -MD -MP -MF .deps/mprintf.Tpo -c mprintf.c -o mprintf.o >/dev/null 2>&1 --- foba.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT foba.lo -MD -MP -MF .deps/foba.Tpo -c foba.c -fPIC -DPIC -o .libs/foba.o --- randvar.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT randvar.lo -MD -MP -MF .deps/randvar.Tpo -c randvar.c -o randvar.o >/dev/null 2>&1 --- vector.lo --- mv -f .deps/vector.Tpo .deps/vector.Plo --- kbest.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT kbest.lo -MD -MP -MF .deps/kbest.Tpo -c -o kbest.lo kbest.c --- xmlwriter.lo --- mv -f .deps/xmlwriter.Tpo .deps/xmlwriter.Plo --- discrime.lo --- --- gradescent.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT gradescent.lo -MD -MP -MF .deps/gradescent.Tpo -c gradescent.c -o gradescent.o >/dev/null 2>&1 --- discrime.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT discrime.lo -MD -MP -MF .deps/discrime.Tpo -c -o discrime.lo discrime.c --- gradescent.lo --- mv -f .deps/gradescent.Tpo .deps/gradescent.Plo --- modelutil.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT modelutil.lo -MD -MP -MF .deps/modelutil.Tpo -c -o modelutil.lo modelutil.c --- randvar.lo --- mv -f .deps/randvar.Tpo .deps/randvar.Plo --- cluster.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT cluster.lo -MD -MP -MF .deps/cluster.Tpo -c -o cluster.lo cluster.c --- kbest.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT kbest.lo -MD -MP -MF .deps/kbest.Tpo -c kbest.c -fPIC -DPIC -o .libs/kbest.o --- psequence.lo --- mv -f .deps/psequence.Tpo .deps/psequence.Plo --- root_finder.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT root_finder.lo -MD -MP -MF .deps/root_finder.Tpo -c -o root_finder.lo root_finder.c --- discrime.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT discrime.lo -MD -MP -MF .deps/discrime.Tpo -c discrime.c -fPIC -DPIC -o .libs/discrime.o --- kbest.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT kbest.lo -MD -MP -MF .deps/kbest.Tpo -c kbest.c -o kbest.o >/dev/null 2>&1 --- cluster.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT cluster.lo -MD -MP -MF .deps/cluster.Tpo -c cluster.c -fPIC -DPIC -o .libs/cluster.o libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT cluster.lo -MD -MP -MF .deps/cluster.Tpo -c cluster.c -o cluster.o >/dev/null 2>&1 --- kbest.lo --- mv -f .deps/kbest.Tpo .deps/kbest.Plo --- smodel.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smodel.lo -MD -MP -MF .deps/smodel.Tpo -c -o smodel.lo smodel.c --- modelutil.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT modelutil.lo -MD -MP -MF .deps/modelutil.Tpo -c modelutil.c -fPIC -DPIC -o .libs/modelutil.o --- cluster.lo --- mv -f .deps/cluster.Tpo .deps/cluster.Plo --- discrime.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT discrime.lo -MD -MP -MF .deps/discrime.Tpo -c discrime.c -o discrime.o >/dev/null 2>&1 --- sfoba.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sfoba.lo -MD -MP -MF .deps/sfoba.Tpo -c -o sfoba.lo sfoba.c --- root_finder.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT root_finder.lo -MD -MP -MF .deps/root_finder.Tpo -c root_finder.c -fPIC -DPIC -o .libs/root_finder.o --- viterbi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT viterbi.lo -MD -MP -MF .deps/viterbi.Tpo -c viterbi.c -o viterbi.o >/dev/null 2>&1 --- root_finder.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT root_finder.lo -MD -MP -MF .deps/root_finder.Tpo -c root_finder.c -o root_finder.o >/dev/null 2>&1 --- smodel.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smodel.lo -MD -MP -MF .deps/smodel.Tpo -c smodel.c -fPIC -DPIC -o .libs/smodel.o --- sfoba.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sfoba.lo -MD -MP -MF .deps/sfoba.Tpo -c sfoba.c -fPIC -DPIC -o .libs/sfoba.o --- discrime.lo --- mv -f .deps/discrime.Tpo .deps/discrime.Plo --- sviterbi.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sviterbi.lo -MD -MP -MF .deps/sviterbi.Tpo -c -o sviterbi.lo sviterbi.c --- root_finder.lo --- mv -f .deps/root_finder.Tpo .deps/root_finder.Plo --- sreestimate.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sreestimate.lo -MD -MP -MF .deps/sreestimate.Tpo -c -o sreestimate.lo sreestimate.c --- sfoba.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sfoba.lo -MD -MP -MF .deps/sfoba.Tpo -c sfoba.c -o sfoba.o >/dev/null 2>&1 --- sviterbi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sviterbi.lo -MD -MP -MF .deps/sviterbi.Tpo -c sviterbi.c -fPIC -DPIC -o .libs/sviterbi.o --- sreestimate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sreestimate.lo -MD -MP -MF .deps/sreestimate.Tpo -c sreestimate.c -fPIC -DPIC -o .libs/sreestimate.o --- sfoba.lo --- mv -f .deps/sfoba.Tpo .deps/sfoba.Plo --- scluster.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT scluster.lo -MD -MP -MF .deps/scluster.Tpo -c -o scluster.lo scluster.c --- mprintf.lo --- mv -f .deps/mprintf.Tpo .deps/mprintf.Plo --- sgenerate.lo --- --- scluster.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT scluster.lo -MD -MP -MF .deps/scluster.Tpo -c scluster.c -fPIC -DPIC -o .libs/scluster.o --- sgenerate.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sgenerate.lo -MD -MP -MF .deps/sgenerate.Tpo -c -o sgenerate.lo sgenerate.c --- scluster.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT scluster.lo -MD -MP -MF .deps/scluster.Tpo -c scluster.c -o scluster.o >/dev/null 2>&1 mv -f .deps/scluster.Tpo .deps/scluster.Plo --- smixturehmm.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smixturehmm.lo -MD -MP -MF .deps/smixturehmm.Tpo -c -o smixturehmm.lo smixturehmm.c --- matrix.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.c -o matrix.o >/dev/null 2>&1 --- sgenerate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sgenerate.lo -MD -MP -MF .deps/sgenerate.Tpo -c sgenerate.c -fPIC -DPIC -o .libs/sgenerate.o --- viterbi.lo --- mv -f .deps/viterbi.Tpo .deps/viterbi.Plo --- smap_classify.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smap_classify.lo -MD -MP -MF .deps/smap_classify.Tpo -c -o smap_classify.lo smap_classify.c --- modelutil.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT modelutil.lo -MD -MP -MF .deps/modelutil.Tpo -c modelutil.c -o modelutil.o >/dev/null 2>&1 --- sviterbi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sviterbi.lo -MD -MP -MF .deps/sviterbi.Tpo -c sviterbi.c -o sviterbi.o >/dev/null 2>&1 --- sgenerate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sgenerate.lo -MD -MP -MF .deps/sgenerate.Tpo -c sgenerate.c -o sgenerate.o >/dev/null 2>&1 --- smixturehmm.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smixturehmm.lo -MD -MP -MF .deps/smixturehmm.Tpo -c smixturehmm.c -fPIC -DPIC -o .libs/smixturehmm.o libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smixturehmm.lo -MD -MP -MF .deps/smixturehmm.Tpo -c smixturehmm.c -o smixturehmm.o >/dev/null 2>&1 mv -f .deps/smixturehmm.Tpo .deps/smixturehmm.Plo --- sdmodel.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdmodel.lo -MD -MP -MF .deps/sdmodel.Tpo -c -o sdmodel.lo sdmodel.c --- sgenerate.lo --- mv -f .deps/sgenerate.Tpo .deps/sgenerate.Plo --- sdfoba.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdfoba.lo -MD -MP -MF .deps/sdfoba.Tpo -c -o sdfoba.lo sdfoba.c --- smap_classify.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smap_classify.lo -MD -MP -MF .deps/smap_classify.Tpo -c smap_classify.c -fPIC -DPIC -o .libs/smap_classify.o libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smap_classify.lo -MD -MP -MF .deps/smap_classify.Tpo -c smap_classify.c -o smap_classify.o >/dev/null 2>&1 mv -f .deps/smap_classify.Tpo .deps/smap_classify.Plo --- sdviterbi.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdviterbi.lo -MD -MP -MF .deps/sdviterbi.Tpo -c -o sdviterbi.lo sdviterbi.c --- sdfoba.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdfoba.lo -MD -MP -MF .deps/sdfoba.Tpo -c sdfoba.c -fPIC -DPIC -o .libs/sdfoba.o --- sdmodel.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdmodel.lo -MD -MP -MF .deps/sdmodel.Tpo -c sdmodel.c -fPIC -DPIC -o .libs/sdmodel.o --- sdviterbi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdviterbi.lo -MD -MP -MF .deps/sdviterbi.Tpo -c sdviterbi.c -fPIC -DPIC -o .libs/sdviterbi.o --- sequence.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sequence.lo -MD -MP -MF .deps/sequence.Tpo -c sequence.c -o sequence.o >/dev/null 2>&1 --- sviterbi.lo --- mv -f .deps/sviterbi.Tpo .deps/sviterbi.Plo --- pmodel.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pmodel.lo -MD -MP -MF .deps/pmodel.Tpo -c -o pmodel.lo pmodel.c --- matrix.lo --- mv -f .deps/matrix.Tpo .deps/matrix.Plo --- pviterbi.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pviterbi.lo -MD -MP -MF .deps/pviterbi.Tpo -c -o pviterbi.lo pviterbi.c --- modelutil.lo --- mv -f .deps/modelutil.Tpo .deps/modelutil.Plo --- pviterbi_propagate.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pviterbi_propagate.lo -MD -MP -MF .deps/pviterbi_propagate.Tpo -c -o pviterbi_propagate.lo pviterbi_propagate.c --- pmodel.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pmodel.lo -MD -MP -MF .deps/pmodel.Tpo -c pmodel.c -fPIC -DPIC -o .libs/pmodel.o --- pviterbi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pviterbi.lo -MD -MP -MF .deps/pviterbi.Tpo -c pviterbi.c -fPIC -DPIC -o .libs/pviterbi.o --- pviterbi_propagate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pviterbi_propagate.lo -MD -MP -MF .deps/pviterbi_propagate.Tpo -c pviterbi_propagate.c -fPIC -DPIC -o .libs/pviterbi_propagate.o --- foba.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT foba.lo -MD -MP -MF .deps/foba.Tpo -c foba.c -o foba.o >/dev/null 2>&1 --- reestimate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT reestimate.lo -MD -MP -MF .deps/reestimate.Tpo -c reestimate.c -o reestimate.o >/dev/null 2>&1 --- sdfoba.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdfoba.lo -MD -MP -MF .deps/sdfoba.Tpo -c sdfoba.c -o sdfoba.o >/dev/null 2>&1 --- pmodel.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pmodel.lo -MD -MP -MF .deps/pmodel.Tpo -c pmodel.c -o pmodel.o >/dev/null 2>&1 --- xmlreader.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT xmlreader.lo -MD -MP -MF .deps/xmlreader.Tpo -c xmlreader.c -o xmlreader.o >/dev/null 2>&1 --- sdfoba.lo --- mv -f .deps/sdfoba.Tpo .deps/sdfoba.Plo --- fbgibbs.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT fbgibbs.lo -MD -MP -MF .deps/fbgibbs.Tpo -c -o fbgibbs.lo fbgibbs.c --- xmlreader.lo --- mv -f .deps/xmlreader.Tpo .deps/xmlreader.Plo --- cfbgibbs.lo --- /bin/sh ../libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT cfbgibbs.lo -MD -MP -MF .deps/cfbgibbs.Tpo -c -o cfbgibbs.lo cfbgibbs.c --- sdviterbi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdviterbi.lo -MD -MP -MF .deps/sdviterbi.Tpo -c sdviterbi.c -o sdviterbi.o >/dev/null 2>&1 --- fbgibbs.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT fbgibbs.lo -MD -MP -MF .deps/fbgibbs.Tpo -c fbgibbs.c -fPIC -DPIC -o .libs/fbgibbs.o --- smodel.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smodel.lo -MD -MP -MF .deps/smodel.Tpo -c smodel.c -o smodel.o >/dev/null 2>&1 --- cfbgibbs.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT cfbgibbs.lo -MD -MP -MF .deps/cfbgibbs.Tpo -c cfbgibbs.c -fPIC -DPIC -o .libs/cfbgibbs.o --- fbgibbs.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT fbgibbs.lo -MD -MP -MF .deps/fbgibbs.Tpo -c fbgibbs.c -o fbgibbs.o >/dev/null 2>&1 --- pmodel.lo --- mv -f .deps/pmodel.Tpo .deps/pmodel.Plo --- cfbgibbs.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT cfbgibbs.lo -MD -MP -MF .deps/cfbgibbs.Tpo -c cfbgibbs.c -o cfbgibbs.o >/dev/null 2>&1 --- fbgibbs.lo --- mv -f .deps/fbgibbs.Tpo .deps/fbgibbs.Plo --- cfbgibbs.lo --- mv -f .deps/cfbgibbs.Tpo .deps/cfbgibbs.Plo --- sequence.lo --- mv -f .deps/sequence.Tpo .deps/sequence.Plo --- sreestimate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sreestimate.lo -MD -MP -MF .deps/sreestimate.Tpo -c sreestimate.c -o sreestimate.o >/dev/null 2>&1 --- sdmodel.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sdmodel.lo -MD -MP -MF .deps/sdmodel.Tpo -c sdmodel.c -o sdmodel.o >/dev/null 2>&1 --- pviterbi_propagate.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pviterbi_propagate.lo -MD -MP -MF .deps/pviterbi_propagate.Tpo -c pviterbi_propagate.c -o pviterbi_propagate.o >/dev/null 2>&1 --- pviterbi.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT pviterbi.lo -MD -MP -MF .deps/pviterbi.Tpo -c pviterbi.c -o pviterbi.o >/dev/null 2>&1 --- foba.lo --- mv -f .deps/foba.Tpo .deps/foba.Plo --- reestimate.lo --- mv -f .deps/reestimate.Tpo .deps/reestimate.Plo --- sdviterbi.lo --- mv -f .deps/sdviterbi.Tpo .deps/sdviterbi.Plo --- model.lo --- libtool: compile: cc -DHAVE_CONFIG_H -I. -I.. -I.. -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT model.lo -MD -MP -MF .deps/model.Tpo -c model.c -o model.o >/dev/null 2>&1 --- pviterbi_propagate.lo --- mv -f .deps/pviterbi_propagate.Tpo .deps/pviterbi_propagate.Plo --- sdmodel.lo --- mv -f .deps/sdmodel.Tpo .deps/sdmodel.Plo --- sreestimate.lo --- mv -f .deps/sreestimate.Tpo .deps/sreestimate.Plo --- smodel.lo --- mv -f .deps/smodel.Tpo .deps/smodel.Plo --- pviterbi.lo --- mv -f .deps/pviterbi.Tpo .deps/pviterbi.Plo --- model.lo --- mv -f .deps/model.Tpo .deps/model.Plo --- libghmm.la --- /bin/sh ../libtool --tag=CC --mode=link cc -DDTD_LOC=\"/usr/local/share/ghmm/ghmm.dtd.1.0\" -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -version-info 1:0:0 -o libghmm.la -rpath /usr/local/lib rng.lo randvar.lo matrixop.lo gauss_tail.lo mes.lo ghmm_internals.lo mprintf.lo vector.lo matrix.lo scanner.lo linkedlist.lo sequence.lo psequence.lo xmlreader.lo xmlwriter.lo model.lo foba.lo viterbi.lo reestimate.lo gradescent.lo kbest.lo discrime.lo modelutil.lo cluster.lo root_finder.lo smodel.lo sfoba.lo sviterbi.lo sreestimate.lo scluster.lo sgenerate.lo smixturehmm.lo smap_classify.lo sdmodel.lo sdfoba.lo sdviterbi.lo pmodel.lo pviterbi.lo pviterbi_propagate.lo fbgibbs.lo cfbgibbs.lo -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 libtool: link: cc -shared -fPIC -DPIC .libs/rng.o .libs/randvar.o .libs/matrixop.o .libs/gauss_tail.o .libs/mes.o .libs/ghmm_internals.o .libs/mprintf.o .libs/vector.o .libs/matrix.o .libs/scanner.o .libs/linkedlist.o .libs/sequence.o .libs/psequence.o .libs/xmlreader.o .libs/xmlwriter.o .libs/model.o .libs/foba.o .libs/viterbi.o .libs/reestimate.o .libs/gradescent.o .libs/kbest.o .libs/discrime.o .libs/modelutil.o .libs/cluster.o .libs/root_finder.o .libs/smodel.o .libs/sfoba.o .libs/sviterbi.o .libs/sreestimate.o .libs/scluster.o .libs/sgenerate.o .libs/smixturehmm.o .libs/smap_classify.o .libs/sdmodel.o .libs/sdfoba.o .libs/sdviterbi.o .libs/pmodel.o .libs/pviterbi.o .libs/pviterbi_propagate.o .libs/fbgibbs.o .libs/cfbgibbs.o -lm -lpthread -L/usr/local/lib -lxml2 -O2 -Wl,-soname -Wl,libghmm.so.1 -o .libs/libghmm.so.1.0.0 libtool: link: (cd ".libs" && rm -f "libghmm.so.1" && ln -s "libghmm.so.1.0.0" "libghmm.so.1") libtool: link: (cd ".libs" && rm -f "libghmm.so" && ln -s "libghmm.so.1.0.0" "libghmm.so") libtool: link: ar cr .libs/libghmm.a rng.o randvar.o matrixop.o gauss_tail.o mes.o ghmm_internals.o mprintf.o vector.o matrix.o scanner.o linkedlist.o sequence.o psequence.o xmlreader.o xmlwriter.o model.o foba.o viterbi.o reestimate.o gradescent.o kbest.o discrime.o modelutil.o cluster.o root_finder.o smodel.o sfoba.o sviterbi.o sreestimate.o scluster.o sgenerate.o smixturehmm.o smap_classify.o sdmodel.o sdfoba.o sdviterbi.o pmodel.o pviterbi.o pviterbi_propagate.o fbgibbs.o cfbgibbs.o libtool: link: ranlib .libs/libghmm.a libtool: link: ( cd ".libs" && rm -f "libghmm.la" && ln -s "../libghmm.la" "libghmm.la" ) Making all in tools --- all --- /usr/bin/make all-recursive --- all-recursive --- Making all in . --- probdist.o --- --- cluster.o --- --- scluster.o --- --- smix_hmm.o --- --- probdist.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT probdist.o -MD -MP -MF .deps/probdist.Tpo -c -o probdist.o probdist.c --- smix_hmm.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT smix_hmm.o -MD -MP -MF .deps/smix_hmm.Tpo -c -o smix_hmm.o smix_hmm.c --- scluster.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT scluster.o -MD -MP -MF .deps/scluster.Tpo -c -o scluster.o scluster.c --- cluster.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT cluster.o -MD -MP -MF .deps/cluster.Tpo -c -o cluster.o cluster.c --- probdist.o --- mv -f .deps/probdist.Tpo .deps/probdist.Po --- scluster.o --- mv -f .deps/scluster.Tpo .deps/scluster.Po --- probdist --- --- scluster --- --- probdist --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o probdist probdist.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- scluster --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o scluster scluster.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- cluster.o --- mv -f .deps/cluster.Tpo .deps/cluster.Po --- cluster --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o cluster cluster.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- smix_hmm.o --- mv -f .deps/smix_hmm.Tpo .deps/smix_hmm.Po --- smix_hmm --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o smix_hmm smix_hmm.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- probdist --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o probdist probdist.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- scluster --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o scluster scluster.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- cluster --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o cluster cluster.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- smix_hmm --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o smix_hmm smix_hmm.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 Making all in tests --- all-recursive --- Making all in data --- all-recursive --- Making all in . --- randvar_test.o --- --- root_finder_test.o --- --- coin_toss_test.o --- --- two_states_three_symbols.o --- --- libxml-test.o --- --- chmm.o --- --- chmm_test.o --- --- shmm_viterbi_test.o --- --- test_gsl_ran_gaussian_tail.o --- --- sequences_test.o --- --- sequences_old_format.o --- --- label_higher_order_test.o --- --- read_fa.o --- --- test_gsl_ran_gaussian_tail.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT test_gsl_ran_gaussian_tail.o -MD -MP -MF .deps/test_gsl_ran_gaussian_tail.Tpo -c -o test_gsl_ran_gaussian_tail.o test_gsl_ran_gaussian_tail.c mv -f .deps/test_gsl_ran_gaussian_tail.Tpo .deps/test_gsl_ran_gaussian_tail.Po --- root_finder_test.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT root_finder_test.o -MD -MP -MF .deps/root_finder_test.Tpo -c -o root_finder_test.o root_finder_test.c mv -f .deps/root_finder_test.Tpo .deps/root_finder_test.Po --- randvar_test.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT randvar_test.o -MD -MP -MF .deps/randvar_test.Tpo -c -o randvar_test.o randvar_test.c --- label_higher_order_test.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT label_higher_order_test.o -MD -MP -MF .deps/label_higher_order_test.Tpo -c -o label_higher_order_test.o label_higher_order_test.c --- coin_toss_test.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT coin_toss_test.o -MD -MP -MF .deps/coin_toss_test.Tpo -c -o coin_toss_test.o coin_toss_test.c --- two_states_three_symbols.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT two_states_three_symbols.o -MD -MP -MF .deps/two_states_three_symbols.Tpo -c -o two_states_three_symbols.o two_states_three_symbols.c --- libxml-test.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT libxml-test.o -MD -MP -MF .deps/libxml-test.Tpo -c -o libxml-test.o libxml-test.c --- chmm.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT chmm.o -MD -MP -MF .deps/chmm.Tpo -c -o chmm.o chmm.c --- chmm_test.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT chmm_test.o -MD -MP -MF .deps/chmm_test.Tpo -c -o chmm_test.o chmm_test.c --- shmm_viterbi_test.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT shmm_viterbi_test.o -MD -MP -MF .deps/shmm_viterbi_test.Tpo -c -o shmm_viterbi_test.o shmm_viterbi_test.c --- sequences_test.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sequences_test.o -MD -MP -MF .deps/sequences_test.Tpo -c -o sequences_test.o sequences_test.c --- sequences_old_format.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT sequences_old_format.o -MD -MP -MF .deps/sequences_old_format.Tpo -c -o sequences_old_format.o sequences_old_format.c --- mcmc.o --- --- test_gsl_ran_gaussian_tail --- --- mcmc.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT mcmc.o -MD -MP -MF .deps/mcmc.Tpo -c -o mcmc.o mcmc.c mcmc.c: In function 'main': mcmc.c:144:3: warning: implicit declaration of function 'init_priors' [-Wimplicit-function-declaration] init_priors(mo, &pA, &pB, &pPi); ^~~~~~~~~~~ mcmc.c:146:15: warning: implicit declaration of function 'ghmm_dmodel_cfbgibbs'; did you mean 'ghmm_dmodel_logp'? [-Wimplicit-function-declaration] int * Q = ghmm_dmodel_cfbgibbs(mo, my_output, ^~~~~~~~~~~~~~~~~~~~ ghmm_dmodel_logp mcmc.c:146:15: warning: initialization of 'int *' from 'int' makes pointer from integer without a cast [-Wint-conversion] mcmc.c:148:108: warning: passing argument 4 of 'ghmm_dmodel_viterbi_logp' makes pointer from integer without a cast [-Wint-conversion] printf("viterbi prob mcmc%f \n", ghmm_dmodel_viterbi_logp(mo, my_output->seq[0], my_output->seq_len[0], Q[0])); ~^~~ In file included from mcmc.c:13: ../ghmm/viterbi.h:75:76: note: expected 'int *' but argument is of type 'int' double ghmm_dmodel_viterbi_logp (ghmm_dmodel * mo, int *o, int len, int *state_seq); ~~~~~^~~~~~~~~ mv -f .deps/mcmc.Tpo .deps/mcmc.Po --- libxml-test.o --- mv -f .deps/libxml-test.Tpo .deps/libxml-test.Po --- two_states_three_symbols.o --- mv -f .deps/two_states_three_symbols.Tpo .deps/two_states_three_symbols.Po --- coin_toss_test.o --- mv -f .deps/coin_toss_test.Tpo .deps/coin_toss_test.Po --- read_fa.o --- cc -DHAVE_CONFIG_H -I. -I.. -I.. -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -MT read_fa.o -MD -MP -MF .deps/read_fa.Tpo -c -o read_fa.o read_fa.c --- root_finder_test --- --- mcmc --- --- libxml-test --- --- two_states_three_symbols --- --- test_gsl_ran_gaussian_tail --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o test_gsl_ran_gaussian_tail test_gsl_ran_gaussian_tail.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- root_finder_test --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o root_finder_test root_finder_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- mcmc --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o mcmc mcmc.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- libxml-test --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o libxml-test libxml-test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- two_states_three_symbols --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o two_states_three_symbols two_states_three_symbols.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- sequences_old_format.o --- mv -f .deps/sequences_old_format.Tpo .deps/sequences_old_format.Po --- coin_toss_test --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o coin_toss_test coin_toss_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- sequences_test.o --- mv -f .deps/sequences_test.Tpo .deps/sequences_test.Po --- chmm_test.o --- mv -f .deps/chmm_test.Tpo .deps/chmm_test.Po --- sequences_old_format --- --- sequences_test --- --- sequences_old_format --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o sequences_old_format sequences_old_format.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- sequences_test --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o sequences_test sequences_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- shmm_viterbi_test.o --- mv -f .deps/shmm_viterbi_test.Tpo .deps/shmm_viterbi_test.Po --- chmm_test --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o chmm_test chmm_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- label_higher_order_test.o --- mv -f .deps/label_higher_order_test.Tpo .deps/label_higher_order_test.Po --- shmm_viterbi_test --- --- coin_toss_test --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o coin_toss_test coin_toss_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- mcmc --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o mcmc mcmc.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- two_states_three_symbols --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o two_states_three_symbols two_states_three_symbols.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- root_finder_test --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o root_finder_test root_finder_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- test_gsl_ran_gaussian_tail --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o test_gsl_ran_gaussian_tail test_gsl_ran_gaussian_tail.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- shmm_viterbi_test --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o shmm_viterbi_test shmm_viterbi_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- randvar_test.o --- mv -f .deps/randvar_test.Tpo .deps/randvar_test.Po --- label_higher_order_test --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o label_higher_order_test label_higher_order_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- libxml-test --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o libxml-test libxml-test.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- randvar_test --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o randvar_test randvar_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- read_fa.o --- mv -f .deps/read_fa.Tpo .deps/read_fa.Po --- read_fa --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o read_fa read_fa.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 --- chmm_test --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o chmm_test chmm_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- shmm_viterbi_test --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o shmm_viterbi_test shmm_viterbi_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- sequences_test --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o sequences_test sequences_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- sequences_old_format --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o sequences_old_format sequences_old_format.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- label_higher_order_test --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o label_higher_order_test label_higher_order_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- randvar_test --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o randvar_test randvar_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- read_fa --- libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o read_fa read_fa.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 --- chmm.o --- mv -f .deps/chmm.Tpo .deps/chmm.Po --- chmm --- /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o chmm chmm.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -L/usr/local/lib -lxml2 libtool: link: cc -pipe -O2 -fno-strict-aliasing -I/usr/local/include/libxml2 -o chmm chmm.o ../ghmm/.libs/libghmm.a -lm -lpthread -L/usr/local/lib -lxml2 SUCCEEDED 00:00:06 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for ghmm-0.9.r3_2 ===> Generating temporary packing list if test -z 'strip'; then /usr/bin/make INSTALL_PROGRAM="/bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s" install_sh_PROGRAM="/bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s" INSTALL_STRIP_FLAG=-s install; else /usr/bin/make INSTALL_PROGRAM="/bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s" install_sh_PROGRAM="/bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s" INSTALL_STRIP_FLAG=-s "INSTALL_PROGRAM_ENV=STRIPPROG='strip'" install; fi Making install in ghmm Making install in . /bin/mkdir -p '/construction/science/ghmm/stage/usr/local/lib' /bin/sh ../libtool --mode=install /usr/bin/install -c -s libghmm.la '/construction/science/ghmm/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libghmm.so.1.0.0 /construction/science/ghmm/stage/usr/local/lib/libghmm.so.1.0.0 libtool: install: strip --strip-unneeded /construction/science/ghmm/stage/usr/local/lib/libghmm.so.1.0.0 libtool: install: (cd /construction/science/ghmm/stage/usr/local/lib && { ln -s -f libghmm.so.1.0.0 libghmm.so.1 || { rm -f libghmm.so.1 && ln -s libghmm.so.1.0.0 libghmm.so.1; }; }) libtool: install: (cd /construction/science/ghmm/stage/usr/local/lib && { ln -s -f libghmm.so.1.0.0 libghmm.so || { rm -f libghmm.so && ln -s libghmm.so.1.0.0 libghmm.so; }; }) libtool: install: /usr/bin/install -c .libs/libghmm.lai /construction/science/ghmm/stage/usr/local/lib/libghmm.la libtool: install: /usr/bin/install -c .libs/libghmm.a /construction/science/ghmm/stage/usr/local/lib/libghmm.a libtool: install: strip --strip-debug /construction/science/ghmm/stage/usr/local/lib/libghmm.a libtool: install: chmod 644 /construction/science/ghmm/stage/usr/local/lib/libghmm.a libtool: install: ranlib /construction/science/ghmm/stage/usr/local/lib/libghmm.a libtool: warning: remember to run 'libtool --finish /usr/local/lib' /bin/mkdir -p '/construction/science/ghmm/stage/usr/local/include/ghmm' install -m 0644 ghmm.h ghmmconfig.h sequence.h psequence.h xmlreader.h xmlwriter.h model.h foba.h viterbi.h gradescent.h kbest.h discrime.h cluster.h scluster.h reestimate.h sfoba.h sviterbi.h smodel.h sdmodel.h sdfoba.h sreestimate.h sgenerate.h smixturehmm.h smap_classify.h pmodel.h pviterbi.h pviterbi_propagate.h rng.h scanner.h obsolete.h unsupported.h fbgibbs.h cfbgibbs.h '/construction/science/ghmm/stage/usr/local/include/ghmm' Making install in tools /usr/bin/make install-recursive Making install in . /bin/mkdir -p '/construction/science/ghmm/stage/usr/local/bin' STRIPPROG='strip' /bin/sh ../libtool --mode=install /bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s probdist cluster scluster smix_hmm '/construction/science/ghmm/stage/usr/local/bin' libtool: install: /bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s probdist /construction/science/ghmm/stage/usr/local/bin/probdist libtool: install: /bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s cluster /construction/science/ghmm/stage/usr/local/bin/cluster libtool: install: /bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s scluster /construction/science/ghmm/stage/usr/local/bin/scluster libtool: install: /bin/sh /construction/science/ghmm/ghmm-0.9-rc3/install-sh -c -s smix_hmm /construction/science/ghmm/stage/usr/local/bin/smix_hmm /bin/mkdir -p '/construction/science/ghmm/stage/usr/local/bin' install -m 555 ghmm-config '/construction/science/ghmm/stage/usr/local/bin' Making install in tests Making install in data Making install in . /bin/mkdir -p '/construction/science/ghmm/stage/usr/local/share/ghmm' install -m 0644 doc/ghmm.dtd.1.0 '/construction/science/ghmm/stage/usr/local/share/ghmm' ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:02 ------------------------------------------------------------------------------- -- Phase: check-plist ------------------------------------------------------------------------------- ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for ghmm-0.9.r3_2 file sizes/checksums [43]: 0% file sizes/checksums [43]: 100% Service unavailablepacking files [43]: 0% packing files [43]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:00 TOTAL TIME 00:00:29