=> Building biology/seqan-apps Started : Wednesday, 24 JUL 2019 at 17:34:07 UTC Platform: 5.7-DEVELOPMENT DragonFly v5.7.0.83.g49866-DEVELOPMENT #40: Sun Jun 30 03:00:04 PDT 2019 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.6-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.6-SYNTH UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 TERM=dumb PKG_CACHEDIR=/var/cache/pkg8 PKG_DBDIR=/var/db/pkg8 PORTSDIR=/xports LANG=C HOME=/root USER=root -------------------------------------------------- -- Options -------------------------------------------------- ===> The following configuration options are available for seqan-apps-2.4.0_6: ====> Options available for the radio ARCH: you can only select none or one of them SSE4=off: Use SSE4 and POPCNT instructions AVX2=off: Use SSE4, AVX2 and POPCNT instructions NATIVE=off: Use all available instruction sets (-march=native) ===> Use 'make config' to modify these settings -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/biology/seqan-apps XDG_CONFIG_HOME=/construction/biology/seqan-apps HOME=/construction/biology/seqan-apps TMPDIR="/tmp" PATH=/construction/biology/seqan-apps/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/biology/seqan-apps XDG_CONFIG_HOME=/construction/biology/seqan-apps HOME=/construction/biology/seqan-apps TMPDIR="/tmp" PATH=/construction/biology/seqan-apps/.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=" -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- DESTDIR=/construction/biology/seqan-apps/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- CMAKE_BUILD_TYPE="release" RM_I386="" OSREL=5.6 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/seqan-apps" EXAMPLESDIR="share/examples/seqan-apps" DATADIR="share/seqan-apps" WWWDIR="www/seqan-apps" ETCDIR="etc/seqan-apps" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/seqan-apps DOCSDIR=/usr/local/share/doc/seqan-apps EXAMPLESDIR=/usr/local/share/examples/seqan-apps WWWDIR=/usr/local/www/seqan-apps ETCDIR=/usr/local/etc/seqan-apps -------------------------------------------------- -- /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 BSD3CLAUSE LGPL3 GPLv3 accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> seqan-apps-2.4.0_6 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 ===> seqan-apps-2.4.0_6 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of seqan-apps-2.4.0_6 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License BSD3CLAUSE LGPL3 GPLv3 accepted by the user ===> Fetching all distfiles required by seqan-apps-2.4.0_6 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License BSD3CLAUSE LGPL3 GPLv3 accepted by the user ===> Fetching all distfiles required by seqan-apps-2.4.0_6 for building => SHA256 Checksum OK for seqan-seqan-seqan-v2.4.0_GH0.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License BSD3CLAUSE LGPL3 GPLv3 accepted by the user ===> Fetching all distfiles required by seqan-apps-2.4.0_6 for building ===> Extracting for seqan-apps-2.4.0_6 ===> License BSD3CLAUSE LGPL3 GPLv3 accepted by the user ===> Fetching all distfiles required by seqan-apps-2.4.0_6 for building => SHA256 Checksum OK for seqan-seqan-seqan-v2.4.0_GH0.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for seqan-apps-2.4.0_6 ===> Applying dragonfly patches for seqan-apps-2.4.0_6 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> seqan-apps-2.4.0_6 depends on package: boost-libs>0 - not found ===> Installing existing package /packages/All/boost-libs-1.70.0_2.txz Installing boost-libs-1.70.0_2... `-- Installing icu-64.2,1... `-- Extracting icu-64.2,1: .......... done Extracting boost-libs-1.70.0_2: .......... done Message from boost-libs-1.70.0_2: You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===> seqan-apps-2.4.0_6 depends on package: boost-libs>0 - found ===> Returning to build of seqan-apps-2.4.0_6 ===> seqan-apps-2.4.0_6 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 | `-- Installing libressl-2.9.2... | `-- Extracting libressl-2.9.2: .......... 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 *************************************************************************** ===> seqan-apps-2.4.0_6 depends on file: /usr/local/bin/cmake - found ===> Returning to build of seqan-apps-2.4.0_6 -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- ===> seqan-apps-2.4.0_6 depends on shared library: libelf.so - not found ===> Installing existing package /packages/All/libelf-0.8.13_3.txz Installing libelf-0.8.13_3... `-- Installing gettext-runtime-0.20.1... | `-- Installing indexinfo-0.3.1... | `-- Extracting indexinfo-0.3.1: .... done `-- Extracting gettext-runtime-0.20.1: .......... done Extracting libelf-0.8.13_3: .......... done ===> seqan-apps-2.4.0_6 depends on shared library: libelf.so - found (/usr/local/lib/libelf.so) ===> Returning to build of seqan-apps-2.4.0_6 -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for seqan-apps-2.4.0_6 ===> Performing out-of-source build /bin/mkdir -p /construction/biology/seqan-apps/.build -- The CXX compiler identification is GNU 8.3.0 -- 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 -- Initializing SeqAn Build System... -- Selected repository dir: /construction/biology/seqan-apps/seqan-seqan-v2.4.0 -- No revision system found. -- Repository date not determined. -- Repository revision not determined. -- Configuring apps -- Configuring apps/alf -- Performing Test CXX14_BUILTIN -- Performing Test CXX14_BUILTIN - Success -- Looking for C++ include execinfo.h -- Looking for C++ include execinfo.h - found -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Configuring apps/bs_tools -- Found ZLIB: /usr/lib/libz.so (found version "1.2.8") -- Boost version: 1.70.0 -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/dfi -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/fiona -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Boost version: 1.70.0 -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/fx_tools -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Configuring apps/gustaf -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/insegt -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/mason2 -- Found OpenMP_CXX: -fopenmp -- Found OpenMP: TRUE -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/micro_razers -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/ngs_roi -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/pair_align -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/param_chooser -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Configuring apps/rabema -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/razers -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/razers3 -- Found BZip2: /usr/lib/libbz2.so (found version "1.0.6") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/rep_sep -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Configuring apps/sak -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/sam2matrix -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/samcat -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/searchjoin -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/seqan_tcoffee -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/seqcons2 -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/sgip -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/snp_store -- Boost version: 1.70.0 -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/splazers -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/stellar -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/tree_recon -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Configuring apps/yara -- Found Seqan: /construction/biology/seqan-apps/seqan-seqan-v2.4.0/include (found version "2.4.0") -- Could NOT find PythonInterp (missing: PYTHON_EXECUTABLE) (Required is at least version "2.7") -- Unsupported platform DragonFly, disabling CTD support. -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_C_COMPILER CMAKE_C_FLAGS CMAKE_C_FLAGS_DEBUG CMAKE_C_FLAGS_RELEASE CMAKE_MODULE_LINKER_FLAGS CMAKE_SHARED_LINKER_FLAGS THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /construction/biology/seqan-apps/.build -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for seqan-apps-2.4.0_6 /usr/local/bin/cmake -S/construction/biology/seqan-apps/seqan-seqan-v2.4.0 -B/construction/biology/seqan-apps/.build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/local/bin/cmake -E cmake_progress_start /construction/biology/seqan-apps/.build/CMakeFiles /construction/biology/seqan-apps/.build/CMakeFiles/progress.marks /usr/bin/make -f CMakeFiles/Makefile2 all --- CMakeFiles/seqan_library.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/all --- --- CMakeFiles/seqan_library.dir/all --- /usr/bin/make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend --- apps/mason2/CMakeFiles/mason_sim.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend --- CMakeFiles/seqan_library.dir/all --- --- CMakeFiles/seqan_library.dir/depend --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/depend --- --- CMakeFiles/seqan_library.dir/all --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/CMakeFiles/seqan_library.dir/DependInfo.cmake --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/DependInfo.cmake --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/DependInfo.cmake --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/depend --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/depend --- --- apps/mason2/CMakeFiles/mason_sim.dir/all --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_sim.dir/DependInfo.cmake --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/DependInfo.cmake --- CMakeFiles/seqan_library.dir/all --- Scanning dependencies of target seqan_library /usr/bin/make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/build [ 0%] Built target seqan_library --- apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/DependInfo.cmake --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/all --- Scanning dependencies of target pair_align_global_0010 --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- Scanning dependencies of target pair_align_global_1100 --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- Scanning dependencies of target pair_align_global_0000 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- [ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/all --- [ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/all --- Scanning dependencies of target pair_align_global_0001 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/build --- apps/mason2/CMakeFiles/mason_sim.dir/all --- Scanning dependencies of target mason_sim /usr/bin/make -f apps/mason2/CMakeFiles/mason_sim.dir/build.make apps/mason2/CMakeFiles/mason_sim.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/all --- --- apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o --- [ 1%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- [ 2%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o --- [ 2%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/external_split_merge.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/external_split_merge.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/external_split_merge.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o --- [ 3%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/genomic_variants.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/genomic_variants.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/genomic_variants.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/mason_options.cpp.o --- [ 3%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/mason_options.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/mason_options.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_options.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0001.dir/all --- [ 3%] Built target pair_align_global_0001 --- apps/pair_align/lib/CMakeFiles/pair_align_local.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_local.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_local.dir/DependInfo.cmake Scanning dependencies of target pair_align_local /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_local.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o --- [ 3%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_local.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1100.dir/all --- [ 3%] Built target pair_align_global_1100 --- apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_1110 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o --- [ 3%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0010.dir/all --- [ 3%] Built target pair_align_global_0010 --- apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_1011 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o --- [ 4%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0000.dir/all --- [ 4%] Built target pair_align_global_0000 --- apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/DependInfo.cmake Scanning dependencies of target pair_align_lcs /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o --- [ 4%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_lcs.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o --- [ 5%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/methylation_levels.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/methylation_levels.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/methylation_levels.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o --- [ 6%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_454.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/simulate_454.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/simulate_454.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_lcs.dir/all --- [ 6%] Built target pair_align_lcs --- apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_0101 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o --- [ 7%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o --- [ 7%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_base.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/simulate_base.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/simulate_base.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1110.dir/all --- [ 7%] Built target pair_align_global_1110 --- apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_0011 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o --- [ 7%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_local.dir/all --- [ 7%] Built target pair_align_local --- apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_0100 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o --- [ 8%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1011.dir/all --- [ 8%] Built target pair_align_global_1011 --- apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_1111 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o --- [ 9%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o --- [ 10%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_genome.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/simulate_genome.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/simulate_genome.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o --- [ 10%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/simulate_illumina.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0101.dir/all --- [ 10%] Built target pair_align_global_0101 --- apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_0110 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o --- [ 10%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o --- [ 11%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/simulate_sanger.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1111.dir/all --- [ 11%] Built target pair_align_global_1111 --- apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_1010 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o --- [ 11%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0100.dir/all --- [ 11%] Built target pair_align_global_0100 --- apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_0111 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o --- [ 12%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=1 -DSUFFIX_GAP_TOP=0 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0011.dir/all --- [ 12%] Built target pair_align_global_0011 --- apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_1101 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o --- [ 13%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=1 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o --- [ 13%] Building CXX object apps/mason2/CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/vcf_materialization.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0110.dir/all --- [ 13%] Built target pair_align_global_0110 --- apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_1000 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o --- [ 13%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=0 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/mason2/CMakeFiles/mason_sim.dir/all --- --- apps/mason2/libmason_sim.a --- [ 14%] Linking CXX static library libmason_sim.a cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -P CMakeFiles/mason_sim.dir/cmake_clean_target.cmake cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_sim.dir/link.txt --verbose=1 /usr/bin/ar qc libmason_sim.a CMakeFiles/mason_sim.dir/external_split_merge.cpp.o CMakeFiles/mason_sim.dir/genomic_variants.cpp.o CMakeFiles/mason_sim.dir/mason_options.cpp.o CMakeFiles/mason_sim.dir/methylation_levels.cpp.o CMakeFiles/mason_sim.dir/simulate_454.cpp.o CMakeFiles/mason_sim.dir/simulate_base.cpp.o CMakeFiles/mason_sim.dir/simulate_genome.cpp.o CMakeFiles/mason_sim.dir/simulate_illumina.cpp.o CMakeFiles/mason_sim.dir/simulate_sanger.cpp.o CMakeFiles/mason_sim.dir/vcf_materialization.cpp.o /usr/bin/ranlib libmason_sim.a [ 14%] Built target mason_sim --- apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/DependInfo.cmake Scanning dependencies of target pair_align_global_1001 /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o --- [ 15%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -DSUFFIX_GAP_BOTTOM=1 -DSUFFIX_GAP_LEFT=0 -DSUFFIX_GAP_RIGHT=0 -DSUFFIX_GAP_TOP=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_global.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1101.dir/all --- [ 15%] Built target pair_align_global_1101 --- apps/param_chooser/CMakeFiles/param_chooser.dir/all --- /usr/bin/make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/depend --- apps/param_chooser/CMakeFiles/param_chooser.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/param_chooser /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/param_chooser /construction/biology/seqan-apps/.build/apps/param_chooser/CMakeFiles/param_chooser.dir/DependInfo.cmake Scanning dependencies of target param_chooser /usr/bin/make -f apps/param_chooser/CMakeFiles/param_chooser.dir/build.make apps/param_chooser/CMakeFiles/param_chooser.dir/build --- apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o --- [ 16%] Building CXX object apps/param_chooser/CMakeFiles/param_chooser.dir/param_chooser.cpp.o cd /construction/biology/seqan-apps/.build/apps/param_chooser && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/param_chooser.dir/param_chooser.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/param_chooser/param_chooser.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1010.dir/all --- [ 16%] Built target pair_align_global_1010 --- apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/all --- /usr/bin/make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend --- apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/param_chooser /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/param_chooser /construction/biology/seqan-apps/.build/apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/DependInfo.cmake Scanning dependencies of target test_funcs_param_chooser /usr/bin/make -f apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build.make apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/build --- apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o --- [ 16%] Building CXX object apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o cd /construction/biology/seqan-apps/.build/apps/param_chooser && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/param_chooser/test_param_chooser.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_0111.dir/all --- [ 16%] Built target pair_align_global_0111 --- apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/all --- /usr/bin/make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend --- apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/rabema /construction/biology/seqan-apps/.build/apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/DependInfo.cmake Scanning dependencies of target rabema_build_gold_standard /usr/bin/make -f apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build.make apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/build --- apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o --- [ 16%] Building CXX object apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o cd /construction/biology/seqan-apps/.build/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema/rabema_build_gold_standard.cpp --- apps/param_chooser/CMakeFiles/test_funcs_param_chooser.dir/all --- --- bin/test_funcs_param_chooser --- [ 17%] Linking CXX executable ../../bin/test_funcs_param_chooser cd /construction/biology/seqan-apps/.build/apps/param_chooser && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/test_funcs_param_chooser.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/test_funcs_param_chooser.dir/test_param_chooser.cpp.o -o ../../bin/test_funcs_param_chooser -lexecinfo -lelf [ 17%] Built target test_funcs_param_chooser --- apps/rabema/CMakeFiles/rabema_prepare_sam.dir/all --- /usr/bin/make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend --- apps/rabema/CMakeFiles/rabema_prepare_sam.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/rabema /construction/biology/seqan-apps/.build/apps/rabema/CMakeFiles/rabema_prepare_sam.dir/DependInfo.cmake Scanning dependencies of target rabema_prepare_sam /usr/bin/make -f apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build.make apps/rabema/CMakeFiles/rabema_prepare_sam.dir/build --- apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o --- [ 17%] Building CXX object apps/rabema/CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o cd /construction/biology/seqan-apps/.build/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema/prepare_sam.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1000.dir/all --- [ 17%] Built target pair_align_global_1000 --- apps/rabema/CMakeFiles/rabema_evaluate.dir/all --- /usr/bin/make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/depend --- apps/rabema/CMakeFiles/rabema_evaluate.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/rabema /construction/biology/seqan-apps/.build/apps/rabema/CMakeFiles/rabema_evaluate.dir/DependInfo.cmake Scanning dependencies of target rabema_evaluate /usr/bin/make -f apps/rabema/CMakeFiles/rabema_evaluate.dir/build.make apps/rabema/CMakeFiles/rabema_evaluate.dir/build --- apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o --- [ 18%] Building CXX object apps/rabema/CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o cd /construction/biology/seqan-apps/.build/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema/rabema_evaluate.cpp --- apps/param_chooser/CMakeFiles/param_chooser.dir/all --- --- bin/param_chooser --- [ 18%] Linking CXX executable ../../bin/param_chooser cd /construction/biology/seqan-apps/.build/apps/param_chooser && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/param_chooser.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/param_chooser.dir/param_chooser.cpp.o -o ../../bin/param_chooser -lexecinfo -lelf [ 19%] Built target param_chooser --- apps/rabema/CMakeFiles/rabema_do_search.dir/all --- /usr/bin/make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/depend --- apps/rabema/CMakeFiles/rabema_do_search.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/rabema /construction/biology/seqan-apps/.build/apps/rabema/CMakeFiles/rabema_do_search.dir/DependInfo.cmake Scanning dependencies of target rabema_do_search /usr/bin/make -f apps/rabema/CMakeFiles/rabema_do_search.dir/build.make apps/rabema/CMakeFiles/rabema_do_search.dir/build --- apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o --- [ 20%] Building CXX object apps/rabema/CMakeFiles/rabema_do_search.dir/do_search.cpp.o cd /construction/biology/seqan-apps/.build/apps/rabema && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/rabema_do_search.dir/do_search.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema/do_search.cpp --- apps/pair_align/lib/CMakeFiles/pair_align_global_1001.dir/all --- [ 20%] Built target pair_align_global_1001 --- apps/razers/CMakeFiles/razers.dir/all --- /usr/bin/make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/depend --- apps/razers/CMakeFiles/razers.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/razers /construction/biology/seqan-apps/.build/apps/razers/CMakeFiles/razers.dir/DependInfo.cmake Scanning dependencies of target razers /usr/bin/make -f apps/razers/CMakeFiles/razers.dir/build.make apps/razers/CMakeFiles/razers.dir/build --- apps/razers/CMakeFiles/razers.dir/razers.cpp.o --- [ 20%] Building CXX object apps/razers/CMakeFiles/razers.dir/razers.cpp.o cd /construction/biology/seqan-apps/.build/apps/razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/razers.dir/razers.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers/razers.cpp --- apps/rabema/CMakeFiles/rabema_do_search.dir/all --- --- bin/rabema_do_search --- [ 20%] Linking CXX executable ../../bin/rabema_do_search cd /construction/biology/seqan-apps/.build/apps/rabema && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/rabema_do_search.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/rabema_do_search.dir/do_search.cpp.o -o ../../bin/rabema_do_search -lexecinfo -lelf -lz [ 20%] Built target rabema_do_search --- apps/razers3/CMakeFiles/razers3_simulate_reads.dir/all --- /usr/bin/make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/depend --- apps/razers3/CMakeFiles/razers3_simulate_reads.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/razers3 /construction/biology/seqan-apps/.build/apps/razers3/CMakeFiles/razers3_simulate_reads.dir/DependInfo.cmake Scanning dependencies of target razers3_simulate_reads /usr/bin/make -f apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build.make apps/razers3/CMakeFiles/razers3_simulate_reads.dir/build --- apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o --- [ 20%] Building CXX object apps/razers3/CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o cd /construction/biology/seqan-apps/.build/apps/razers3 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"3.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3/simulate_reads.cpp --- apps/rabema/CMakeFiles/rabema_build_gold_standard.dir/all --- --- bin/rabema_build_gold_standard --- [ 21%] Linking CXX executable ../../bin/rabema_build_gold_standard cd /construction/biology/seqan-apps/.build/apps/rabema && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/rabema_build_gold_standard.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/rabema_build_gold_standard.dir/rabema_build_gold_standard.cpp.o -o ../../bin/rabema_build_gold_standard -lexecinfo -lelf -lz [ 21%] Built target rabema_build_gold_standard --- apps/razers3/CMakeFiles/razers3.dir/all --- /usr/bin/make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/depend --- apps/razers3/CMakeFiles/razers3.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/razers3 /construction/biology/seqan-apps/.build/apps/razers3/CMakeFiles/razers3.dir/DependInfo.cmake Scanning dependencies of target razers3 /usr/bin/make -f apps/razers3/CMakeFiles/razers3.dir/build.make apps/razers3/CMakeFiles/razers3.dir/build --- apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o --- [ 21%] Building CXX object apps/razers3/CMakeFiles/razers3.dir/razers.cpp.o cd /construction/biology/seqan-apps/.build/apps/razers3 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"3.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/razers3.dir/razers.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3/razers.cpp --- apps/rabema/CMakeFiles/rabema_prepare_sam.dir/all --- --- bin/rabema_prepare_sam --- [ 22%] Linking CXX executable ../../bin/rabema_prepare_sam cd /construction/biology/seqan-apps/.build/apps/rabema && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/rabema_prepare_sam.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/rabema_prepare_sam.dir/prepare_sam.cpp.o -o ../../bin/rabema_prepare_sam -lexecinfo -lelf -lz [ 23%] Built target rabema_prepare_sam --- apps/razers3/CMakeFiles/razers3_quality2prob.dir/all --- /usr/bin/make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/depend --- apps/razers3/CMakeFiles/razers3_quality2prob.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/razers3 /construction/biology/seqan-apps/.build/apps/razers3/CMakeFiles/razers3_quality2prob.dir/DependInfo.cmake Scanning dependencies of target razers3_quality2prob /usr/bin/make -f apps/razers3/CMakeFiles/razers3_quality2prob.dir/build.make apps/razers3/CMakeFiles/razers3_quality2prob.dir/build --- apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o --- [ 23%] Building CXX object apps/razers3/CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o cd /construction/biology/seqan-apps/.build/apps/razers3 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"3.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3/quality2prob.cpp --- apps/rabema/CMakeFiles/rabema_evaluate.dir/all --- --- bin/rabema_evaluate --- [ 23%] Linking CXX executable ../../bin/rabema_evaluate cd /construction/biology/seqan-apps/.build/apps/rabema && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/rabema_evaluate.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/rabema_evaluate.dir/rabema_evaluate.cpp.o -o ../../bin/rabema_evaluate -lexecinfo -lelf -lz [ 24%] Built target rabema_evaluate --- apps/razers/CMakeFiles/razers.dir/all --- --- apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o --- [ 25%] Building CXX object apps/razers/CMakeFiles/razers.dir/param_tabs.cpp.o cd /construction/biology/seqan-apps/.build/apps/razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/razers.dir/param_tabs.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers/param_tabs.cpp --- apps/razers3/CMakeFiles/razers3_simulate_reads.dir/all --- --- bin/razers3_simulate_reads --- [ 26%] Linking CXX executable ../../bin/razers3_simulate_reads cd /construction/biology/seqan-apps/.build/apps/razers3 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/razers3_simulate_reads.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/razers3_simulate_reads.dir/simulate_reads.cpp.o -o ../../bin/razers3_simulate_reads -lexecinfo -lelf -lz -lbz2 [ 26%] Built target razers3_simulate_reads --- apps/rep_sep/CMakeFiles/rep_sep.dir/all --- /usr/bin/make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/depend --- apps/rep_sep/CMakeFiles/rep_sep.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rep_sep /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/rep_sep /construction/biology/seqan-apps/.build/apps/rep_sep/CMakeFiles/rep_sep.dir/DependInfo.cmake Scanning dependencies of target rep_sep /usr/bin/make -f apps/rep_sep/CMakeFiles/rep_sep.dir/build.make apps/rep_sep/CMakeFiles/rep_sep.dir/build --- apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o --- [ 26%] Building CXX object apps/rep_sep/CMakeFiles/rep_sep.dir/rep_sep.cpp.o cd /construction/biology/seqan-apps/.build/apps/rep_sep && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.11\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/rep_sep.dir/rep_sep.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rep_sep/rep_sep.cpp --- apps/sak/CMakeFiles/sak.dir/all --- /usr/bin/make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/depend --- apps/sak/CMakeFiles/sak.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/sak /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/sak /construction/biology/seqan-apps/.build/apps/sak/CMakeFiles/sak.dir/DependInfo.cmake Scanning dependencies of target sak /usr/bin/make -f apps/sak/CMakeFiles/sak.dir/build.make apps/sak/CMakeFiles/sak.dir/build --- apps/sak/CMakeFiles/sak.dir/sak.cpp.o --- [ 27%] Building CXX object apps/sak/CMakeFiles/sak.dir/sak.cpp.o cd /construction/biology/seqan-apps/.build/apps/sak && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.4.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/sak.dir/sak.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/sak/sak.cpp --- apps/razers3/CMakeFiles/razers3_quality2prob.dir/all --- --- bin/razers3_quality2prob --- [ 28%] Linking CXX executable ../../bin/razers3_quality2prob cd /construction/biology/seqan-apps/.build/apps/razers3 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/razers3_quality2prob.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/razers3_quality2prob.dir/quality2prob.cpp.o -o ../../bin/razers3_quality2prob -lexecinfo -lelf -lz -lbz2 [ 28%] Built target razers3_quality2prob --- apps/sam2matrix/CMakeFiles/sam2matrix.dir/all --- /usr/bin/make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend --- apps/sam2matrix/CMakeFiles/sam2matrix.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/sam2matrix /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/sam2matrix /construction/biology/seqan-apps/.build/apps/sam2matrix/CMakeFiles/sam2matrix.dir/DependInfo.cmake Scanning dependencies of target sam2matrix /usr/bin/make -f apps/sam2matrix/CMakeFiles/sam2matrix.dir/build.make apps/sam2matrix/CMakeFiles/sam2matrix.dir/build --- apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o --- [ 28%] Building CXX object apps/sam2matrix/CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o cd /construction/biology/seqan-apps/.build/apps/sam2matrix && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/sam2matrix/sam2matrix.cpp --- apps/razers/CMakeFiles/razers.dir/all --- --- bin/razers --- [ 28%] Linking CXX executable ../../bin/razers cd /construction/biology/seqan-apps/.build/apps/razers && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/razers.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/razers.dir/razers.cpp.o CMakeFiles/razers.dir/param_tabs.cpp.o -o ../../bin/razers -lexecinfo -lelf [ 29%] Built target razers --- apps/samcat/CMakeFiles/samcat.dir/all --- /usr/bin/make -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/depend --- apps/samcat/CMakeFiles/samcat.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/samcat /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/samcat /construction/biology/seqan-apps/.build/apps/samcat/CMakeFiles/samcat.dir/DependInfo.cmake Scanning dependencies of target samcat /usr/bin/make -f apps/samcat/CMakeFiles/samcat.dir/build.make apps/samcat/CMakeFiles/samcat.dir/build --- apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o --- [ 30%] Building CXX object apps/samcat/CMakeFiles/samcat.dir/samcat.cpp.o cd /construction/biology/seqan-apps/.build/apps/samcat && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/samcat.dir/samcat.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/samcat/samcat.cpp --- apps/sak/CMakeFiles/sak.dir/all --- --- bin/sak --- [ 30%] Linking CXX executable ../../bin/sak cd /construction/biology/seqan-apps/.build/apps/sak && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/sak.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/sak.dir/sak.cpp.o -o ../../bin/sak -lexecinfo -lelf [ 31%] Built target sak --- apps/searchjoin/CMakeFiles/s4_join.dir/all --- /usr/bin/make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/depend --- apps/searchjoin/CMakeFiles/s4_join.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/searchjoin /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/searchjoin /construction/biology/seqan-apps/.build/apps/searchjoin/CMakeFiles/s4_join.dir/DependInfo.cmake Scanning dependencies of target s4_join /usr/bin/make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/build --- apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o --- [ 31%] Building CXX object apps/searchjoin/CMakeFiles/s4_join.dir/join.cpp.o cd /construction/biology/seqan-apps/.build/apps/searchjoin && /usr/bin/c++ -DSEARCHJOIN_HUGEDB=TRUE -DSEQAN_APP_VERSION=\"0.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/s4_join.dir/join.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/searchjoin/join.cpp --- apps/rep_sep/CMakeFiles/rep_sep.dir/all --- --- bin/rep_sep --- [ 32%] Linking CXX executable ../../bin/rep_sep cd /construction/biology/seqan-apps/.build/apps/rep_sep && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/rep_sep.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/rep_sep.dir/rep_sep.cpp.o -o ../../bin/rep_sep -lexecinfo -lelf [ 33%] Built target rep_sep --- apps/searchjoin/CMakeFiles/s4_search.dir/all --- /usr/bin/make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/depend --- apps/searchjoin/CMakeFiles/s4_search.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/searchjoin /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/searchjoin /construction/biology/seqan-apps/.build/apps/searchjoin/CMakeFiles/s4_search.dir/DependInfo.cmake Scanning dependencies of target s4_search /usr/bin/make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/build --- apps/searchjoin/CMakeFiles/s4_search.dir/search.cpp.o --- [ 34%] Building CXX object apps/searchjoin/CMakeFiles/s4_search.dir/search.cpp.o cd /construction/biology/seqan-apps/.build/apps/searchjoin && /usr/bin/c++ -DSEARCHJOIN_HUGEDB=TRUE -DSEQAN_APP_VERSION=\"0.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/s4_search.dir/search.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/searchjoin/search.cpp --- apps/sam2matrix/CMakeFiles/sam2matrix.dir/all --- --- bin/sam2matrix --- [ 35%] Linking CXX executable ../../bin/sam2matrix cd /construction/biology/seqan-apps/.build/apps/sam2matrix && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/sam2matrix.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/sam2matrix.dir/sam2matrix.cpp.o -o ../../bin/sam2matrix -lexecinfo -lelf [ 35%] Built target sam2matrix --- apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/all --- /usr/bin/make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend --- apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/seqan_tcoffee /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/seqan_tcoffee /construction/biology/seqan-apps/.build/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/DependInfo.cmake Scanning dependencies of target seqan_tcoffee /usr/bin/make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build --- apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o --- [ 35%] Building CXX object apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o cd /construction/biology/seqan-apps/.build/apps/seqan_tcoffee && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.13.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/seqan_tcoffee/seqan_tcoffee.cpp --- apps/samcat/CMakeFiles/samcat.dir/all --- --- bin/samcat --- [ 35%] Linking CXX executable ../../bin/samcat cd /construction/biology/seqan-apps/.build/apps/samcat && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/samcat.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/samcat.dir/samcat.cpp.o -o ../../bin/samcat -lexecinfo -lelf -lz [ 36%] Built target samcat --- apps/seqcons2/CMakeFiles/seqcons2.dir/all --- /usr/bin/make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/depend --- apps/seqcons2/CMakeFiles/seqcons2.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/seqcons2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/seqcons2 /construction/biology/seqan-apps/.build/apps/seqcons2/CMakeFiles/seqcons2.dir/DependInfo.cmake Scanning dependencies of target seqcons2 /usr/bin/make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/build --- apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons.cpp.o --- [ 36%] Building CXX object apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons.cpp.o cd /construction/biology/seqan-apps/.build/apps/seqcons2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/seqcons2.dir/seqcons.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/seqcons2/seqcons.cpp --- apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons_app.cpp.o --- [ 37%] Building CXX object apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons_app.cpp.o cd /construction/biology/seqan-apps/.build/apps/seqcons2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/seqcons2.dir/seqcons_app.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/seqcons2/seqcons_app.cpp --- apps/searchjoin/CMakeFiles/s4_search.dir/all --- --- bin/s4_search --- [ 38%] Linking CXX executable ../../bin/s4_search cd /construction/biology/seqan-apps/.build/apps/searchjoin && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/s4_search.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/s4_search.dir/search.cpp.o -o ../../bin/s4_search -lexecinfo -lelf [ 38%] Built target s4_search --- apps/sgip/CMakeFiles/sgip.dir/all --- /usr/bin/make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/depend --- apps/sgip/CMakeFiles/sgip.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/sgip /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/sgip /construction/biology/seqan-apps/.build/apps/sgip/CMakeFiles/sgip.dir/DependInfo.cmake Scanning dependencies of target sgip /usr/bin/make -f apps/sgip/CMakeFiles/sgip.dir/build.make apps/sgip/CMakeFiles/sgip.dir/build --- apps/sgip/CMakeFiles/sgip.dir/sgip.cpp.o --- [ 39%] Building CXX object apps/sgip/CMakeFiles/sgip.dir/sgip.cpp.o cd /construction/biology/seqan-apps/.build/apps/sgip && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.4.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/sgip.dir/sgip.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/sgip/sgip.cpp --- apps/searchjoin/CMakeFiles/s4_join.dir/all --- --- bin/s4_join --- [ 40%] Linking CXX executable ../../bin/s4_join cd /construction/biology/seqan-apps/.build/apps/searchjoin && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/s4_join.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/s4_join.dir/join.cpp.o -o ../../bin/s4_join -lexecinfo -lelf [ 40%] Built target s4_join --- apps/snp_store/CMakeFiles/snp_store.dir/all --- /usr/bin/make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/depend --- apps/snp_store/CMakeFiles/snp_store.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/snp_store /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/snp_store /construction/biology/seqan-apps/.build/apps/snp_store/CMakeFiles/snp_store.dir/DependInfo.cmake Scanning dependencies of target snp_store /usr/bin/make -f apps/snp_store/CMakeFiles/snp_store.dir/build.make apps/snp_store/CMakeFiles/snp_store.dir/build --- apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o --- [ 40%] Building CXX object apps/snp_store/CMakeFiles/snp_store.dir/snp_store.cpp.o cd /construction/biology/seqan-apps/.build/apps/snp_store && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/snp_store.dir/snp_store.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/snp_store/snp_store.cpp --- apps/seqcons2/CMakeFiles/seqcons2.dir/all --- --- apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons_options.cpp.o --- [ 40%] Building CXX object apps/seqcons2/CMakeFiles/seqcons2.dir/seqcons_options.cpp.o cd /construction/biology/seqan-apps/.build/apps/seqcons2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/seqcons2.dir/seqcons_options.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/seqcons2/seqcons_options.cpp --- apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/all --- --- bin/seqan_tcoffee --- [ 41%] Linking CXX executable ../../bin/seqan_tcoffee cd /construction/biology/seqan-apps/.build/apps/seqan_tcoffee && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/seqan_tcoffee.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/seqan_tcoffee.dir/seqan_tcoffee.cpp.o -o ../../bin/seqan_tcoffee -lexecinfo -lelf [ 42%] Built target seqan_tcoffee --- apps/splazers/CMakeFiles/splazers.dir/all --- /usr/bin/make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/depend --- apps/splazers/CMakeFiles/splazers.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/splazers /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/splazers /construction/biology/seqan-apps/.build/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake Scanning dependencies of target splazers /usr/bin/make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build --- apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o --- [ 43%] Building CXX object apps/splazers/CMakeFiles/splazers.dir/splazers.cpp.o cd /construction/biology/seqan-apps/.build/apps/splazers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/splazers.dir/splazers.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/splazers/splazers.cpp --- apps/sgip/CMakeFiles/sgip.dir/all --- --- bin/sgip --- [ 43%] Linking CXX executable ../../bin/sgip cd /construction/biology/seqan-apps/.build/apps/sgip && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/sgip.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/sgip.dir/sgip.cpp.o -o ../../bin/sgip -lexecinfo -lelf [ 44%] Built target sgip --- apps/stellar/CMakeFiles/stellar.dir/all --- /usr/bin/make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/depend --- apps/stellar/CMakeFiles/stellar.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/stellar /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/stellar /construction/biology/seqan-apps/.build/apps/stellar/CMakeFiles/stellar.dir/DependInfo.cmake Scanning dependencies of target stellar /usr/bin/make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/build --- apps/stellar/CMakeFiles/stellar.dir/stellar.cpp.o --- [ 45%] Building CXX object apps/stellar/CMakeFiles/stellar.dir/stellar.cpp.o cd /construction/biology/seqan-apps/.build/apps/stellar && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.4.11\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/stellar.dir/stellar.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/stellar/stellar.cpp --- apps/seqcons2/CMakeFiles/seqcons2.dir/all --- --- bin/seqcons2 --- [ 46%] Linking CXX executable ../../bin/seqcons2 cd /construction/biology/seqan-apps/.build/apps/seqcons2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/seqcons2.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/seqcons2.dir/seqcons.cpp.o CMakeFiles/seqcons2.dir/seqcons_app.cpp.o CMakeFiles/seqcons2.dir/seqcons_options.cpp.o -o ../../bin/seqcons2 -lexecinfo -lelf -lz [ 46%] Built target seqcons2 --- apps/tree_recon/CMakeFiles/tree_recon.dir/all --- /usr/bin/make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/depend --- apps/tree_recon/CMakeFiles/tree_recon.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/tree_recon /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/tree_recon /construction/biology/seqan-apps/.build/apps/tree_recon/CMakeFiles/tree_recon.dir/DependInfo.cmake Scanning dependencies of target tree_recon /usr/bin/make -f apps/tree_recon/CMakeFiles/tree_recon.dir/build.make apps/tree_recon/CMakeFiles/tree_recon.dir/build --- apps/tree_recon/CMakeFiles/tree_recon.dir/tree_recon.cpp.o --- [ 46%] Building CXX object apps/tree_recon/CMakeFiles/tree_recon.dir/tree_recon.cpp.o cd /construction/biology/seqan-apps/.build/apps/tree_recon && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.4.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/tree_recon.dir/tree_recon.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/tree_recon/tree_recon.cpp --- bin/tree_recon --- [ 47%] Linking CXX executable ../../bin/tree_recon cd /construction/biology/seqan-apps/.build/apps/tree_recon && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/tree_recon.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/tree_recon.dir/tree_recon.cpp.o -o ../../bin/tree_recon -lexecinfo -lelf [ 47%] Built target tree_recon --- apps/yara/CMakeFiles/yara_mapper.dir/all --- /usr/bin/make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/depend --- apps/yara/CMakeFiles/yara_mapper.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/yara /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/yara /construction/biology/seqan-apps/.build/apps/yara/CMakeFiles/yara_mapper.dir/DependInfo.cmake Scanning dependencies of target yara_mapper /usr/bin/make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/build --- apps/yara/CMakeFiles/yara_mapper.dir/mapper.cpp.o --- [ 47%] Building CXX object apps/yara/CMakeFiles/yara_mapper.dir/mapper.cpp.o cd /construction/biology/seqan-apps/.build/apps/yara && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.9.11\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DYARA_LARGE_CONTIGS=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/yara_mapper.dir/mapper.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/yara/mapper.cpp --- apps/snp_store/CMakeFiles/snp_store.dir/all --- --- bin/snp_store --- [ 48%] Linking CXX executable ../../bin/snp_store cd /construction/biology/seqan-apps/.build/apps/snp_store && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/snp_store.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/snp_store.dir/snp_store.cpp.o -o ../../bin/snp_store -lexecinfo -lelf -lz [ 48%] Built target snp_store --- apps/yara/CMakeFiles/yara_indexer.dir/all --- /usr/bin/make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/depend --- apps/yara/CMakeFiles/yara_indexer.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/yara /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/yara /construction/biology/seqan-apps/.build/apps/yara/CMakeFiles/yara_indexer.dir/DependInfo.cmake Scanning dependencies of target yara_indexer /usr/bin/make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/build --- apps/yara/CMakeFiles/yara_indexer.dir/indexer.cpp.o --- [ 49%] Building CXX object apps/yara/CMakeFiles/yara_indexer.dir/indexer.cpp.o cd /construction/biology/seqan-apps/.build/apps/yara && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.9.11\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -DYARA_LARGE_CONTIGS=1 -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/yara_indexer.dir/indexer.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/yara/indexer.cpp --- apps/splazers/CMakeFiles/splazers.dir/all --- --- bin/splazers --- [ 49%] Linking CXX executable ../../bin/splazers cd /construction/biology/seqan-apps/.build/apps/splazers && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/splazers.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/splazers.dir/splazers.cpp.o -o ../../bin/splazers -lexecinfo -lelf [ 50%] Built target splazers --- apps/alf/CMakeFiles/alf.dir/all --- /usr/bin/make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend --- apps/alf/CMakeFiles/alf.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/alf /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/alf /construction/biology/seqan-apps/.build/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake Scanning dependencies of target alf /usr/bin/make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/build --- apps/alf/CMakeFiles/alf.dir/alf.cpp.o --- [ 50%] Building CXX object apps/alf/CMakeFiles/alf.dir/alf.cpp.o cd /construction/biology/seqan-apps/.build/apps/alf && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/alf.dir/alf.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/alf/alf.cpp --- apps/razers3/CMakeFiles/razers3.dir/all --- --- apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o --- [ 51%] Building CXX object apps/razers3/CMakeFiles/razers3.dir/param_tabs.cpp.o cd /construction/biology/seqan-apps/.build/apps/razers3 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"3.5.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_BZIP2=1 -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/razers3.dir/param_tabs.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3/param_tabs.cpp --- bin/razers3 --- [ 51%] Linking CXX executable ../../bin/razers3 cd /construction/biology/seqan-apps/.build/apps/razers3 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/razers3.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/razers3.dir/razers.cpp.o CMakeFiles/razers3.dir/param_tabs.cpp.o -o ../../bin/razers3 -lexecinfo -lelf -lz -lbz2 [ 52%] Built target razers3 --- apps/bs_tools/CMakeFiles/casbar.dir/all --- /usr/bin/make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/depend --- apps/bs_tools/CMakeFiles/casbar.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/bs_tools /construction/biology/seqan-apps/.build/apps/bs_tools/CMakeFiles/casbar.dir/DependInfo.cmake Scanning dependencies of target casbar /usr/bin/make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/build --- apps/bs_tools/CMakeFiles/casbar.dir/casbar.cpp.o --- [ 52%] Building CXX object apps/bs_tools/CMakeFiles/casbar.dir/casbar.cpp.o cd /construction/biology/seqan-apps/.build/apps/bs_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/casbar.dir/casbar.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools/casbar.cpp --- apps/stellar/CMakeFiles/stellar.dir/all --- --- bin/stellar --- [ 52%] Linking CXX executable ../../bin/stellar cd /construction/biology/seqan-apps/.build/apps/stellar && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/stellar.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/stellar.dir/stellar.cpp.o -o ../../bin/stellar -lexecinfo -lelf [ 53%] Built target stellar --- apps/bs_tools/CMakeFiles/bisar.dir/all --- /usr/bin/make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend --- apps/bs_tools/CMakeFiles/bisar.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/bs_tools /construction/biology/seqan-apps/.build/apps/bs_tools/CMakeFiles/bisar.dir/DependInfo.cmake Scanning dependencies of target bisar /usr/bin/make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/build --- apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o --- [ 54%] Building CXX object apps/bs_tools/CMakeFiles/bisar.dir/bisar.cpp.o cd /construction/biology/seqan-apps/.build/apps/bs_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/bisar.dir/bisar.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools/bisar.cpp --- apps/alf/CMakeFiles/alf.dir/all --- --- bin/alf --- [ 55%] Linking CXX executable ../../bin/alf cd /construction/biology/seqan-apps/.build/apps/alf && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/alf.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/alf.dir/alf.cpp.o -o ../../bin/alf -lexecinfo -lelf [ 55%] Built target alf --- apps/bs_tools/CMakeFiles/four2three.dir/all --- /usr/bin/make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/depend --- apps/bs_tools/CMakeFiles/four2three.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/bs_tools /construction/biology/seqan-apps/.build/apps/bs_tools/CMakeFiles/four2three.dir/DependInfo.cmake Scanning dependencies of target four2three /usr/bin/make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/build --- apps/bs_tools/CMakeFiles/four2three.dir/four2three.cpp.o --- [ 56%] Building CXX object apps/bs_tools/CMakeFiles/four2three.dir/four2three.cpp.o cd /construction/biology/seqan-apps/.build/apps/bs_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/four2three.dir/four2three.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools/four2three.cpp --- bin/four2three --- [ 56%] Linking CXX executable ../../bin/four2three cd /construction/biology/seqan-apps/.build/apps/bs_tools && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/four2three.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/four2three.dir/four2three.cpp.o -o ../../bin/four2three -lexecinfo -lelf -lz [ 57%] Built target four2three --- apps/dfi/CMakeFiles/dfi.dir/all --- /usr/bin/make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/depend --- apps/dfi/CMakeFiles/dfi.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/dfi /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/dfi /construction/biology/seqan-apps/.build/apps/dfi/CMakeFiles/dfi.dir/DependInfo.cmake Scanning dependencies of target dfi /usr/bin/make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/build --- apps/dfi/CMakeFiles/dfi.dir/dfi.cpp.o --- [ 58%] Building CXX object apps/dfi/CMakeFiles/dfi.dir/dfi.cpp.o cd /construction/biology/seqan-apps/.build/apps/dfi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/dfi.dir/dfi.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/dfi/dfi.cpp --- apps/bs_tools/CMakeFiles/casbar.dir/all --- --- bin/casbar --- [ 59%] Linking CXX executable ../../bin/casbar cd /construction/biology/seqan-apps/.build/apps/bs_tools && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/casbar.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/casbar.dir/casbar.cpp.o -o ../../bin/casbar -lexecinfo -lelf -lz [ 59%] Built target casbar --- apps/fiona/CMakeFiles/fiona.dir/all --- /usr/bin/make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/depend --- apps/fiona/CMakeFiles/fiona.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fiona /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/fiona /construction/biology/seqan-apps/.build/apps/fiona/CMakeFiles/fiona.dir/DependInfo.cmake Scanning dependencies of target fiona /usr/bin/make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/build --- apps/fiona/CMakeFiles/fiona.dir/fiona.cpp.o --- [ 59%] Building CXX object apps/fiona/CMakeFiles/fiona.dir/fiona.cpp.o cd /construction/biology/seqan-apps/.build/apps/fiona && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/fiona.dir/fiona.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fiona/fiona.cpp --- apps/bs_tools/CMakeFiles/bisar.dir/all --- --- bin/bisar --- [ 59%] Linking CXX executable ../../bin/bisar cd /construction/biology/seqan-apps/.build/apps/bs_tools && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/bisar.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/bisar.dir/bisar.cpp.o -o ../../bin/bisar -lexecinfo -lelf -lz [ 60%] Built target bisar --- apps/fiona/CMakeFiles/compute_gain.dir/all --- /usr/bin/make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/depend --- apps/fiona/CMakeFiles/compute_gain.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fiona /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/fiona /construction/biology/seqan-apps/.build/apps/fiona/CMakeFiles/compute_gain.dir/DependInfo.cmake Scanning dependencies of target compute_gain /usr/bin/make -f apps/fiona/CMakeFiles/compute_gain.dir/build.make apps/fiona/CMakeFiles/compute_gain.dir/build --- apps/fiona/CMakeFiles/compute_gain.dir/compute_gain.cpp.o --- [ 61%] Building CXX object apps/fiona/CMakeFiles/compute_gain.dir/compute_gain.cpp.o cd /construction/biology/seqan-apps/.build/apps/fiona && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/compute_gain.dir/compute_gain.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fiona/compute_gain.cpp --- apps/dfi/CMakeFiles/dfi.dir/all --- --- bin/dfi --- [ 61%] Linking CXX executable ../../bin/dfi cd /construction/biology/seqan-apps/.build/apps/dfi && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/dfi.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/dfi.dir/dfi.cpp.o -o ../../bin/dfi -lexecinfo -lelf [ 62%] Built target dfi --- apps/fiona/CMakeFiles/fiona_illumina.dir/all --- /usr/bin/make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/depend --- apps/fiona/CMakeFiles/fiona_illumina.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fiona /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/fiona /construction/biology/seqan-apps/.build/apps/fiona/CMakeFiles/fiona_illumina.dir/DependInfo.cmake Scanning dependencies of target fiona_illumina /usr/bin/make -f apps/fiona/CMakeFiles/fiona_illumina.dir/build.make apps/fiona/CMakeFiles/fiona_illumina.dir/build --- apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o --- [ 63%] Building CXX object apps/fiona/CMakeFiles/fiona_illumina.dir/fiona.cpp.o cd /construction/biology/seqan-apps/.build/apps/fiona && /usr/bin/c++ -DFIONA_ILLUMINA -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/fiona_illumina.dir/fiona.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fiona/fiona.cpp --- apps/yara/CMakeFiles/yara_indexer.dir/all --- --- bin/yara_indexer --- [ 63%] Linking CXX executable ../../bin/yara_indexer cd /construction/biology/seqan-apps/.build/apps/yara && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/yara_indexer.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/yara_indexer.dir/indexer.cpp.o -o ../../bin/yara_indexer -lexecinfo -lelf -lz -lbz2 [ 64%] Built target yara_indexer --- apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/all --- /usr/bin/make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend --- apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fx_tools /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/fx_tools /construction/biology/seqan-apps/.build/apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/DependInfo.cmake Scanning dependencies of target fx_fastq_stats /usr/bin/make -f apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build.make apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/build --- apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o --- [ 64%] Building CXX object apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o cd /construction/biology/seqan-apps/.build/apps/fx_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fx_tools/fx_fastq_stats.cpp --- apps/fiona/CMakeFiles/compute_gain.dir/all --- --- bin/compute_gain --- [ 65%] Linking CXX executable ../../bin/compute_gain cd /construction/biology/seqan-apps/.build/apps/fiona && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/compute_gain.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/compute_gain.dir/compute_gain.cpp.o -o ../../bin/compute_gain -lexecinfo -lelf -lz [ 65%] Built target compute_gain --- apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/all --- /usr/bin/make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/depend --- apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fx_tools /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/fx_tools /construction/biology/seqan-apps/.build/apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/DependInfo.cmake Scanning dependencies of target fx_bam_coverage /usr/bin/make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build --- apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o --- [ 65%] Building CXX object apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o cd /construction/biology/seqan-apps/.build/apps/fx_tools && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fx_tools/fx_bam_coverage.cpp --- apps/fx_tools/CMakeFiles/fx_fastq_stats.dir/all --- --- bin/fx_fastq_stats --- [ 66%] Linking CXX executable ../../bin/fx_fastq_stats cd /construction/biology/seqan-apps/.build/apps/fx_tools && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/fx_fastq_stats.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/fx_fastq_stats.dir/fx_fastq_stats.cpp.o -o ../../bin/fx_fastq_stats -lexecinfo -lelf [ 66%] Built target fx_fastq_stats --- apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/all --- /usr/bin/make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/depend --- apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/gustaf /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/gustaf /construction/biology/seqan-apps/.build/apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/DependInfo.cmake Scanning dependencies of target gustaf_mate_joining /usr/bin/make -f apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build.make apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/build --- apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o --- [ 67%] Building CXX object apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o cd /construction/biology/seqan-apps/.build/apps/gustaf && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/gustaf/join_mates.cpp --- apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/all --- --- bin/fx_bam_coverage --- [ 68%] Linking CXX executable ../../bin/fx_bam_coverage cd /construction/biology/seqan-apps/.build/apps/fx_tools && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/fx_bam_coverage.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/fx_bam_coverage.dir/fx_bam_coverage.cpp.o -o ../../bin/fx_bam_coverage -lexecinfo -lelf [ 69%] Built target fx_bam_coverage --- apps/gustaf/CMakeFiles/gustaf.dir/all --- /usr/bin/make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/depend --- apps/gustaf/CMakeFiles/gustaf.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/gustaf /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/gustaf /construction/biology/seqan-apps/.build/apps/gustaf/CMakeFiles/gustaf.dir/DependInfo.cmake Scanning dependencies of target gustaf /usr/bin/make -f apps/gustaf/CMakeFiles/gustaf.dir/build.make apps/gustaf/CMakeFiles/gustaf.dir/build --- apps/gustaf/CMakeFiles/gustaf.dir/gustaf.cpp.o --- [ 69%] Building CXX object apps/gustaf/CMakeFiles/gustaf.dir/gustaf.cpp.o cd /construction/biology/seqan-apps/.build/apps/gustaf && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/gustaf.dir/gustaf.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/gustaf/gustaf.cpp --- apps/fiona/CMakeFiles/fiona.dir/all --- --- bin/fiona --- [ 70%] Linking CXX executable ../../bin/fiona cd /construction/biology/seqan-apps/.build/apps/fiona && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/fiona.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/fiona.dir/fiona.cpp.o -o ../../bin/fiona -lexecinfo -lelf -lz [ 70%] Built target fiona --- apps/insegt/CMakeFiles/insegt.dir/all --- /usr/bin/make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/depend --- apps/insegt/CMakeFiles/insegt.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/insegt /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/insegt /construction/biology/seqan-apps/.build/apps/insegt/CMakeFiles/insegt.dir/DependInfo.cmake Scanning dependencies of target insegt /usr/bin/make -f apps/insegt/CMakeFiles/insegt.dir/build.make apps/insegt/CMakeFiles/insegt.dir/build --- apps/insegt/CMakeFiles/insegt.dir/insegt.cpp.o --- [ 70%] Building CXX object apps/insegt/CMakeFiles/insegt.dir/insegt.cpp.o cd /construction/biology/seqan-apps/.build/apps/insegt && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.1.10\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/insegt.dir/insegt.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/insegt/insegt.cpp --- apps/gustaf/CMakeFiles/gustaf_mate_joining.dir/all --- --- bin/gustaf_mate_joining --- [ 70%] Linking CXX executable ../../bin/gustaf_mate_joining cd /construction/biology/seqan-apps/.build/apps/gustaf && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/gustaf_mate_joining.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/gustaf_mate_joining.dir/join_mates.cpp.o -o ../../bin/gustaf_mate_joining -lexecinfo -lelf [ 71%] Built target gustaf_mate_joining --- apps/micro_razers/CMakeFiles/micro_razers.dir/all --- /usr/bin/make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/depend --- apps/micro_razers/CMakeFiles/micro_razers.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/micro_razers /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/micro_razers /construction/biology/seqan-apps/.build/apps/micro_razers/CMakeFiles/micro_razers.dir/DependInfo.cmake Scanning dependencies of target micro_razers /usr/bin/make -f apps/micro_razers/CMakeFiles/micro_razers.dir/build.make apps/micro_razers/CMakeFiles/micro_razers.dir/build --- apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o --- [ 71%] Building CXX object apps/micro_razers/CMakeFiles/micro_razers.dir/micro_razers.cpp.o cd /construction/biology/seqan-apps/.build/apps/micro_razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.11\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/micro_razers.dir/micro_razers.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/micro_razers/micro_razers.cpp --- apps/fiona/CMakeFiles/fiona_illumina.dir/all --- --- bin/fiona_illumina --- [ 71%] Linking CXX executable ../../bin/fiona_illumina cd /construction/biology/seqan-apps/.build/apps/fiona && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/fiona_illumina.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/fiona_illumina.dir/fiona.cpp.o -o ../../bin/fiona_illumina -lexecinfo -lelf -lz [ 71%] Built target fiona_illumina --- apps/ngs_roi/CMakeFiles/bam2roi.dir/all --- /usr/bin/make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.dir/depend --- apps/ngs_roi/CMakeFiles/bam2roi.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/ngs_roi /construction/biology/seqan-apps/.build/apps/ngs_roi/CMakeFiles/bam2roi.dir/DependInfo.cmake Scanning dependencies of target bam2roi /usr/bin/make -f apps/ngs_roi/CMakeFiles/bam2roi.dir/build.make apps/ngs_roi/CMakeFiles/bam2roi.dir/build --- apps/ngs_roi/CMakeFiles/bam2roi.dir/bam2roi.cpp.o --- [ 72%] Building CXX object apps/ngs_roi/CMakeFiles/bam2roi.dir/bam2roi.cpp.o cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/bam2roi.dir/bam2roi.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi/bam2roi.cpp --- apps/insegt/CMakeFiles/insegt.dir/all --- --- bin/insegt --- [ 73%] Linking CXX executable ../../bin/insegt cd /construction/biology/seqan-apps/.build/apps/insegt && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/insegt.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/insegt.dir/insegt.cpp.o -o ../../bin/insegt -lexecinfo -lelf [ 73%] Built target insegt --- apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/all --- /usr/bin/make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend --- apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/ngs_roi /construction/biology/seqan-apps/.build/apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/DependInfo.cmake Scanning dependencies of target roi_plot_thumbnails /usr/bin/make -f apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build.make apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/build --- apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o --- [ 74%] Building CXX object apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi/roi_plot_thumbnails.cpp --- apps/gustaf/CMakeFiles/gustaf.dir/all --- --- bin/gustaf --- [ 75%] Linking CXX executable ../../bin/gustaf cd /construction/biology/seqan-apps/.build/apps/gustaf && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/gustaf.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/gustaf.dir/gustaf.cpp.o -o ../../bin/gustaf -lexecinfo -lelf [ 75%] Built target gustaf --- apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/all --- /usr/bin/make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend --- apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/ngs_roi /construction/biology/seqan-apps/.build/apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/DependInfo.cmake Scanning dependencies of target roi_feature_projection /usr/bin/make -f apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build.make apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/build --- apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o --- [ 75%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi/roi_feature_projection.cpp --- apps/micro_razers/CMakeFiles/micro_razers.dir/all --- --- apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o --- [ 76%] Building CXX object apps/micro_razers/CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o cd /construction/biology/seqan-apps/.build/apps/micro_razers && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.0.11\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers/param_tabs.cpp --- apps/ngs_roi/CMakeFiles/bam2roi.dir/all --- --- apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o --- [ 76%] Building CXX object apps/ngs_roi/CMakeFiles/bam2roi.dir/roi_builder.cpp.o cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi/roi_builder.cpp --- apps/micro_razers/CMakeFiles/micro_razers.dir/all --- --- bin/micro_razers --- [ 76%] Linking CXX executable ../../bin/micro_razers cd /construction/biology/seqan-apps/.build/apps/micro_razers && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/micro_razers.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/micro_razers.dir/micro_razers.cpp.o CMakeFiles/micro_razers.dir/__/razers/param_tabs.cpp.o -o ../../bin/micro_razers -lexecinfo -lelf [ 77%] Built target micro_razers --- apps/mason2/CMakeFiles/mason_materializer.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/depend --- apps/mason2/CMakeFiles/mason_materializer.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_materializer.dir/DependInfo.cmake Scanning dependencies of target mason_materializer /usr/bin/make -f apps/mason2/CMakeFiles/mason_materializer.dir/build.make apps/mason2/CMakeFiles/mason_materializer.dir/build --- apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o --- [ 77%] Building CXX object apps/mason2/CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_materializer.cpp --- apps/ngs_roi/CMakeFiles/roi_plot_thumbnails.dir/all --- --- bin/roi_plot_thumbnails --- [ 77%] Linking CXX executable ../../bin/roi_plot_thumbnails cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/roi_plot_thumbnails.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/roi_plot_thumbnails.dir/roi_plot_thumbnails.cpp.o -o ../../bin/roi_plot_thumbnails -lexecinfo -lelf -lz [ 78%] Built target roi_plot_thumbnails --- apps/mason2/CMakeFiles/mason_methylation.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/depend --- apps/mason2/CMakeFiles/mason_methylation.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_methylation.dir/DependInfo.cmake Scanning dependencies of target mason_methylation /usr/bin/make -f apps/mason2/CMakeFiles/mason_methylation.dir/build.make apps/mason2/CMakeFiles/mason_methylation.dir/build --- apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o --- [ 79%] Building CXX object apps/mason2/CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_methylation.cpp --- apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/all --- --- apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o --- [ 80%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi/project_spliced.cpp --- apps/ngs_roi/CMakeFiles/bam2roi.dir/all --- --- bin/bam2roi --- [ 81%] Linking CXX executable ../../bin/bam2roi cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/bam2roi.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/bam2roi.dir/bam2roi.cpp.o CMakeFiles/bam2roi.dir/roi_builder.cpp.o -o ../../bin/bam2roi -lexecinfo -lelf -lz [ 81%] Built target bam2roi --- apps/mason2/CMakeFiles/mason_simulator.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/depend --- apps/mason2/CMakeFiles/mason_simulator.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_simulator.dir/DependInfo.cmake Scanning dependencies of target mason_simulator /usr/bin/make -f apps/mason2/CMakeFiles/mason_simulator.dir/build.make apps/mason2/CMakeFiles/mason_simulator.dir/build --- apps/mason2/CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o --- [ 81%] Building CXX object apps/mason2/CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_simulator.cpp --- apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/all --- --- apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o --- [ 81%] Building CXX object apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/bin/c++ -DSEQAN_APP_VERSION=\"0.2.12\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi/project_interval.cpp --- apps/mason2/CMakeFiles/mason_materializer.dir/all --- --- bin/mason_materializer --- [ 82%] Linking CXX executable ../../bin/mason_materializer cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_materializer.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/mason_materializer.dir/mason_materializer.cpp.o -o ../../bin/mason_materializer -lexecinfo -lelf -lz libmason_sim.a -lexecinfo -lelf -lz [ 82%] Built target mason_materializer --- apps/mason2/CMakeFiles/mason_splicing.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/depend --- apps/mason2/CMakeFiles/mason_splicing.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_splicing.dir/DependInfo.cmake Scanning dependencies of target mason_splicing /usr/bin/make -f apps/mason2/CMakeFiles/mason_splicing.dir/build.make apps/mason2/CMakeFiles/mason_splicing.dir/build --- apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o --- [ 83%] Building CXX object apps/mason2/CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_splicing.cpp --- apps/ngs_roi/CMakeFiles/roi_feature_projection.dir/all --- --- bin/roi_feature_projection --- [ 84%] Linking CXX executable ../../bin/roi_feature_projection cd /construction/biology/seqan-apps/.build/apps/ngs_roi && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/roi_feature_projection.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/roi_feature_projection.dir/roi_feature_projection.cpp.o CMakeFiles/roi_feature_projection.dir/project_spliced.cpp.o CMakeFiles/roi_feature_projection.dir/project_interval.cpp.o -o ../../bin/roi_feature_projection -lexecinfo -lelf -lz [ 84%] Built target roi_feature_projection --- apps/mason2/CMakeFiles/mason_frag_sequencing.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend --- apps/mason2/CMakeFiles/mason_frag_sequencing.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_frag_sequencing.dir/DependInfo.cmake Scanning dependencies of target mason_frag_sequencing /usr/bin/make -f apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build.make apps/mason2/CMakeFiles/mason_frag_sequencing.dir/build --- apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o --- [ 85%] Building CXX object apps/mason2/CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_frag_sequencing.cpp --- apps/mason2/CMakeFiles/mason_methylation.dir/all --- --- bin/mason_methylation --- [ 85%] Linking CXX executable ../../bin/mason_methylation cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_methylation.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/mason_methylation.dir/mason_methylation.cpp.o -o ../../bin/mason_methylation -lexecinfo -lelf -lz libmason_sim.a -lexecinfo -lelf -lz [ 86%] Built target mason_methylation --- apps/mason2/CMakeFiles/mason_variator.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/depend --- apps/mason2/CMakeFiles/mason_variator.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_variator.dir/DependInfo.cmake Scanning dependencies of target mason_variator /usr/bin/make -f apps/mason2/CMakeFiles/mason_variator.dir/build.make apps/mason2/CMakeFiles/mason_variator.dir/build --- apps/mason2/CMakeFiles/mason_variator.dir/mason_variator.cpp.o --- [ 87%] Building CXX object apps/mason2/CMakeFiles/mason_variator.dir/mason_variator.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_variator.dir/mason_variator.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_variator.cpp --- apps/mason2/CMakeFiles/mason_simulator.dir/all --- --- bin/mason_simulator --- [ 88%] Linking CXX executable ../../bin/mason_simulator cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_simulator.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/mason_simulator.dir/mason_simulator.cpp.o -o ../../bin/mason_simulator -lexecinfo -lelf -lz libmason_sim.a -lexecinfo -lelf -lz [ 88%] Built target mason_simulator --- apps/mason2/CMakeFiles/mason_genome.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/depend --- apps/mason2/CMakeFiles/mason_genome.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_genome.dir/DependInfo.cmake Scanning dependencies of target mason_genome /usr/bin/make -f apps/mason2/CMakeFiles/mason_genome.dir/build.make apps/mason2/CMakeFiles/mason_genome.dir/build --- apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o --- [ 89%] Building CXX object apps/mason2/CMakeFiles/mason_genome.dir/mason_genome.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_genome.dir/mason_genome.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_genome.cpp --- apps/mason2/CMakeFiles/mason_splicing.dir/all --- --- bin/mason_splicing --- [ 89%] Linking CXX executable ../../bin/mason_splicing cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_splicing.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/mason_splicing.dir/mason_splicing.cpp.o -o ../../bin/mason_splicing -lexecinfo -lelf -lz libmason_sim.a -lexecinfo -lelf -lz [ 90%] Built target mason_splicing --- apps/mason2/CMakeFiles/mason_tests.dir/all --- /usr/bin/make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/depend --- apps/mason2/CMakeFiles/mason_tests.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/mason2 /construction/biology/seqan-apps/.build/apps/mason2/CMakeFiles/mason_tests.dir/DependInfo.cmake Scanning dependencies of target mason_tests /usr/bin/make -f apps/mason2/CMakeFiles/mason_tests.dir/build.make apps/mason2/CMakeFiles/mason_tests.dir/build --- apps/mason2/CMakeFiles/mason_tests.dir/mason_tests.cpp.o --- [ 90%] Building CXX object apps/mason2/CMakeFiles/mason_tests.dir/mason_tests.cpp.o cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/bin/c++ -DSEQAN_APP_VERSION=\"2.0.9\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_HAS_OPENMP=1 -DSEQAN_HAS_ZLIB=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/mason_tests.dir/mason_tests.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/mason2/mason_tests.cpp --- apps/mason2/CMakeFiles/mason_frag_sequencing.dir/all --- --- bin/mason_frag_sequencing --- [ 90%] Linking CXX executable ../../bin/mason_frag_sequencing cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_frag_sequencing.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/mason_frag_sequencing.dir/mason_frag_sequencing.cpp.o -o ../../bin/mason_frag_sequencing -lexecinfo -lelf -lz libmason_sim.a -lexecinfo -lelf -lz [ 91%] Built target mason_frag_sequencing --- apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/all --- /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/depend --- apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align/lib /construction/biology/seqan-apps/.build/apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/DependInfo.cmake Scanning dependencies of target pair_align_lib /usr/bin/make -f apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build.make apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/build --- apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o --- [ 92%] Building CXX object apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/lib/pair_align_lib.cpp --- apps/mason2/CMakeFiles/mason_genome.dir/all --- --- bin/mason_genome --- [ 92%] Linking CXX executable ../../bin/mason_genome cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_genome.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/mason_genome.dir/mason_genome.cpp.o -o ../../bin/mason_genome -lexecinfo -lelf -lz libmason_sim.a -lexecinfo -lelf -lz [ 93%] Built target mason_genome --- apps/mason2/CMakeFiles/mason_variator.dir/all --- --- bin/mason_variator --- [ 93%] Linking CXX executable ../../bin/mason_variator cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_variator.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/mason_variator.dir/mason_variator.cpp.o -o ../../bin/mason_variator -lexecinfo -lelf -lz libmason_sim.a -lexecinfo -lelf -lz [ 94%] Built target mason_variator --- apps/pair_align/lib/CMakeFiles/pair_align_lib.dir/all --- --- apps/pair_align/lib/libpair_align_lib.a --- [ 95%] Linking CXX static library libpair_align_lib.a cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/local/bin/cmake -P CMakeFiles/pair_align_lib.dir/cmake_clean_target.cmake cd /construction/biology/seqan-apps/.build/apps/pair_align/lib && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/pair_align_lib.dir/link.txt --verbose=1 /usr/bin/ar qc libpair_align_lib.a CMakeFiles/pair_align_lib.dir/pair_align_lib.cpp.o CMakeFiles/pair_align_lcs.dir/pair_align_lcs.cpp.o CMakeFiles/pair_align_local.dir/pair_align_local.cpp.o CMakeFiles/pair_align_global_0000.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0001.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0010.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0011.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0100.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0101.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0110.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_0111.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1000.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1001.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1010.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1011.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1100.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1101.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1110.dir/pair_align_global.cpp.o CMakeFiles/pair_align_global_1111.dir/pair_align_global.cpp.o /usr/bin/ranlib libpair_align_lib.a [ 95%] Built target pair_align_lib --- apps/pair_align/CMakeFiles/pair_align.dir/all --- /usr/bin/make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/depend --- apps/pair_align/CMakeFiles/pair_align.dir/depend --- cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/pair_align /construction/biology/seqan-apps/.build/apps/pair_align/CMakeFiles/pair_align.dir/DependInfo.cmake Scanning dependencies of target pair_align /usr/bin/make -f apps/pair_align/CMakeFiles/pair_align.dir/build.make apps/pair_align/CMakeFiles/pair_align.dir/build --- apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o --- [ 95%] Building CXX object apps/pair_align/CMakeFiles/pair_align.dir/pair_align.cpp.o cd /construction/biology/seqan-apps/.build/apps/pair_align && /usr/bin/c++ -DSEQAN_APP_VERSION=\"1.3.8\" -DSEQAN_DATE=\"\" -DSEQAN_HAS_EXECINFO=1 -DSEQAN_REVISION=\"tarball\" -D_FILE_OFFSET_BITS=64 -D_GLIBCXX_USE_C99=1 -D_LARGEFILE_SOURCE -I/construction/biology/seqan-apps/seqan-seqan-v2.4.0/include -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -DSEQAN_GLOBAL_EXCEPTION_HANDLER=1 -o CMakeFiles/pair_align.dir/pair_align.cpp.o -c /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/pair_align/pair_align.cpp --- apps/mason2/CMakeFiles/mason_tests.dir/all --- --- bin/mason_tests --- [ 96%] Linking CXX executable ../../bin/mason_tests cd /construction/biology/seqan-apps/.build/apps/mason2 && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/mason_tests.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/mason_tests.dir/mason_tests.cpp.o -o ../../bin/mason_tests -lexecinfo -lelf -lz libmason_sim.a -lexecinfo -lelf -lz [ 96%] Built target mason_tests --- apps/pair_align/CMakeFiles/pair_align.dir/all --- --- bin/pair_align --- [ 97%] Linking CXX executable ../../bin/pair_align cd /construction/biology/seqan-apps/.build/apps/pair_align && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/pair_align.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/pair_align.dir/pair_align.cpp.o -o ../../bin/pair_align lib/libpair_align_lib.a -lexecinfo -lelf [ 97%] Built target pair_align --- apps/yara/CMakeFiles/yara_mapper.dir/all --- --- bin/yara_mapper --- [ 98%] Linking CXX executable ../../bin/yara_mapper cd /construction/biology/seqan-apps/.build/apps/yara && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/yara_mapper.dir/link.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/yara_mapper.dir/mapper.cpp.o -o ../../bin/yara_mapper -lexecinfo -lelf -lz -lbz2 [100%] Built target yara_mapper /usr/local/bin/cmake -E cmake_progress_start /construction/biology/seqan-apps/.build/CMakeFiles 0 -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for seqan-apps-2.4.0_6 ===> Generating temporary packing list /usr/local/bin/cmake -S/construction/biology/seqan-apps/seqan-seqan-v2.4.0 -B/construction/biology/seqan-apps/.build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/local/bin/cmake -E cmake_progress_start /construction/biology/seqan-apps/.build/CMakeFiles /construction/biology/seqan-apps/.build/CMakeFiles/progress.marks /usr/bin/make -f CMakeFiles/Makefile2 all /usr/bin/make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/CMakeFiles/seqan_library.dir/DependInfo.cmake /usr/bin/make -f CMakeFiles/seqan_library.dir/build.make CMakeFiles/seqan_library.dir/build [ 0%] Built target seqan_library /usr/bin/make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/alf /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/alf /construction/biology/seqan-apps/.build/apps/alf/CMakeFiles/alf.dir/DependInfo.cmake /usr/bin/make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/build [ 1%] Built target alf /usr/bin/make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/bs_tools /construction/biology/seqan-apps/.build/apps/bs_tools/CMakeFiles/casbar.dir/DependInfo.cmake /usr/bin/make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/build [ 2%] Built target casbar /usr/bin/make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/bs_tools /construction/biology/seqan-apps/.build/apps/bs_tools/CMakeFiles/bisar.dir/DependInfo.cmake /usr/bin/make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/build [ 4%] Built target bisar /usr/bin/make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/bs_tools /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/bs_tools /construction/biology/seqan-apps/.build/apps/bs_tools/CMakeFiles/four2three.dir/DependInfo.cmake /usr/bin/make -f apps/bs_tools/CMakeFiles/four2three.dir/build.make apps/bs_tools/CMakeFiles/four2three.dir/build [ 6%] Built target four2three /usr/bin/make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/dfi /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/dfi /construction/biology/seqan-apps/.build/apps/dfi/CMakeFiles/dfi.dir/DependInfo.cmake /usr/bin/make -f apps/dfi/CMakeFiles/dfi.dir/build.make apps/dfi/CMakeFiles/dfi.dir/build [ 8%] Built target dfi /usr/bin/make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fiona /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/fiona /construction/biology/seqan-apps/.build/apps/fiona/CMakeFiles/fiona.dir/DependInfo.cmake /usr/bin/make -f apps/fiona/CMakeFiles/fiona.dir/build.make apps/fiona/CMakeFiles/fiona.dir/build [ 9%] 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/construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/searchjoin /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/searchjoin /construction/biology/seqan-apps/.build/apps/searchjoin/CMakeFiles/s4_join.dir/DependInfo.cmake /usr/bin/make -f apps/searchjoin/CMakeFiles/s4_join.dir/build.make apps/searchjoin/CMakeFiles/s4_join.dir/build [ 81%] Built target s4_join /usr/bin/make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/searchjoin /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/searchjoin /construction/biology/seqan-apps/.build/apps/searchjoin/CMakeFiles/s4_search.dir/DependInfo.cmake /usr/bin/make -f apps/searchjoin/CMakeFiles/s4_search.dir/build.make apps/searchjoin/CMakeFiles/s4_search.dir/build [ 83%] Built target s4_search /usr/bin/make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/seqan_tcoffee /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/seqan_tcoffee /construction/biology/seqan-apps/.build/apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/DependInfo.cmake /usr/bin/make -f apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build.make apps/seqan_tcoffee/CMakeFiles/seqan_tcoffee.dir/build [ 85%] Built target seqan_tcoffee /usr/bin/make -f apps/seqcons2/CMakeFiles/seqcons2.dir/build.make apps/seqcons2/CMakeFiles/seqcons2.dir/depend cd 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/construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/splazers /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/splazers /construction/biology/seqan-apps/.build/apps/splazers/CMakeFiles/splazers.dir/DependInfo.cmake /usr/bin/make -f apps/splazers/CMakeFiles/splazers.dir/build.make apps/splazers/CMakeFiles/splazers.dir/build [ 92%] Built target splazers /usr/bin/make -f apps/stellar/CMakeFiles/stellar.dir/build.make apps/stellar/CMakeFiles/stellar.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/stellar /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/stellar 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apps/yara/CMakeFiles/yara_mapper.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/yara /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/yara /construction/biology/seqan-apps/.build/apps/yara/CMakeFiles/yara_mapper.dir/DependInfo.cmake /usr/bin/make -f apps/yara/CMakeFiles/yara_mapper.dir/build.make apps/yara/CMakeFiles/yara_mapper.dir/build [ 97%] Built target yara_mapper /usr/bin/make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/depend cd /construction/biology/seqan-apps/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/biology/seqan-apps/seqan-seqan-v2.4.0 /construction/biology/seqan-apps/seqan-seqan-v2.4.0/apps/yara /construction/biology/seqan-apps/.build /construction/biology/seqan-apps/.build/apps/yara /construction/biology/seqan-apps/.build/apps/yara/CMakeFiles/yara_indexer.dir/DependInfo.cmake /usr/bin/make -f apps/yara/CMakeFiles/yara_indexer.dir/build.make apps/yara/CMakeFiles/yara_indexer.dir/build [100%] Built target yara_indexer /usr/local/bin/cmake -E cmake_progress_start /construction/biology/seqan-apps/.build/CMakeFiles 0 /usr/bin/make -f CMakeFiles/Makefile2 preinstall /usr/bin/make -f apps/alf/CMakeFiles/alf.dir/build.make apps/alf/CMakeFiles/alf.dir/preinstall Linking CXX executable CMakeFiles/CMakeRelink.dir/alf cd /construction/biology/seqan-apps/.build/apps/alf && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/alf.dir/relink.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/alf.dir/alf.cpp.o -o CMakeFiles/CMakeRelink.dir/alf -lexecinfo -lelf /usr/bin/make -f apps/bs_tools/CMakeFiles/casbar.dir/build.make apps/bs_tools/CMakeFiles/casbar.dir/preinstall Linking CXX executable CMakeFiles/CMakeRelink.dir/casbar cd /construction/biology/seqan-apps/.build/apps/bs_tools && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/casbar.dir/relink.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/casbar.dir/casbar.cpp.o -o CMakeFiles/CMakeRelink.dir/casbar -lexecinfo -lelf -lz /usr/bin/make -f apps/bs_tools/CMakeFiles/bisar.dir/build.make apps/bs_tools/CMakeFiles/bisar.dir/preinstall Linking CXX executable CMakeFiles/CMakeRelink.dir/bisar cd /construction/biology/seqan-apps/.build/apps/bs_tools && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/bisar.dir/relink.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive 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/construction/biology/seqan-apps/.build/apps/fiona && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/compute_gain.dir/relink.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -fopenmp -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive CMakeFiles/compute_gain.dir/compute_gain.cpp.o -o CMakeFiles/CMakeRelink.dir/compute_gain -lexecinfo -lelf -lz /usr/bin/make -f apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/build.make apps/fx_tools/CMakeFiles/fx_bam_coverage.dir/preinstall Linking CXX executable CMakeFiles/CMakeRelink.dir/fx_bam_coverage cd /construction/biology/seqan-apps/.build/apps/fx_tools && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/fx_bam_coverage.dir/relink.txt --verbose=1 /usr/bin/c++ -pipe -O2 -fno-strict-aliasing -W -Wall -pedantic -pipe -O2 -fno-strict-aliasing -L/usr/local/lib -s -Wl,--whole-archive -lpthread -Wl,--no-whole-archive 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/construction/biology/seqan-apps/stage/usr/local/share/doc/yara/README.rst ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for seqan-apps-2.4.0_6 file sizes/checksums [165]: .. done packing files [165]: .. done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Wednesday, 24 JUL 2019 at 18:18:21 UTC Duration: 00:44:14