=> Building biology/hhsuite Started : Wednesday, 24 JUL 2019 at 16:57:56 UTC Platform: 5.7-DEVELOPMENT DragonFly v5.7.0.83.g49866-DEVELOPMENT #40: Sun Jun 30 03:00:04 PDT 2019 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.6-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.6-SYNTH UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 TERM=dumb PKG_CACHEDIR=/var/cache/pkg8 PKG_DBDIR=/var/db/pkg8 PORTSDIR=/xports LANG=C HOME=/root USER=root -------------------------------------------------- -- Options -------------------------------------------------- -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl PERL_USE_UNSAFE_INC=1 PYTHON="/usr/local/bin/python3.6" XDG_DATA_HOME=/construction/biology/hhsuite XDG_CONFIG_HOME=/construction/biology/hhsuite HOME=/construction/biology/hhsuite TMPDIR="/tmp" PATH=/construction/biology/hhsuite/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/construction/biology/hhsuite XDG_CONFIG_HOME=/construction/biology/hhsuite HOME=/construction/biology/hhsuite TMPDIR="/tmp" PATH=/construction/biology/hhsuite/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc80 PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- DESTDIR=/construction/biology/hhsuite/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.6m PYTHON_LIBDIR=lib/python3.6 PYTHON_PLATFORM=dragonfly5 PYTHON_SITELIBDIR=lib/python3.6/site-packages PYTHON_SUFFIX=36 PYTHON_VER=3.6 PYTHON_VERSION=python3.6 PYTHON2="@comment " PYTHON3="" OSREL=5.6 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.28.2 PERL_VER=5.28 PERL5_MAN1=lib/perl5/site_perl/man/man1 PERL5_MAN3=lib/perl5/site_perl/man/man3 SITE_PERL=lib/perl5/site_perl SITE_ARCH=lib/perl5/site_perl/mach/5.28 PROFILE="@comment " DOCSDIR="share/doc/hhsuite" EXAMPLESDIR="share/examples/hhsuite" DATADIR="share/hhsuite" WWWDIR="www/hhsuite" ETCDIR="etc/hhsuite" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/hhsuite DOCSDIR=/usr/local/share/doc/hhsuite EXAMPLESDIR=/usr/local/share/examples/hhsuite WWWDIR=/usr/local/www/hhsuite ETCDIR=/usr/local/etc/hhsuite -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=Release-5.6 USE_PACKAGE_DEPENDS_ONLY=yes PACKAGE_BUILDING=yes BATCH=yes PKG_CREATE_VERBOSE=yes PORTSDIR=/xports DISTDIR=/distfiles WRKDIRPREFIX=/construction PORT_DBDIR=/options PACKAGES=/packages MAKE_JOBS_NUMBER_LIMIT=5 LICENSES_ACCEPTED= NONE HAVE_COMPAT_IA32_KERN= CONFIGURE_MAX_CMD_LEN=262144 _PERL5_FROM_BIN=5.28.1 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=8 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500601 OSVERSION=9999999 OSREL=5.6 _OSRELEASE=5.6-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License GPLv3 accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> hhsuite-3.2.0 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.11.1.txz Installing pkg-1.11.1... Extracting pkg-1.11.1: .......... done ===> hhsuite-3.2.0 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of hhsuite-3.2.0 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by hhsuite-3.2.0 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by hhsuite-3.2.0 for building => SHA256 Checksum OK for soedinglab-hh-suite-v3.2.0_GH0.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by hhsuite-3.2.0 for building ===> Extracting for hhsuite-3.2.0 ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by hhsuite-3.2.0 for building => SHA256 Checksum OK for soedinglab-hh-suite-v3.2.0_GH0.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for hhsuite-3.2.0 ===> Applying ports patches for hhsuite-3.2.0 ===> Applying dragonfly patches for hhsuite-3.2.0 /usr/bin/sed -i.bak -e '/find_package(MPI QUIET)/d' -e '/find_package(MPI)/d' /construction/biology/hhsuite/hh-suite-3.2.0/src/CMakeLists.txt /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/CMakeLists.txt /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/mpq/CMakeLists.txt -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> hhsuite-3.2.0 depends on package: openmpi>0 - not found ===> Installing existing package /packages/All/openmpi-1.10.7_5.txz Installing openmpi-1.10.7_5... `-- Installing gcc8-8.3.0_2... | `-- Installing binutils-2.32_1,1... | | `-- Installing gettext-runtime-0.20.1... | | `-- Installing indexinfo-0.3.1... | | `-- Extracting indexinfo-0.3.1: .... done | | `-- Extracting gettext-runtime-0.20.1: .......... done | `-- Extracting binutils-2.32_1,1: .......... done | `-- Installing gmp-6.1.2_1... | `-- Extracting gmp-6.1.2_1: .......... done | `-- Installing mpc-1.1.0_2... | | `-- Installing mpfr-4.0.2... | | `-- Extracting mpfr-4.0.2: .......... done | `-- Extracting mpc-1.1.0_2: ......... done `-- Extracting gcc8-8.3.0_2: .......... done `-- Installing hwloc-1.11.11... | `-- Installing libpciaccess-0.14... | | `-- Installing pciids-20190620... | | `-- Extracting pciids-20190620: ..... done | `-- Extracting libpciaccess-0.14: ......... done | `-- Installing libxml2-2.9.9... | `-- Extracting libxml2-2.9.9: .......... done `-- Extracting hwloc-1.11.11: .......... done `-- Installing libevent-2.1.10... | `-- Installing libressl-2.9.2... | `-- Extracting libressl-2.9.2: .......... done `-- Extracting libevent-2.1.10: .......... done `-- Installing libltdl-2.4.6... `-- Extracting libltdl-2.4.6: .......... done Extracting openmpi-1.10.7_5: .......... done Message from gcc8-8.3.0_2: To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc8 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ===> hhsuite-3.2.0 depends on package: openmpi>0 - found ===> Returning to build of hhsuite-3.2.0 ===> hhsuite-3.2.0 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-3.14.5.txz Installing cmake-3.14.5... `-- Installing curl-7.65.1_1... | `-- Installing ca_root_nss-3.45... | `-- Extracting ca_root_nss-3.45: ........ done | `-- Installing libnghttp2-1.39.1... | `-- Extracting libnghttp2-1.39.1: .......... done `-- Extracting curl-7.65.1_1: .......... done `-- Installing expat-2.2.6_1... `-- Extracting expat-2.2.6_1: .......... done `-- Installing jsoncpp-1.8.1_6... `-- Extracting jsoncpp-1.8.1_6: .......... done `-- Installing libarchive-3.3.3_1,1... | `-- Installing liblz4-1.9.1,1... | `-- Extracting liblz4-1.9.1,1: .......... done | `-- Installing lzo2-2.10_1... | `-- Extracting lzo2-2.10_1: .......... done `-- Extracting libarchive-3.3.3_1,1: .......... done `-- Installing libuv-1.30.1... `-- Extracting libuv-1.30.1: .......... done `-- Installing ncurses-6.1.20190525... `-- Extracting ncurses-6.1.20190525: .......... done `-- Installing rhash-1.3.5... `-- Extracting rhash-1.3.5: .......... done Extracting cmake-3.14.5: .......... done Message from ca_root_nss-3.45: ********************************* WARNING ********************************* FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. *********************************** NOTE ********************************** This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem *************************************************************************** ===> hhsuite-3.2.0 depends on file: /usr/local/bin/cmake - found ===> Returning to build of hhsuite-3.2.0 ===> hhsuite-3.2.0 depends on file: /usr/local/bin/python3.6 - not found ===> Installing existing package /packages/All/python36-3.6.9.txz Installing python36-3.6.9... `-- Installing libffi-3.2.1_3... `-- Extracting libffi-3.2.1_3: .......... done `-- Installing readline-8.0.0... `-- Extracting readline-8.0.0: .......... done Extracting python36-3.6.9: .......... done Message from python36-3.6.9: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py36-gdbm databases/py-gdbm@py36 py36-sqlite3 databases/py-sqlite3@py36 py36-tkinter x11-toolkits/py-tkinter@py36 =========================================================================== ===> hhsuite-3.2.0 depends on file: /usr/local/bin/python3.6 - found ===> Returning to build of hhsuite-3.2.0 ===> hhsuite-3.2.0 depends on package: perl5>=5.28.r1<5.29 - not found ===> Installing existing package /packages/All/perl5-5.28.2.txz Installing perl5-5.28.2... Extracting perl5-5.28.2: .......... done Message from perl5-5.28.2: The /usr/bin/perl symlink has been removed starting with Perl 5.20. For shebangs, you should either use: #!/usr/local/bin/perl or #!/usr/bin/env perl The first one will only work if you have a /usr/local/bin/perl, the second will work as long as perl is in PATH. ===> hhsuite-3.2.0 depends on package: perl5>=5.28.r1<5.29 - found ===> Returning to build of hhsuite-3.2.0 -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for hhsuite-3.2.0 ===> Performing out-of-source build /bin/mkdir -p /construction/biology/hhsuite/.build -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for fmemopen -- Looking for fmemopen - found -- xxd not found, using xxdi.pl instead -- SIMD: HAVE_SSE2 is set -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Found OpenMP -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: BOOST_PYTHON_SUFFIX CMAKE_CXX_FLAGS_DEBUG CMAKE_C_FLAGS_DEBUG CMAKE_MODULE_LINKER_FLAGS CMAKE_SHARED_LINKER_FLAGS MPI MPI_C MPI_CXX Python_ADDITIONAL_VERSIONS THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /construction/biology/hhsuite/.build -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for hhsuite-3.2.0 /usr/local/bin/cmake -S/construction/biology/hhsuite/hh-suite-3.2.0 -B/construction/biology/hhsuite/.build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/local/bin/cmake -E cmake_progress_start /construction/biology/hhsuite/.build/CMakeFiles /construction/biology/hhsuite/.build/CMakeFiles/progress.marks /usr/bin/make -f CMakeFiles/Makefile2 all --- lib/ffindex/src/CMakeFiles/ffindex.dir/all --- --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- --- data/CMakeFiles/generated.dir/all --- --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- /usr/bin/make -f lib/ffindex/src/mpq/CMakeFiles/mpq.dir/build.make lib/ffindex/src/mpq/CMakeFiles/mpq.dir/depend --- data/CMakeFiles/generated.dir/all --- /usr/bin/make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/depend --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- /usr/bin/make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/depend --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- /usr/bin/make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex.dir/all --- --- lib/ffindex/src/CMakeFiles/ffindex.dir/depend --- --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/depend --- --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/depend --- --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/depend --- --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/DependInfo.cmake --- lib/ffindex/src/CMakeFiles/ffindex.dir/all --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex.dir/DependInfo.cmake --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhviterbialgorithm_and_ss.dir/DependInfo.cmake --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/mpq /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src/mpq /construction/biology/hhsuite/.build/lib/ffindex/src/mpq/CMakeFiles/mpq.dir/DependInfo.cmake --- lib/ffindex/src/CMakeFiles/ffindex.dir/all --- Scanning dependencies of target ffindex --- data/CMakeFiles/generated.dir/all --- --- data/CMakeFiles/generated.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/data /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/data /construction/biology/hhsuite/.build/data/CMakeFiles/generated.dir/DependInfo.cmake --- lib/ffindex/src/CMakeFiles/ffindex.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex.dir/build.make lib/ffindex/src/CMakeFiles/ffindex.dir/build --- lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o --- --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- Scanning dependencies of target mpq --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- Scanning dependencies of target hhviterbialgorithm_with_celloff --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- Scanning dependencies of target hhviterbialgorithm_and_ss --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- /usr/bin/make -f lib/ffindex/src/mpq/CMakeFiles/mpq.dir/build.make lib/ffindex/src/mpq/CMakeFiles/mpq.dir/build --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- /usr/bin/make -f src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/build --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- /usr/bin/make -f src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_and_ss.dir/build --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/mpq.c.o --- --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o --- --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o --- --- lib/ffindex/src/CMakeFiles/ffindex.dir/all --- [ 1%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffindex.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex.dir/ffindex.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex.c --- data/CMakeFiles/generated.dir/all --- Scanning dependencies of target generated /usr/bin/make -f data/CMakeFiles/generated.dir/build.make data/CMakeFiles/generated.dir/build --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- [ 2%] Building C object lib/ffindex/src/mpq/CMakeFiles/mpq.dir/mpq.c.o --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- [ 3%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- [ 4%] Building CXX object src/CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- cd /construction/biology/hhsuite/.build/lib/ffindex/src/mpq && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -I/usr/local/mpi/openmpi/include -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/mpq.dir/mpq.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/mpq/mpq.c --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DVITERBI_CELLOFF=1 -o CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhviterbialgorithm.cpp --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DVITERBI_SS_SCORE=1 -o CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhviterbialgorithm.cpp --- data/CMakeFiles/generated.dir/all --- --- generated/context_data.crf.h --- [ 4%] Generating ../generated/context_data.crf.h cd /construction/biology/hhsuite/hh-suite-3.2.0/data && mkdir -p /construction/biology/hhsuite/.build/generated cd /construction/biology/hhsuite/hh-suite-3.2.0/data && /construction/biology/hhsuite/hh-suite-3.2.0/cmake/xxdi.pl context_data.crf > /construction/biology/hhsuite/.build/generated/context_data.crf.h --- lib/ffindex/src/mpq/CMakeFiles/mpq.dir/all --- --- lib/ffindex/src/mpq/libmpq.a --- [ 5%] Linking C static library libmpq.a cd /construction/biology/hhsuite/.build/lib/ffindex/src/mpq && /usr/local/bin/cmake -P CMakeFiles/mpq.dir/cmake_clean_target.cmake cd /construction/biology/hhsuite/.build/lib/ffindex/src/mpq && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mpq.dir/link.txt --verbose=1 /usr/bin/ar qc libmpq.a CMakeFiles/mpq.dir/mpq.c.o /usr/bin/ranlib libmpq.a [ 5%] Built target mpq --- src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/all --- /usr/bin/make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/depend --- src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/DependInfo.cmake Scanning dependencies of target hhviterbialgorithm_with_celloff_and_ss /usr/bin/make -f src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build.make src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/build --- src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o --- [ 5%] Building CXX object src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DVITERBI_CELLOFF=1 -DVITERBI_SS_SCORE=1 -o CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhviterbialgorithm.cpp --- lib/ffindex/src/CMakeFiles/ffindex.dir/all --- --- lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o --- [ 5%] Building C object lib/ffindex/src/CMakeFiles/ffindex.dir/ffutil.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex.dir/ffutil.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffutil.c --- lib/ffindex/src/libffindex.a --- [ 6%] Linking C static library libffindex.a cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -P CMakeFiles/ffindex.dir/cmake_clean_target.cmake cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex.dir/link.txt --verbose=1 /usr/bin/ar qc libffindex.a CMakeFiles/ffindex.dir/ffindex.c.o CMakeFiles/ffindex.dir/ffutil.c.o /usr/bin/ranlib libffindex.a [ 6%] Built target ffindex --- src/CMakeFiles/A3M_COMPRESS.dir/all --- /usr/bin/make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/depend --- src/CMakeFiles/A3M_COMPRESS.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/A3M_COMPRESS.dir/DependInfo.cmake Scanning dependencies of target A3M_COMPRESS /usr/bin/make -f src/CMakeFiles/A3M_COMPRESS.dir/build.make src/CMakeFiles/A3M_COMPRESS.dir/build --- src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o --- [ 6%] Building CXX object src/CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/a3m_compress.cpp --- src/libA3M_COMPRESS.a --- [ 7%] Linking CXX static library libA3M_COMPRESS.a cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -P CMakeFiles/A3M_COMPRESS.dir/cmake_clean_target.cmake cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/A3M_COMPRESS.dir/link.txt --verbose=1 /usr/bin/ar qc libA3M_COMPRESS.a CMakeFiles/A3M_COMPRESS.dir/a3m_compress.cpp.o /usr/bin/ranlib libA3M_COMPRESS.a [ 7%] Built target A3M_COMPRESS --- src/CMakeFiles/a3m_database_reduce.dir/all --- /usr/bin/make -f src/CMakeFiles/a3m_database_reduce.dir/build.make src/CMakeFiles/a3m_database_reduce.dir/depend --- src/CMakeFiles/a3m_database_reduce.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/a3m_database_reduce.dir/DependInfo.cmake Scanning dependencies of target a3m_database_reduce /usr/bin/make -f src/CMakeFiles/a3m_database_reduce.dir/build.make src/CMakeFiles/a3m_database_reduce.dir/build --- src/CMakeFiles/a3m_database_reduce.dir/a3m_database_reduce.cpp.o --- [ 8%] Building CXX object src/CMakeFiles/a3m_database_reduce.dir/a3m_database_reduce.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/a3m_database_reduce.dir/a3m_database_reduce.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/a3m_database_reduce.cpp --- src/CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/all --- --- src/libhhviterbialgorithm_with_celloff_and_ss.a --- [ 9%] Linking CXX static library libhhviterbialgorithm_with_celloff_and_ss.a cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/cmake_clean_target.cmake cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff_and_ss.a CMakeFiles/hhviterbialgorithm_with_celloff_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff_and_ss.a [ 9%] Built target hhviterbialgorithm_with_celloff_and_ss --- src/CMakeFiles/a3m_database_filter.dir/all --- /usr/bin/make -f src/CMakeFiles/a3m_database_filter.dir/build.make src/CMakeFiles/a3m_database_filter.dir/depend --- src/CMakeFiles/a3m_database_filter.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/a3m_database_filter.dir/DependInfo.cmake Scanning dependencies of target a3m_database_filter /usr/bin/make -f src/CMakeFiles/a3m_database_filter.dir/build.make src/CMakeFiles/a3m_database_filter.dir/build --- src/CMakeFiles/a3m_database_filter.dir/a3m_database_filter.cpp.o --- [ 10%] Building CXX object src/CMakeFiles/a3m_database_filter.dir/a3m_database_filter.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/a3m_database_filter.dir/a3m_database_filter.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/a3m_database_filter.cpp --- src/CMakeFiles/hhviterbialgorithm_and_ss.dir/all --- --- src/libhhviterbialgorithm_and_ss.a --- [ 10%] Linking CXX static library libhhviterbialgorithm_and_ss.a cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -P CMakeFiles/hhviterbialgorithm_and_ss.dir/cmake_clean_target.cmake cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_and_ss.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_and_ss.a CMakeFiles/hhviterbialgorithm_and_ss.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_and_ss.a [ 10%] Built target hhviterbialgorithm_and_ss --- src/cs/CMakeFiles/CS_OBJECTS.dir/all --- /usr/bin/make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/depend --- src/cs/CMakeFiles/CS_OBJECTS.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src/cs /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src/cs /construction/biology/hhsuite/.build/src/cs/CMakeFiles/CS_OBJECTS.dir/DependInfo.cmake Scanning dependencies of target CS_OBJECTS /usr/bin/make -f src/cs/CMakeFiles/CS_OBJECTS.dir/build.make src/cs/CMakeFiles/CS_OBJECTS.dir/build --- src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o --- [ 11%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/aa.cc.o cd /construction/biology/hhsuite/.build/src/cs && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/CS_OBJECTS.dir/aa.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/aa.cc --- src/CMakeFiles/a3m_database_reduce.dir/all --- --- src/a3m_database_reduce --- [ 12%] Linking CXX executable a3m_database_reduce cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_reduce.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/a3m_database_reduce.dir/a3m_database_reduce.cpp.o -o a3m_database_reduce ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a [ 13%] Built target a3m_database_reduce --- lib/ffindex/src/CMakeFiles/ffindex_build.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_build.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_build.dir/DependInfo.cmake Scanning dependencies of target ffindex_build /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_build.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_build.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o --- [ 14%] Building C object lib/ffindex/src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex_build.dir/ffindex_build.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_build.c --- lib/ffindex/src/ffindex_build --- [ 15%] Linking C executable ffindex_build cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_build.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_build.dir/ffindex_build.c.o -o ffindex_build libffindex.a [ 15%] Built target ffindex_build --- lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/depend --- src/CMakeFiles/a3m_database_filter.dir/all --- --- src/a3m_database_filter --- --- lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/all --- --- lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/DependInfo.cmake Scanning dependencies of target ffindex_reduce --- src/CMakeFiles/a3m_database_filter.dir/all --- [ 16%] Linking CXX executable a3m_database_filter --- lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/build --- src/CMakeFiles/a3m_database_filter.dir/all --- cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script 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-I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_reduce.c --- src/CMakeFiles/a3m_database_filter.dir/all --- [ 16%] Built target a3m_database_filter --- lib/ffindex/src/CMakeFiles/ffindex_get.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_get.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_get.dir/DependInfo.cmake Scanning dependencies of target ffindex_get /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_get.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_get.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o --- [ 17%] Building C object lib/ffindex/src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex_get.dir/ffindex_get.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_get.c --- lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/all --- --- lib/ffindex/src/ffindex_reduce --- [ 18%] Linking C executable ffindex_reduce cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_reduce.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_reduce.dir/ffindex_reduce.c.o -o ffindex_reduce libffindex.a --- lib/ffindex/src/CMakeFiles/ffindex_get.dir/all --- --- lib/ffindex/src/ffindex_get --- [ 19%] Linking C executable ffindex_get cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_get.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_get.dir/ffindex_get.c.o -o ffindex_get libffindex.a --- lib/ffindex/src/CMakeFiles/ffindex_reduce.dir/all --- [ 20%] Built target ffindex_reduce --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/DependInfo.cmake Scanning dependencies of target ffindex_from_fasta /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o --- --- lib/ffindex/src/CMakeFiles/ffindex_get.dir/all --- [ 20%] Built target ffindex_get --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_apply.dir/DependInfo.cmake --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/all --- [ 21%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_from_fasta.c --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/all --- Scanning dependencies of target ffindex_apply /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o --- [ 22%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -UHAVE_MPI -o CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_apply_mpi.c --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta.dir/all --- --- lib/ffindex/src/ffindex_from_fasta --- [ 23%] Linking C executable ffindex_from_fasta cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o -o ffindex_from_fasta libffindex.a [ 23%] Built target ffindex_from_fasta --- lib/ffindex/src/CMakeFiles/ffindex_modify.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_modify.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_modify.dir/DependInfo.cmake Scanning dependencies of target ffindex_modify /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_modify.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o --- [ 24%] Building C object lib/ffindex/src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_modify.c --- lib/ffindex/src/ffindex_modify --- --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/all --- --- lib/ffindex/src/ffindex_apply --- --- lib/ffindex/src/CMakeFiles/ffindex_modify.dir/all --- [ 25%] Linking C executable ffindex_modify --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/all --- [ 25%] Linking C executable ffindex_apply --- lib/ffindex/src/CMakeFiles/ffindex_modify.dir/all --- cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_modify.dir/link.txt --verbose=1 --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/all --- cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply.dir/link.txt --verbose=1 --- lib/ffindex/src/CMakeFiles/ffindex_modify.dir/all --- /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o -o ffindex_modify libffindex.a --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/all --- /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_apply.dir/ffindex_apply_mpi.c.o -o ffindex_apply libffindex.a --- lib/ffindex/src/CMakeFiles/ffindex_modify.dir/all --- [ 26%] Built target ffindex_modify --- src/cs/CMakeFiles/CS_OBJECTS.dir/all --- --- src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o --- [ 26%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/as.cc.o cd /construction/biology/hhsuite/.build/src/cs && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/CS_OBJECTS.dir/as.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/as.cc --- lib/ffindex/src/CMakeFiles/ffindex_apply.dir/all --- [ 27%] Built target ffindex_apply --- lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/DependInfo.cmake Scanning dependencies of target ffindex_apply_mpi /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/ffindex_apply_mpi.c.o --- [ 28%] Building C object lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/ffindex_apply_mpi.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -I/usr/local/mpi/openmpi/include -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DHAVE_MPI=1 -I/usr/local/mpi/openmpi/include -o CMakeFiles/ffindex_apply_mpi.dir/ffindex_apply_mpi.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_apply_mpi.c --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/DependInfo.cmake Scanning dependencies of target ffindex_from_fasta_with_split /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o --- [ 29%] Building C object lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_from_fasta_with_split.c --- lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/all --- --- lib/ffindex/src/ffindex_apply_mpi --- --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/all --- --- lib/ffindex/src/ffindex_from_fasta_with_split --- --- lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/all --- [ 29%] Linking C executable ffindex_apply_mpi cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_apply_mpi.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_apply_mpi.dir/ffindex_apply_mpi.c.o -o ffindex_apply_mpi libffindex.a mpq/libmpq.a --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/all --- [ 30%] Linking C executable ffindex_from_fasta_with_split cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_from_fasta_with_split.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o -o ffindex_from_fasta_with_split libffindex.a --- lib/ffindex/src/CMakeFiles/ffindex_apply_mpi.dir/all --- [ 31%] Built target ffindex_apply_mpi --- data/CMakeFiles/generated.dir/all --- --- generated/context_data.lib.h --- --- lib/ffindex/src/CMakeFiles/ffindex_from_fasta_with_split.dir/all --- [ 31%] Built target ffindex_from_fasta_with_split --- data/CMakeFiles/generated.dir/all --- --- generated/cs219.lib.h --- [ 32%] Generating ../generated/cs219.lib.h cd /construction/biology/hhsuite/hh-suite-3.2.0/data && mkdir -p /construction/biology/hhsuite/.build/generated cd /construction/biology/hhsuite/hh-suite-3.2.0/data && /construction/biology/hhsuite/hh-suite-3.2.0/cmake/xxdi.pl cs219.lib > /construction/biology/hhsuite/.build/generated/cs219.lib.h --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- --- src/libhhviterbialgorithm_with_celloff.a --- --- data/CMakeFiles/generated.dir/all --- --- generated/context_data.lib.h --- [ 34%] Generating ../generated/context_data.lib.h cd /construction/biology/hhsuite/hh-suite-3.2.0/data && mkdir -p /construction/biology/hhsuite/.build/generated cd /construction/biology/hhsuite/hh-suite-3.2.0/data && /construction/biology/hhsuite/hh-suite-3.2.0/cmake/xxdi.pl context_data.lib > /construction/biology/hhsuite/.build/generated/context_data.lib.h --- src/CMakeFiles/hhviterbialgorithm_with_celloff.dir/all --- [ 33%] Linking CXX static library libhhviterbialgorithm_with_celloff.a cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -P CMakeFiles/hhviterbialgorithm_with_celloff.dir/cmake_clean_target.cmake cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/hhviterbialgorithm_with_celloff.dir/link.txt --verbose=1 /usr/bin/ar qc libhhviterbialgorithm_with_celloff.a CMakeFiles/hhviterbialgorithm_with_celloff.dir/hhviterbialgorithm.cpp.o /usr/bin/ranlib libhhviterbialgorithm_with_celloff.a [ 34%] Built target hhviterbialgorithm_with_celloff --- lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/DependInfo.cmake Scanning dependencies of target ffindex_unpack /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o --- [ 34%] Building C object lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_unpack.c --- data/CMakeFiles/generated.dir/all --- --- generated/cs219.lib.h --- cd /construction/biology/hhsuite/hh-suite-3.2.0/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /construction/biology/hhsuite/.build/generated/cs219.lib.h > /construction/biology/hhsuite/.build/generated/cs219.lib.h.tmp cd /construction/biology/hhsuite/hh-suite-3.2.0/data && mv -f /construction/biology/hhsuite/.build/generated/cs219.lib.h.tmp /construction/biology/hhsuite/.build/generated/cs219.lib.h --- lib/ffindex/src/CMakeFiles/ffindex_order.dir/all --- /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/depend --- lib/ffindex/src/CMakeFiles/ffindex_order.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/lib/ffindex/src /construction/biology/hhsuite/.build/lib/ffindex/src/CMakeFiles/ffindex_order.dir/DependInfo.cmake Scanning dependencies of target ffindex_order /usr/bin/make -f lib/ffindex/src/CMakeFiles/ffindex_order.dir/build.make lib/ffindex/src/CMakeFiles/ffindex_order.dir/build --- lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o --- --- lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/all --- --- lib/ffindex/src/ffindex_unpack --- --- lib/ffindex/src/CMakeFiles/ffindex_order.dir/all --- [ 34%] Building C object lib/ffindex/src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/bin/cc -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ext -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/ffindex_order.dir/ffindex_order.c.o -c /construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src/ffindex_order.c --- lib/ffindex/src/CMakeFiles/ffindex_unpack.dir/all --- [ 35%] Linking C executable ffindex_unpack cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_unpack.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o -o ffindex_unpack libffindex.a [ 36%] Built target ffindex_unpack --- src/CMakeFiles/a3m_database_extract.dir/all --- /usr/bin/make -f src/CMakeFiles/a3m_database_extract.dir/build.make src/CMakeFiles/a3m_database_extract.dir/depend --- src/CMakeFiles/a3m_database_extract.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/a3m_database_extract.dir/DependInfo.cmake --- lib/ffindex/src/CMakeFiles/ffindex_order.dir/all --- --- lib/ffindex/src/ffindex_order --- --- src/CMakeFiles/a3m_database_extract.dir/all --- Scanning dependencies of target a3m_database_extract /usr/bin/make -f src/CMakeFiles/a3m_database_extract.dir/build.make src/CMakeFiles/a3m_database_extract.dir/build --- src/CMakeFiles/a3m_database_extract.dir/a3m_database_extract.cpp.o --- --- lib/ffindex/src/CMakeFiles/ffindex_order.dir/all --- [ 37%] Linking C executable ffindex_order cd /construction/biology/hhsuite/.build/lib/ffindex/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/ffindex_order.dir/link.txt --verbose=1 /usr/bin/cc -std=c99 -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/ffindex_order.dir/ffindex_order.c.o -o ffindex_order libffindex.a --- src/CMakeFiles/a3m_database_extract.dir/all --- [ 38%] Building CXX object src/CMakeFiles/a3m_database_extract.dir/a3m_database_extract.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/a3m_database_extract.dir/a3m_database_extract.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/a3m_database_extract.cpp --- lib/ffindex/src/CMakeFiles/ffindex_order.dir/all --- [ 39%] Built target ffindex_order --- src/CMakeFiles/a3m_reduce.dir/all --- /usr/bin/make -f src/CMakeFiles/a3m_reduce.dir/build.make src/CMakeFiles/a3m_reduce.dir/depend --- src/CMakeFiles/a3m_reduce.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/a3m_reduce.dir/DependInfo.cmake Scanning dependencies of target a3m_reduce /usr/bin/make -f src/CMakeFiles/a3m_reduce.dir/build.make src/CMakeFiles/a3m_reduce.dir/build --- src/CMakeFiles/a3m_reduce.dir/a3m_reduce.cpp.o --- [ 39%] Building CXX object src/CMakeFiles/a3m_reduce.dir/a3m_reduce.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/a3m_reduce.dir/a3m_reduce.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/a3m_reduce.cpp --- src/cs/CMakeFiles/CS_OBJECTS.dir/all --- --- src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o --- [ 40%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o cd /construction/biology/hhsuite/.build/src/cs && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/assert_helpers.cc --- src/CMakeFiles/a3m_reduce.dir/all --- --- src/a3m_reduce --- [ 41%] Linking CXX executable a3m_reduce cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/a3m_reduce.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/a3m_reduce.dir/a3m_reduce.cpp.o -o a3m_reduce ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a [ 42%] Built target a3m_reduce --- src/CMakeFiles/a3m_extract.dir/all --- /usr/bin/make -f src/CMakeFiles/a3m_extract.dir/build.make src/CMakeFiles/a3m_extract.dir/depend --- src/CMakeFiles/a3m_extract.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/a3m_extract.dir/DependInfo.cmake Scanning dependencies of target a3m_extract /usr/bin/make -f src/CMakeFiles/a3m_extract.dir/build.make src/CMakeFiles/a3m_extract.dir/build --- src/CMakeFiles/a3m_extract.dir/a3m_extract.cpp.o --- [ 42%] Building CXX object src/CMakeFiles/a3m_extract.dir/a3m_extract.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/a3m_extract.dir/a3m_extract.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/a3m_extract.cpp --- src/CMakeFiles/a3m_database_extract.dir/all --- --- src/a3m_database_extract --- [ 43%] Linking CXX executable a3m_database_extract cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/a3m_database_extract.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/a3m_database_extract.dir/a3m_database_extract.cpp.o -o a3m_database_extract ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a [ 43%] Built target a3m_database_extract --- src/cs/CMakeFiles/CS_OBJECTS.dir/all --- --- src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o --- [ 44%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o cd /construction/biology/hhsuite/.build/src/cs && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/blosum_matrix.cc --- src/CMakeFiles/a3m_extract.dir/all --- --- src/a3m_extract --- [ 45%] Linking CXX executable a3m_extract cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/a3m_extract.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/a3m_extract.dir/a3m_extract.cpp.o -o a3m_extract ../lib/ffindex/src/libffindex.a libA3M_COMPRESS.a [ 46%] Built target a3m_extract --- src/cs/CMakeFiles/CS_OBJECTS.dir/all --- --- src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o --- [ 46%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o cd /construction/biology/hhsuite/.build/src/cs && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/getopt_pp.cc --- src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o --- [ 47%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/log.cc.o cd /construction/biology/hhsuite/.build/src/cs && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/CS_OBJECTS.dir/log.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/log.cc --- src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o --- [ 48%] Building CXX object src/cs/CMakeFiles/CS_OBJECTS.dir/application.cc.o cd /construction/biology/hhsuite/.build/src/cs && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/CS_OBJECTS.dir/application.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/application.cc --- data/CMakeFiles/generated.dir/all --- --- generated/context_data.crf.h --- cd /construction/biology/hhsuite/hh-suite-3.2.0/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /construction/biology/hhsuite/.build/generated/context_data.crf.h > /construction/biology/hhsuite/.build/generated/context_data.crf.h.tmp --- src/cs/CMakeFiles/CS_OBJECTS.dir/all --- --- src/cs/libCS_OBJECTS.a --- [ 48%] Linking CXX static library libCS_OBJECTS.a cd /construction/biology/hhsuite/.build/src/cs && /usr/local/bin/cmake -P CMakeFiles/CS_OBJECTS.dir/cmake_clean_target.cmake cd /construction/biology/hhsuite/.build/src/cs && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/CS_OBJECTS.dir/link.txt --verbose=1 /usr/bin/ar qc libCS_OBJECTS.a CMakeFiles/CS_OBJECTS.dir/aa.cc.o CMakeFiles/CS_OBJECTS.dir/as.cc.o CMakeFiles/CS_OBJECTS.dir/assert_helpers.cc.o CMakeFiles/CS_OBJECTS.dir/blosum_matrix.cc.o CMakeFiles/CS_OBJECTS.dir/getopt_pp.cc.o CMakeFiles/CS_OBJECTS.dir/log.cc.o CMakeFiles/CS_OBJECTS.dir/application.cc.o /usr/bin/ranlib libCS_OBJECTS.a [ 48%] Built target CS_OBJECTS --- data/CMakeFiles/generated.dir/all --- cd /construction/biology/hhsuite/hh-suite-3.2.0/data && mv -f /construction/biology/hhsuite/.build/generated/context_data.crf.h.tmp /construction/biology/hhsuite/.build/generated/context_data.crf.h --- generated/context_data.lib.h --- cd /construction/biology/hhsuite/hh-suite-3.2.0/data && /usr/bin/sed 's!unsigned char!static const unsigned char!' < /construction/biology/hhsuite/.build/generated/context_data.lib.h > /construction/biology/hhsuite/.build/generated/context_data.lib.h.tmp cd /construction/biology/hhsuite/hh-suite-3.2.0/data && mv -f /construction/biology/hhsuite/.build/generated/context_data.lib.h.tmp /construction/biology/hhsuite/.build/generated/context_data.lib.h [ 48%] Built target generated --- src/CMakeFiles/HH_OBJECTS.dir/all --- /usr/bin/make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/depend --- src/CMakeFiles/HH_OBJECTS.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/HH_OBJECTS.dir/DependInfo.cmake Scanning dependencies of target HH_OBJECTS /usr/bin/make -f src/CMakeFiles/HH_OBJECTS.dir/build.make src/CMakeFiles/HH_OBJECTS.dir/build --- src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o --- --- src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o --- --- src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o --- --- src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o --- --- src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o --- --- src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o --- [ 49%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhdecl.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o --- [ 50%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhblits.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o --- [ 51%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o --- src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o --- [ 52%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o --- src/CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o --- cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhsearch.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o --- cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhhit.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o --- [ 52%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhmatrices.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o --- [ 53%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhalign.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o --- [ 53%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhhitlist.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o --- [ 54%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhposteriordecoder.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o --- [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhutil.cpp --- src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o --- [ 55%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/util.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/util.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/util.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o --- [ 56%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhalignment.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o --- [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhforwardalgorithm.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o --- [ 57%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhhmm.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o --- [ 58%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhposteriordecoderrunner.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o --- [ 59%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhviterbialgorithm.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o --- [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhfullalignment.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o --- [ 60%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhhmmsimd.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o --- [ 61%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhposteriormatrix.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o --- [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhviterbi.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o --- [ 62%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhbacktracemac.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o --- [ 63%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhmacalgorithm.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o --- [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhprefilter.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o --- [ 64%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhviterbimatrix.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o --- [ 65%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhbackwardalgorithm.cpp --- src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o --- [ 66%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/ffindexdatabase.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o --- [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhdatabase.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o --- [ 67%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhhalfalignment.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o --- [ 68%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhviterbirunner.cpp --- src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o --- [ 69%] Building CXX object src/CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhfunc.cpp --- src/libHH_OBJECTS.a --- [ 69%] Linking CXX static library libHH_OBJECTS.a cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -P CMakeFiles/HH_OBJECTS.dir/cmake_clean_target.cmake cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/HH_OBJECTS.dir/link.txt --verbose=1 /usr/bin/ar qc libHH_OBJECTS.a CMakeFiles/HH_OBJECTS.dir/hhblits.cpp.o CMakeFiles/HH_OBJECTS.dir/hhdecl.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhit.cpp.o CMakeFiles/HH_OBJECTS.dir/hhmatrices.cpp.o CMakeFiles/HH_OBJECTS.dir/hhsearch.cpp.o CMakeFiles/HH_OBJECTS.dir/hhalign.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhitlist.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoder.cpp.o CMakeFiles/HH_OBJECTS.dir/hhutil.cpp.o CMakeFiles/HH_OBJECTS.dir/util.cpp.o CMakeFiles/HH_OBJECTS.dir/hhalignment.cpp.o CMakeFiles/HH_OBJECTS.dir/hhforwardalgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhmm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriordecoderrunner.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbialgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhfullalignment.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhmmsimd.cpp.o CMakeFiles/HH_OBJECTS.dir/hhposteriormatrix.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbi.cpp.o CMakeFiles/HH_OBJECTS.dir/hhbacktracemac.cpp.o CMakeFiles/HH_OBJECTS.dir/hhmacalgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/hhprefilter.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbimatrix.cpp.o CMakeFiles/HH_OBJECTS.dir/hhbackwardalgorithm.cpp.o CMakeFiles/HH_OBJECTS.dir/ffindexdatabase.cpp.o CMakeFiles/HH_OBJECTS.dir/hhdatabase.cpp.o CMakeFiles/HH_OBJECTS.dir/hhhalfalignment.cpp.o CMakeFiles/HH_OBJECTS.dir/hhviterbirunner.cpp.o CMakeFiles/HH_OBJECTS.dir/hhfunc.cpp.o /usr/bin/ranlib libHH_OBJECTS.a [ 69%] Built target HH_OBJECTS --- src/CMakeFiles/cstranslate_mpi.dir/all --- --- src/CMakeFiles/hhalign_mpi.dir/all --- --- src/CMakeFiles/hhsearch_mpi.dir/all --- --- src/CMakeFiles/hhblits_mpi.dir/all --- --- src/CMakeFiles/hhblits_ca3m.dir/all --- --- src/CMakeFiles/cstranslate_mpi.dir/all --- /usr/bin/make -f src/CMakeFiles/cstranslate_mpi.dir/build.make src/CMakeFiles/cstranslate_mpi.dir/depend --- src/CMakeFiles/hhsearch_mpi.dir/all --- /usr/bin/make -f src/CMakeFiles/hhsearch_mpi.dir/build.make src/CMakeFiles/hhsearch_mpi.dir/depend --- src/CMakeFiles/hhblits_mpi.dir/all --- /usr/bin/make -f src/CMakeFiles/hhblits_mpi.dir/build.make src/CMakeFiles/hhblits_mpi.dir/depend --- src/CMakeFiles/hhblits_ca3m.dir/all --- /usr/bin/make -f src/CMakeFiles/hhblits_ca3m.dir/build.make src/CMakeFiles/hhblits_ca3m.dir/depend --- src/CMakeFiles/hhalign_mpi.dir/all --- /usr/bin/make -f src/CMakeFiles/hhalign_mpi.dir/build.make src/CMakeFiles/hhalign_mpi.dir/depend --- src/CMakeFiles/hhblits_mpi.dir/all --- --- src/CMakeFiles/hhblits_mpi.dir/depend --- --- src/CMakeFiles/cstranslate_mpi.dir/all --- --- src/CMakeFiles/cstranslate_mpi.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/cstranslate_mpi.dir/DependInfo.cmake --- src/CMakeFiles/hhsearch_mpi.dir/all --- --- src/CMakeFiles/hhsearch_mpi.dir/depend --- --- src/CMakeFiles/hhblits_mpi.dir/all --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhblits_mpi.dir/DependInfo.cmake --- src/CMakeFiles/hhsearch_mpi.dir/all --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhsearch_mpi.dir/DependInfo.cmake --- src/CMakeFiles/hhalign_mpi.dir/all --- --- src/CMakeFiles/hhalign_mpi.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhalign_mpi.dir/DependInfo.cmake --- src/CMakeFiles/hhblits_ca3m.dir/all --- --- src/CMakeFiles/hhblits_ca3m.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhblits_ca3m.dir/DependInfo.cmake Scanning dependencies of target hhblits_ca3m --- src/CMakeFiles/hhsearch_mpi.dir/all --- Scanning dependencies of target hhsearch_mpi --- src/CMakeFiles/hhblits_ca3m.dir/all --- /usr/bin/make -f src/CMakeFiles/hhblits_ca3m.dir/build.make src/CMakeFiles/hhblits_ca3m.dir/build --- src/CMakeFiles/hhsearch_mpi.dir/all --- /usr/bin/make -f src/CMakeFiles/hhsearch_mpi.dir/build.make src/CMakeFiles/hhsearch_mpi.dir/build --- src/CMakeFiles/hhblits_ca3m.dir/all --- --- src/CMakeFiles/hhblits_ca3m.dir/hhblits_ca3m.cpp.o --- --- src/CMakeFiles/hhsearch_mpi.dir/all --- --- src/CMakeFiles/hhsearch_mpi.dir/hhblits_mpi.cpp.o --- --- src/CMakeFiles/hhblits_ca3m.dir/all --- [ 70%] Building CXX object src/CMakeFiles/hhblits_ca3m.dir/hhblits_ca3m.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/hhblits_ca3m.dir/hhblits_ca3m.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhblits_ca3m.cpp --- src/CMakeFiles/hhalign_mpi.dir/all --- Scanning dependencies of target hhalign_mpi --- src/CMakeFiles/hhsearch_mpi.dir/all --- [ 70%] Building CXX object src/CMakeFiles/hhsearch_mpi.dir/hhblits_mpi.cpp.o --- src/CMakeFiles/hhalign_mpi.dir/all --- /usr/bin/make -f src/CMakeFiles/hhalign_mpi.dir/build.make src/CMakeFiles/hhalign_mpi.dir/build --- src/CMakeFiles/hhsearch_mpi.dir/all --- cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -I/usr/local/mpi/openmpi/include -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -I/usr/local/mpi/openmpi/include -DHHSEARCH=1 -o 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of target hhblits_mpi /usr/bin/make -f src/CMakeFiles/hhblits_mpi.dir/build.make src/CMakeFiles/hhblits_mpi.dir/build --- src/CMakeFiles/hhblits_mpi.dir/hhblits_mpi.cpp.o --- [ 72%] Building CXX object src/CMakeFiles/hhblits_mpi.dir/hhblits_mpi.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -I/usr/local/mpi/openmpi/include -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -I/usr/local/mpi/openmpi/include -o CMakeFiles/hhblits_mpi.dir/hhblits_mpi.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhblits_mpi.cpp --- src/CMakeFiles/cstranslate_mpi.dir/all --- Scanning dependencies of target cstranslate_mpi /usr/bin/make -f src/CMakeFiles/cstranslate_mpi.dir/build.make src/CMakeFiles/cstranslate_mpi.dir/build --- src/CMakeFiles/cstranslate_mpi.dir/cs/cstranslate_mpi_app.cc.o --- [ 72%] Building CXX object src/CMakeFiles/cstranslate_mpi.dir/cs/cstranslate_mpi_app.cc.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -I/usr/local/mpi/openmpi/include -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -I/usr/local/mpi/openmpi/include -o CMakeFiles/cstranslate_mpi.dir/cs/cstranslate_mpi_app.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/cstranslate_mpi_app.cc --- src/CMakeFiles/hhblits_ca3m.dir/all --- --- src/hhblits_ca3m --- [ 73%] Linking CXX executable hhblits_ca3m cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/hhblits_ca3m.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/hhblits_ca3m.dir/hhblits_ca3m.cpp.o -o hhblits_ca3m libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a [ 73%] Built target hhblits_ca3m --- src/CMakeFiles/hhalign_omp.dir/all --- /usr/bin/make -f src/CMakeFiles/hhalign_omp.dir/build.make src/CMakeFiles/hhalign_omp.dir/depend --- src/CMakeFiles/hhalign_omp.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhalign_omp.dir/DependInfo.cmake Scanning dependencies of target hhalign_omp /usr/bin/make -f src/CMakeFiles/hhalign_omp.dir/build.make src/CMakeFiles/hhalign_omp.dir/build --- src/CMakeFiles/hhalign_omp.dir/hhblits_omp.cpp.o --- [ 74%] Building CXX object src/CMakeFiles/hhalign_omp.dir/hhblits_omp.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DHHALIGN=1 -o CMakeFiles/hhalign_omp.dir/hhblits_omp.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhblits_omp.cpp --- src/CMakeFiles/hhblits_mpi.dir/all --- --- src/hhblits_mpi --- [ 75%] Linking CXX executable hhblits_mpi cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/hhblits_mpi.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi_cxx -lmpi CMakeFiles/hhblits_mpi.dir/hhblits_mpi.cpp.o -o hhblits_mpi libHH_OBJECTS.a ../lib/ffindex/src/mpq/libmpq.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a --- src/CMakeFiles/hhsearch_mpi.dir/all --- --- src/hhsearch_mpi --- [ 76%] Linking CXX executable hhsearch_mpi cd 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-lmpi -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi_cxx -lmpi CMakeFiles/hhsearch_mpi.dir/hhblits_mpi.cpp.o -o hhsearch_mpi libHH_OBJECTS.a ../lib/ffindex/src/mpq/libmpq.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a --- src/CMakeFiles/hhsearch_omp.dir/all --- Scanning dependencies of target hhsearch_omp /usr/bin/make -f src/CMakeFiles/hhsearch_omp.dir/build.make src/CMakeFiles/hhsearch_omp.dir/build --- src/CMakeFiles/hhsearch_omp.dir/hhblits_omp.cpp.o --- [ 77%] Building CXX object src/CMakeFiles/hhsearch_omp.dir/hhblits_omp.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DHHSEARCH=1 -o CMakeFiles/hhsearch_omp.dir/hhblits_omp.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhblits_omp.cpp --- src/CMakeFiles/hhsearch_mpi.dir/all --- [ 78%] Built target hhsearch_mpi --- src/CMakeFiles/hhblits_omp.dir/all --- /usr/bin/make -f src/CMakeFiles/hhblits_omp.dir/build.make src/CMakeFiles/hhblits_omp.dir/depend --- src/CMakeFiles/hhblits_omp.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhblits_omp.dir/DependInfo.cmake Scanning dependencies of target hhblits_omp /usr/bin/make -f src/CMakeFiles/hhblits_omp.dir/build.make src/CMakeFiles/hhblits_omp.dir/build --- src/CMakeFiles/hhblits_omp.dir/hhblits_omp.cpp.o --- [ 79%] Building CXX object src/CMakeFiles/hhblits_omp.dir/hhblits_omp.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/hhblits_omp.dir/hhblits_omp.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhblits_omp.cpp --- src/hhblits_omp --- [ 80%] Linking CXX executable hhblits_omp cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/hhblits_omp.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/hhblits_omp.dir/hhblits_omp.cpp.o -o hhblits_omp libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a [ 80%] Built target hhblits_omp --- src/CMakeFiles/cstranslate.dir/all --- /usr/bin/make -f src/CMakeFiles/cstranslate.dir/build.make src/CMakeFiles/cstranslate.dir/depend --- src/CMakeFiles/cstranslate.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/cstranslate.dir/DependInfo.cmake --- src/CMakeFiles/hhalign_mpi.dir/all --- --- src/hhalign_mpi --- [ 80%] Linking CXX executable hhalign_mpi cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/hhalign_mpi.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi_cxx -lmpi CMakeFiles/hhalign_mpi.dir/hhblits_mpi.cpp.o -o hhalign_mpi libHH_OBJECTS.a ../lib/ffindex/src/mpq/libmpq.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a [ 81%] Built target hhalign_mpi --- src/CMakeFiles/hhsearch.dir/all --- /usr/bin/make -f src/CMakeFiles/hhsearch.dir/build.make src/CMakeFiles/hhsearch.dir/depend --- src/CMakeFiles/hhsearch.dir/depend --- cd /construction/biology/hhsuite/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhsearch.dir/DependInfo.cmake Scanning dependencies of target hhsearch /usr/bin/make -f src/CMakeFiles/hhsearch.dir/build.make src/CMakeFiles/hhsearch.dir/build --- src/CMakeFiles/hhsearch.dir/hhblits_app.cpp.o --- [ 81%] Building CXX object src/CMakeFiles/hhsearch.dir/hhblits_app.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DHHSEARCH=1 -o CMakeFiles/hhsearch.dir/hhblits_app.cpp.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/hhblits_app.cpp --- src/CMakeFiles/cstranslate.dir/all --- Scanning dependencies of target cstranslate /usr/bin/make -f src/CMakeFiles/cstranslate.dir/build.make src/CMakeFiles/cstranslate.dir/build --- src/CMakeFiles/cstranslate.dir/cs/cstranslate_app.cc.o --- [ 81%] Building CXX object src/CMakeFiles/cstranslate.dir/cs/cstranslate_app.cc.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -o CMakeFiles/cstranslate.dir/cs/cstranslate_app.cc.o -c /construction/biology/hhsuite/hh-suite-3.2.0/src/cs/cstranslate_app.cc --- src/CMakeFiles/hhsearch_omp.dir/all --- --- src/hhsearch_omp --- [ 81%] Linking CXX executable hhsearch_omp cd /construction/biology/hhsuite/.build/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/hhsearch_omp.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -Wl,-rpath,/usr/local/mpi/openmpi/lib -L/usr/local/mpi/openmpi/lib -lmpi CMakeFiles/hhsearch_omp.dir/hhblits_omp.cpp.o -o hhsearch_omp libHH_OBJECTS.a ../lib/ffindex/src/libffindex.a cs/libCS_OBJECTS.a libhhviterbialgorithm_with_celloff.a libhhviterbialgorithm_and_ss.a libhhviterbialgorithm_with_celloff_and_ss.a --- src/CMakeFiles/hhalign_omp.dir/all --- --- src/hhalign_omp --- --- src/CMakeFiles/hhsearch_omp.dir/all --- [ 82%] Built target hhsearch_omp --- src/CMakeFiles/hhalign.dir/all --- 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"Unix Makefiles" /construction/biology/hhsuite/hh-suite-3.2.0 /construction/biology/hhsuite/hh-suite-3.2.0/src /construction/biology/hhsuite/.build /construction/biology/hhsuite/.build/src /construction/biology/hhsuite/.build/src/CMakeFiles/hhalign.dir/DependInfo.cmake Scanning dependencies of target hhalign /usr/bin/make -f src/CMakeFiles/hhalign.dir/build.make src/CMakeFiles/hhalign.dir/build --- src/CMakeFiles/hhalign.dir/hhblits_app.cpp.o --- [ 83%] Building CXX object src/CMakeFiles/hhalign.dir/hhblits_app.cpp.o cd /construction/biology/hhsuite/.build/src && /usr/bin/c++ -DOPENMP -DSSE -I/construction/biology/hhsuite/.build/generated -I/construction/biology/hhsuite/hh-suite-3.2.0/src -I/construction/biology/hhsuite/hh-suite-3.2.0/lib/ffindex/src -I/construction/biology/hhsuite/.build/src -I/construction/biology/hhsuite/hh-suite-3.2.0/src/cs -pipe -O2 -fno-strict-aliasing -std=c++0x -msse -msse2 -fopenmp -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DHHALIGN=1 -o 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