#### configure ###################################################################### checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports nested variables... (cached) yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking for style of include used by make... GNU checking dependency style of gcc... gcc3 checking whether gcc and cc understand -c and -o together... yes checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 3458764513820540925 checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking how to run the C preprocessor... gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking whether make sets $(MAKE)... (cached) yes checking for ld... /usr/bin/ld -m elf_x86_64 checking for sed... (cached) /bin/sed checking for sendmail... /usr/sbin/sendmail checking for perl... /sw/comp/perl/5.18.4/milou/bin/perl checking for python... /home/$MYUSER/.local/bin/python checking for convert... /usr/bin/convert checking for gs... /usr/bin/gs checking for xml2-config... /usr/bin/xml2-config checking for xslt-config... /usr/bin/xslt-config checking for ant... no checking for isnan, sqrt, log, exp, fabs, pow, floor, ceil in -lm... yes checking for compress in -lz... yes checking for ANSI C header files... (cached) yes checking for sys/wait.h that is POSIX.1 compatible... yes checking arpa/inet.h usability... yes checking arpa/inet.h presence... yes checking for arpa/inet.h... yes checking ctype.h usability... yes checking ctype.h presence... yes checking for ctype.h... yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for strings.h... (cached) yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for pid_t... yes checking for size_t... yes checking vfork.h usability... no checking vfork.h presence... no checking for vfork.h... no checking for fork... yes checking for vfork... yes checking for working fork... yes checking for working vfork... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking return type of signal handlers... void checking whether lstat correctly handles trailing slash... yes checking whether stat accepts an empty string... no checking for floor... yes checking for getcwd... yes checking for gethostbyname... yes checking for isascii... yes checking for memset... yes checking for pow... yes checking for rint... yes checking for socket... yes checking for sqrt... yes checking for strchr... yes checking for strcspn... yes checking for strdup... yes checking for strspn... yes checking for strstr... yes checking for strlcpy... no checking for mpicc... no checking for openmpicc... no checking for mpcc... no checking for mpirun... no checking for openmpirun... no checking for perl... (cached) /sw/comp/perl/5.18.4/milou/bin/perl checking for python... (cached) /home/$MYUSER/.local/bin/python checking for convert... (cached) /usr/bin/convert checking for gs... (cached) /usr/bin/gs checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/css/Makefile config.status: creating doc/examples/Makefile config.status: creating doc/examples/compute_prior_dist_example_output_files/Makefile config.status: creating doc/examples/sample_opal_scripts/Makefile config.status: creating doc/images/Makefile config.status: creating doc/js/Makefile config.status: creating etc/Makefile config.status: creating src/filters/Makefile config.status: creating src/filters/purge/Makefile config.status: creating src/filters/dust/Makefile config.status: creating scripts/Makefile config.status: creating src/Makefile config.status: creating src/libxml2/Makefile config.status: creating src/libxml2/include/Makefile config.status: creating src/libxml2/include/libxml/Makefile config.status: creating src/libxslt/Makefile config.status: creating src/libexslt/Makefile config.status: creating src/parallel/Makefile config.status: creating tests/Makefile config.status: creating tests/ame/Makefile config.status: creating tests/centrimo/Makefile config.status: creating tests/clustalw2fasta/Makefile config.status: creating tests/common/Makefile config.status: creating tests/common/motif.crp0/Makefile config.status: creating tests/common/motif.Puf3p/Makefile config.status: creating tests/create-priors/Makefile config.status: creating tests/draw-mhmm/Makefile config.status: creating tests/dreme/Makefile config.status: creating tests/fasta-center/Makefile config.status: creating tests/fimo/Makefile config.status: creating tests/glam2/Makefile config.status: creating tests/glam2scan/Makefile config.status: creating tests/gomo/Makefile config.status: creating tests/mast/Makefile config.status: creating tests/mcast/Makefile config.status: creating tests/meme/Makefile config.status: creating tests/mhmm/Makefile config.status: creating tests/mhmms/Makefile config.status: creating tests/mhmmscan/Makefile config.status: creating tests/motiph/Makefile config.status: creating tests/psp-gen/Makefile config.status: creating tests/qvalue/Makefile config.status: creating tests/scaffold/Makefile config.status: creating tests/spamo/Makefile config.status: creating tests/scripts/Makefile config.status: creating tests/tomtom/Makefile config.status: creating tests/web/Makefile config.status: creating config.h config.status: config.h is unchanged config.status: executing depfiles commands config.status: executing libtool commands configure: All required and optional Perl modules were found. #### make ###################################################################### /bin/sed -e 's%@catalina.home@%%' -e 's%@version@%4.11.1%' -e 's%@site.url@%%' -e 's%@site.services@%no%' -e 's%@site.DN@%%' -e 's%@site.contact@%%' -e 's%@developer.contact@%meme-suite@uw.edu%' -e 's%@expiry@%4%' -e 's%@bin.dir@%/home/$MYUSER/bin%' -e 's%@etc.dir@%/home/$MYUSER/etc%' -e 's%@lib.dir@%/home/$MYUSER/lib%' -e 's%@db.dir@%/home/$MYUSER/db%' -e 's%@sendmail@%/usr/sbin/sendmail%' -e 's%@quota@%%' MemeSuite.properties.in > MemeSuite.properties make all-recursive make[1]: Entering directory `$MYUSERbin/meme_4.11.1' Making all in src make[2]: Entering directory `$MYUSERbin/meme_4.11.1/src' echo '#define MEME_DIR "/home/$MYUSER"' >dir.h echo '#define ETC_DIR "/home/$MYUSER/etc" ' >> dir.h echo '#define BIN_DIR "/home/$MYUSER/bin" ' >> dir.h echo '#define TEMP_DIR "" ' >> dir.h make all-recursive make[3]: Entering directory `$MYUSERbin/meme_4.11.1/src' Making all in filters make[4]: Entering directory `$MYUSERbin/meme_4.11.1/src/filters' Making all in purge make[5]: Entering directory `$MYUSERbin/meme_4.11.1/src/filters/purge' make[5]: Nothing to be done for `all'. make[5]: Leaving directory `$MYUSERbin/meme_4.11.1/src/filters/purge' Making all in dust make[5]: Entering directory `$MYUSERbin/meme_4.11.1/src/filters/dust' make[5]: Nothing to be done for `all'. make[5]: Leaving directory `$MYUSERbin/meme_4.11.1/src/filters/dust' make[5]: Entering directory `$MYUSERbin/meme_4.11.1/src/filters' make[5]: Nothing to be done for `all-am'. make[5]: Leaving directory `$MYUSERbin/meme_4.11.1/src/filters' make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/src/filters' Making all in libxml2 make[4]: Entering directory `$MYUSERbin/meme_4.11.1/src/libxml2' make[5]: Entering directory `$MYUSERbin/meme_4.11.1/src/libxml2' make[5]: Nothing to be done for `all-am'. make[5]: Leaving directory `$MYUSERbin/meme_4.11.1/src/libxml2' make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/src/libxml2' Making all in libxslt make[4]: Entering directory `$MYUSERbin/meme_4.11.1/src/libxslt' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/src/libxslt' Making all in libexslt make[4]: Entering directory `$MYUSERbin/meme_4.11.1/src/libexslt' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/src/libexslt' Making all in . make[4]: Entering directory `$MYUSERbin/meme_4.11.1/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-ceqlogo.lo -MD -MP -MF .deps/libcommon_la-ceqlogo.Tpo -c -o libcommon_la-ceqlogo.lo `test -f 'ceqlogo.c' || echo './'`ceqlogo.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-ceqlogo.lo -MD -MP -MF .deps/libcommon_la-ceqlogo.Tpo -c ceqlogo.c -fPIC -DPIC -o .libs/libcommon_la-ceqlogo.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-ceqlogo.lo -MD -MP -MF .deps/libcommon_la-ceqlogo.Tpo -c ceqlogo.c -o libcommon_la-ceqlogo.o >/dev/null 2>&1 mv -f .deps/libcommon_la-ceqlogo.Tpo .deps/libcommon_la-ceqlogo.Plo /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-cisml.lo -MD -MP -MF .deps/libcommon_la-cisml.Tpo -c -o libcommon_la-cisml.lo `test -f 'cisml.c' || echo './'`cisml.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-cisml.lo -MD -MP -MF .deps/libcommon_la-cisml.Tpo -c cisml.c -fPIC -DPIC -o .libs/libcommon_la-cisml.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-cisml.lo -MD -MP -MF .deps/libcommon_la-cisml.Tpo -c cisml.c -o libcommon_la-cisml.o >/dev/null 2>&1 mv -f .deps/libcommon_la-cisml.Tpo .deps/libcommon_la-cisml.Plo /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-dp.lo -MD -MP -MF .deps/libcommon_la-dp.Tpo -c -o libcommon_la-dp.lo `test -f 'dp.c' || echo './'`dp.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-dp.lo -MD -MP -MF .deps/libcommon_la-dp.Tpo -c dp.c -fPIC -DPIC -o .libs/libcommon_la-dp.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-dp.lo -MD -MP -MF .deps/libcommon_la-dp.Tpo -c dp.c -o libcommon_la-dp.o >/dev/null 2>&1 mv -f .deps/libcommon_la-dp.Tpo .deps/libcommon_la-dp.Plo /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-eps2png.lo -MD -MP -MF .deps/libcommon_la-eps2png.Tpo -c -o libcommon_la-eps2png.lo `test -f 'eps2png.c' || echo './'`eps2png.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-eps2png.lo -MD -MP -MF .deps/libcommon_la-eps2png.Tpo -c eps2png.c -fPIC -DPIC -o .libs/libcommon_la-eps2png.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-eps2png.lo -MD -MP -MF .deps/libcommon_la-eps2png.Tpo -c eps2png.c -o libcommon_la-eps2png.o >/dev/null 2>&1 mv -f .deps/libcommon_la-eps2png.Tpo .deps/libcommon_la-eps2png.Plo /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mast-util.lo -MD -MP -MF .deps/libcommon_la-mast-util.Tpo -c -o libcommon_la-mast-util.lo `test -f 'mast-util.c' || echo './'`mast-util.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mast-util.lo -MD -MP -MF .deps/libcommon_la-mast-util.Tpo -c mast-util.c -fPIC -DPIC -o .libs/libcommon_la-mast-util.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mast-util.lo -MD -MP -MF .deps/libcommon_la-mast-util.Tpo -c mast-util.c -o libcommon_la-mast-util.o >/dev/null 2>&1 mv -f .deps/libcommon_la-mast-util.Tpo .deps/libcommon_la-mast-util.Plo /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mcast-match.lo -MD -MP -MF .deps/libcommon_la-mcast-match.Tpo -c -o libcommon_la-mcast-match.lo `test -f 'mcast-match.c' || echo './'`mcast-match.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mcast-match.lo -MD -MP -MF .deps/libcommon_la-mcast-match.Tpo -c mcast-match.c -fPIC -DPIC -o .libs/libcommon_la-mcast-match.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mcast-match.lo -MD -MP -MF .deps/libcommon_la-mcast-match.Tpo -c mcast-match.c -o libcommon_la-mcast-match.o >/dev/null 2>&1 mv -f .deps/libcommon_la-mcast-match.Tpo .deps/libcommon_la-mcast-match.Plo /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-metameme.lo -MD -MP -MF .deps/libcommon_la-metameme.Tpo -c -o libcommon_la-metameme.lo `test -f 'metameme.c' || echo './'`metameme.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-metameme.lo -MD -MP -MF .deps/libcommon_la-metameme.Tpo -c metameme.c -fPIC -DPIC -o .libs/libcommon_la-metameme.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-metameme.lo -MD -MP -MF .deps/libcommon_la-metameme.Tpo -c metameme.c -o libcommon_la-metameme.o >/dev/null 2>&1 mv -f .deps/libcommon_la-metameme.Tpo .deps/libcommon_la-metameme.Plo /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mhmm.lo -MD -MP -MF .deps/libcommon_la-mhmm.Tpo -c -o libcommon_la-mhmm.lo `test -f 'mhmm.c' || echo './'`mhmm.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mhmm.lo -MD -MP -MF .deps/libcommon_la-mhmm.Tpo -c mhmm.c -fPIC -DPIC -o .libs/libcommon_la-mhmm.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mhmm.lo -MD -MP -MF .deps/libcommon_la-mhmm.Tpo -c mhmm.c -o libcommon_la-mhmm.o >/dev/null 2>&1 mv -f .deps/libcommon_la-mhmm.Tpo .deps/libcommon_la-mhmm.Plo /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mhmms.lo -MD -MP -MF .deps/libcommon_la-mhmms.Tpo -c -o libcommon_la-mhmms.lo `test -f 'mhmms.c' || echo './'`mhmms.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mhmms.lo -MD -MP -MF .deps/libcommon_la-mhmms.Tpo -c 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gcc -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme2meme meme2meme-meme2meme.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT meme_get_motif-meme-get-motif.o -MD -MP -MF .deps/meme_get_motif-meme-get-motif.Tpo -c -o meme_get_motif-meme-get-motif.o `test -f 'meme-get-motif.c' || echo './'`meme-get-motif.c mv -f .deps/meme_get_motif-meme-get-motif.Tpo .deps/meme_get_motif-meme-get-motif.Po /bin/sh ../libtool --tag=CC --mode=link gcc -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme-get-motif meme_get_motif-meme-get-motif.o libcommon.la -lz -lm libtool: link: gcc -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme-get-motif meme_get_motif-meme-get-motif.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm gcc -DHAVE_CONFIG_H -I. -I.. -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT motif_shuffle_columns-motif-shuffle-columns.o -MD -MP -MF .deps/motif_shuffle_columns-motif-shuffle-columns.Tpo -c -o motif_shuffle_columns-motif-shuffle-columns.o `test -f 'motif-shuffle-columns.c' || echo './'`motif-shuffle-columns.c mv -f .deps/motif_shuffle_columns-motif-shuffle-columns.Tpo .deps/motif_shuffle_columns-motif-shuffle-columns.Po /bin/sh ../libtool --tag=CC --mode=link gcc -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o motif-shuffle-columns motif_shuffle_columns-motif-shuffle-columns.o libcommon.la -lz -lm libtool: link: gcc -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o motif-shuffle-columns motif_shuffle_columns-motif-shuffle-columns.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm gcc -DHAVE_CONFIG_H -I. -I.. -DMOTIPH -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT motiph-motiph.o -MD -MP -MF .deps/motiph-motiph.Tpo -c -o motiph-motiph.o `test -f 'motiph.c' || echo './'`motiph.c mv -f .deps/motiph-motiph.Tpo .deps/motiph-motiph.Po /bin/sh ../libtool --tag=CC --mode=link gcc -DMOTIPH -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o motiph motiph-motiph.o libcommon.la -lz -lm libtool: link: gcc -DMOTIPH -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o motiph motiph-motiph.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm /bin/sh ../libtool --tag=CC --mode=link gcc -DMOTIPH -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o pmp_bf pmp_bf-pmp_bf.o libcommon.la -lz -lm libtool: link: gcc -DMOTIPH -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o pmp_bf pmp_bf-pmp_bf.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm /bin/sh ../libtool --tag=CC --mode=link gcc -DMAIN -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o ramen ramen-ramen.o ramen-ramen_scan.o libcommon.la -lxml2 -lz -lm -L/usr/lib64 -lxslt -lxml2 -lz -lm -lexslt -lm -lz -lm libtool: link: gcc -DMAIN -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o ramen ramen-ramen.o ramen-ramen_scan.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm gcc -DHAVE_CONFIG_H -I. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT spamo-spamo.o -MD -MP -MF .deps/spamo-spamo.Tpo -c -o spamo-spamo.o `test -f 'spamo.c' || echo './'`spamo.c mv -f .deps/spamo-spamo.Tpo .deps/spamo-spamo.Po gcc -DHAVE_CONFIG_H -I. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT spamo-spamo-output.o -MD -MP -MF .deps/spamo-spamo-output.Tpo -c -o spamo-spamo-output.o `test -f 'spamo-output.c' || echo './'`spamo-output.c mv -f .deps/spamo-spamo-output.Tpo .deps/spamo-spamo-output.Po /bin/sh ../libtool --tag=CC --mode=link gcc -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o spamo spamo-cisml-sax.o spamo-spamo.o spamo-spamo-matches.o spamo-spamo-output.o spamo-spamo-scan.o libcommon.la -lxml2 -lz -lm -L/usr/lib64 -lxslt -lxml2 -lz -lm -lexslt -lz -lm libtool: link: gcc -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o spamo spamo-cisml-sax.o spamo-spamo.o spamo-spamo-matches.o spamo-spamo-output.o spamo-spamo-scan.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT tomtom-tomtom.o -MD -MP -MF .deps/tomtom-tomtom.Tpo -c -o tomtom-tomtom.o `test -f 'tomtom.c' || echo './'`tomtom.c mv -f .deps/tomtom-tomtom.Tpo .deps/tomtom-tomtom.Po /bin/sh ../libtool --tag=CC --mode=link gcc -DMAIN -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o tomtom tomtom-tomtom.o libcommon.la -lxml2 -lz -lm -L/usr/lib64 -lxslt -lxml2 -lz -lm -lexslt -lz -lm libtool: link: gcc -DMAIN -I/usr/include/libxml2 -I/usr/include/libxml2 -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o tomtom tomtom-tomtom.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm /bin/sh ../libtool --tag=CC --mode=link gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o qvalue qvalue-qvalue.o libcommon.la -lm -lz -lm libtool: link: gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o qvalue qvalue-qvalue.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm /bin/sh ../libtool --tag=CC --mode=link gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o ranksum_test ranksum_test-ranksum_test.o libcommon.la -lm -lz -lm libtool: link: gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o ranksum_test ranksum_test-ranksum_test.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm /bin/sh ../libtool --tag=CC --mode=link gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o reconcile-tree-alignment reconcile_tree_alignment-reconcile-tree-alignment.o libcommon.la -lm -lz -lm libtool: link: gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o reconcile-tree-alignment reconcile_tree_alignment-reconcile-tree-alignment.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm /bin/sh ../libtool --tag=CC --mode=link gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o reduce-alignment reduce_alignment-reduce-alignment.o libcommon.la -lm -lz -lm libtool: link: gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o reduce-alignment reduce_alignment-reduce-alignment.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm /bin/sh ../libtool --tag=CC --mode=link gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o remove-alignment-gaps remove_alignment_gaps-remove-alignment-gaps.o libcommon.la -lm -lz -lm libtool: link: gcc -DMAIN -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o remove-alignment-gaps remove_alignment_gaps-remove-alignment-gaps.o ./.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/src' Making all in parallel make[4]: Entering directory `$MYUSERbin/meme_4.11.1/src/parallel' gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-banner.o -MD -MP -MF ../.deps/meme-banner.Tpo -c -o ../meme-banner.o `test -f '../banner.c' || echo './'`../banner.c mv -f ../.deps/meme-banner.Tpo ../.deps/meme-banner.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-branching_search.o -MD -MP -MF ../.deps/meme-branching_search.Tpo -c -o ../meme-branching_search.o `test -f '../branching_search.c' || echo './'`../branching_search.c mv -f ../.deps/meme-branching_search.Tpo ../.deps/meme-branching_search.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-calculate_p_y.o -MD -MP -MF ../.deps/meme-calculate_p_y.Tpo -c -o ../meme-calculate_p_y.o `test -f '../calculate_p_y.c' || echo './'`../calculate_p_y.c mv -f ../.deps/meme-calculate_p_y.Tpo ../.deps/meme-calculate_p_y.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-discretize.o -MD -MP -MF ../.deps/meme-discretize.Tpo -c -o ../meme-discretize.o `test -f '../discretize.c' || echo './'`../discretize.c mv -f ../.deps/meme-discretize.Tpo ../.deps/meme-discretize.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-display.o -MD -MP -MF ../.deps/meme-display.Tpo -c -o ../meme-display.o `test -f '../display.c' || echo './'`../display.c mv -f ../.deps/meme-display.Tpo ../.deps/meme-display.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-dpalign.o -MD -MP -MF ../.deps/meme-dpalign.Tpo -c -o ../meme-dpalign.o `test -f '../dpalign.c' || echo './'`../dpalign.c mv -f ../.deps/meme-dpalign.Tpo 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|| echo './'`../init.c mv -f ../.deps/meme-init.Tpo ../.deps/meme-init.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-justlike.o -MD -MP -MF ../.deps/meme-justlike.Tpo -c -o ../meme-justlike.o `test -f '../justlike.c' || echo './'`../justlike.c mv -f ../.deps/meme-justlike.Tpo ../.deps/meme-justlike.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-likelihood.o -MD -MP -MF ../.deps/meme-likelihood.Tpo -c -o ../meme-likelihood.o `test -f '../likelihood.c' || echo './'`../likelihood.c mv -f ../.deps/meme-likelihood.Tpo ../.deps/meme-likelihood.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-llr.o -MD -MP -MF ../.deps/meme-llr.Tpo -c -o ../meme-llr.o `test -f '../llr.c' || echo './'`../llr.c mv -f ../.deps/meme-llr.Tpo ../.deps/meme-llr.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-logs.o -MD -MP -MF ../.deps/meme-logs.Tpo -c -o ../meme-logs.o `test -f '../logs.c' || echo './'`../logs.c mv -f ../.deps/meme-logs.Tpo ../.deps/meme-logs.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-meme.o -MD -MP -MF ../.deps/meme-meme.Tpo -c -o ../meme-meme.o `test -f '../meme.c' || echo './'`../meme.c mv -f ../.deps/meme-meme.Tpo ../.deps/meme-meme.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-meme_util.o -MD -MP -MF ../.deps/meme-meme_util.Tpo -c -o ../meme-meme_util.o `test -f '../meme_util.c' || echo './'`../meme_util.c mv -f ../.deps/meme-meme_util.Tpo ../.deps/meme-meme_util.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-oops.o -MD -MP -MF ../.deps/meme-oops.Tpo -c -o ../meme-oops.o `test -f '../oops.c' || echo './'`../oops.c mv -f ../.deps/meme-oops.Tpo ../.deps/meme-oops.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-prior.o -MD -MP -MF ../.deps/meme-prior.Tpo -c -o ../meme-prior.o `test -f '../prior.c' || echo './'`../prior.c mv -f ../.deps/meme-prior.Tpo ../.deps/meme-prior.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-psp.o -MD -MP -MF ../.deps/meme-psp.Tpo -c -o ../meme-psp.o `test -f '../psp.c' || echo './'`../psp.c mv -f ../.deps/meme-psp.Tpo ../.deps/meme-psp.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-read_seq_file.o -MD -MP -MF ../.deps/meme-read_seq_file.Tpo -c -o ../meme-read_seq_file.o `test -f '../read_seq_file.c' || echo './'`../read_seq_file.c mv -f ../.deps/meme-read_seq_file.Tpo ../.deps/meme-read_seq_file.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-seed_diffs.o -MD -MP -MF ../.deps/meme-seed_diffs.Tpo -c -o ../meme-seed_diffs.o `test -f '../seed_diffs.c' || echo './'`../seed_diffs.c mv -f ../.deps/meme-seed_diffs.Tpo ../.deps/meme-seed_diffs.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-seq2theta.o -MD -MP -MF ../.deps/meme-seq2theta.Tpo -c -o ../meme-seq2theta.o `test -f '../seq2theta.c' || echo './'`../seq2theta.c mv -f ../.deps/meme-seq2theta.Tpo ../.deps/meme-seq2theta.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-sp_matrix.o -MD -MP -MF ../.deps/meme-sp_matrix.Tpo -c -o ../meme-sp_matrix.o `test -f '../sp_matrix.c' || echo './'`../sp_matrix.c mv -f ../.deps/meme-sp_matrix.Tpo ../.deps/meme-sp_matrix.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-starts.o -MD -MP -MF ../.deps/meme-starts.Tpo -c -o ../meme-starts.o `test -f '../starts.c' || echo './'`../starts.c mv -f ../.deps/meme-starts.Tpo ../.deps/meme-starts.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-subseq7.o -MD -MP -MF ../.deps/meme-subseq7.Tpo -c -o ../meme-subseq7.o `test -f '../subseq7.c' || echo './'`../subseq7.c mv -f ../.deps/meme-subseq7.Tpo ../.deps/meme-subseq7.Po gcc -DHAVE_CONFIG_H -I. -I../.. -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT ../meme-tcm.o -MD -MP -MF ../.deps/meme-tcm.Tpo -c -o ../meme-tcm.o `test -f '../tcm.c' || echo './'`../tcm.c mv -f ../.deps/meme-tcm.Tpo ../.deps/meme-tcm.Po /bin/sh ../../libtool --tag=CC --mode=link gcc -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD="" -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme ../meme-banner.o ../meme-branching_search.o ../meme-calculate_p_y.o ../meme-discretize.o ../meme-display.o ../meme-dpalign.o ../meme-em.o ../meme-exec_parallel.o ../meme-fisher_exact.o ../meme-init.o ../meme-justlike.o ../meme-likelihood.o ../meme-llr.o ../meme-logs.o ../meme-meme.o ../meme-meme_util.o ../meme-message.o ../meme-mp.o ../meme-oops.o ../meme-partition.o ../meme-prior.o ../meme-psp.o ../meme-read_seq_file.o ../meme-seed.o ../meme-seed_diffs.o ../meme-seq2theta.o ../meme-sp_matrix.o ../meme-starts.o ../meme-subseq7.o ../meme-tcm.o ../meme-ushuffle.o ../meme-verbosity.o ../libcommon.la -lxml2 -lz -lm -L/usr/lib64 -lxslt -lxml2 -lz -lm -lexslt -lz -lm libtool: link: gcc -I.. -I/usr/include/libxml2 -I/usr/include/libxml2 -DMPI_CMD= -std=gnu89 -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme ../meme-banner.o ../meme-branching_search.o ../meme-calculate_p_y.o ../meme-discretize.o ../meme-display.o ../meme-dpalign.o ../meme-em.o ../meme-exec_parallel.o ../meme-fisher_exact.o ../meme-init.o ../meme-justlike.o ../meme-likelihood.o ../meme-llr.o ../meme-logs.o ../meme-meme.o ../meme-meme_util.o ../meme-message.o ../meme-mp.o ../meme-oops.o ../meme-partition.o ../meme-prior.o ../meme-psp.o ../meme-read_seq_file.o ../meme-seed.o ../meme-seed_diffs.o ../meme-seq2theta.o ../meme-sp_matrix.o ../meme-starts.o ../meme-subseq7.o ../meme-tcm.o ../meme-ushuffle.o ../meme-verbosity.o ../.libs/libcommon.a -L/usr/lib64 -lxslt -lxml2 -lexslt -lz -lm make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/src/parallel' make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/src' make[2]: Leaving directory `$MYUSERbin/meme_4.11.1/src' Making all in scripts make[2]: Entering directory `$MYUSERbin/meme_4.11.1/scripts' /bin/sed -e 's%@ARCHIVE_REVISION@%f26a4af60723490374bbb05f050f70f1f2976369%' -e 's%@ARCHIVE_DATE@%Fri Jan 15 12:51:59 2016 -0800%' -e 's%@ARCHIVE_VERSION@%4.11.1%' -e 's%@TMP_DIR@%%' -e 's%@WHICHPERL@%/sw/comp/perl/5.18.4/milou/bin/perl%' -e 's%@WHICHPYTHON@%/home/$MYUSER/.local/bin/python%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%/usr/bin/convert%' -e 's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e 's%@PERLLIBDIR@%/home/$MYUSER/lib/perl%' -e 's%@PYTHONLIBDIR@%/home/$MYUSER/lib/python%' -e 's%@JAVALIBDIR@%/home/$MYUSER/lib/java%' -e 's%@LAM_BIN@%%' -e 's%@APPCONFIGDIR@%/home/$MYUSER/etc%' -e 's%@BINDIR@%/home/$MYUSER/bin%' -e 's%@MEMELOGS@%/home/$MYUSER/LOGS%' -e 's%@MEMEDB@%/home/$MYUSER/db%' -e 's%@SITE_URL@%%' -e 's%@MAX_TIME@%18000%' -e 's%@DOCDIR@%/home/$MYUSER/doc/%' Globals.pm.in > Globals.pm /bin/sed -e 's%@ARCHIVE_REVISION@%f26a4af60723490374bbb05f050f70f1f2976369%' -e 's%@ARCHIVE_DATE@%Fri Jan 15 12:51:59 2016 -0800%' -e 's%@ARCHIVE_VERSION@%4.11.1%' -e 's%@TMP_DIR@%%' -e 's%@WHICHPERL@%/sw/comp/perl/5.18.4/milou/bin/perl%' -e 's%@WHICHPYTHON@%/home/$MYUSER/.local/bin/python%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%/usr/bin/convert%' -e 's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e 's%@PERLLIBDIR@%/home/$MYUSER/lib/perl%' -e 's%@PYTHONLIBDIR@%/home/$MYUSER/lib/python%' -e 's%@JAVALIBDIR@%/home/$MYUSER/lib/java%' -e 's%@LAM_BIN@%%' -e 's%@APPCONFIGDIR@%/home/$MYUSER/etc%' -e 's%@BINDIR@%/home/$MYUSER/bin%' -e 's%@MEMELOGS@%/home/$MYUSER/LOGS%' -e 's%@MEMEDB@%/home/$MYUSER/db%' -e 's%@SITE_URL@%%' -e 's%@MAX_TIME@%18000%' -e 's%@DOCDIR@%/home/$MYUSER/doc/%' MemeWebUtils.pm.in > MemeWebUtils.pm /bin/sed -e 's%@ARCHIVE_REVISION@%f26a4af60723490374bbb05f050f70f1f2976369%' -e 's%@ARCHIVE_DATE@%Fri Jan 15 12:51:59 2016 -0800%' -e 's%@ARCHIVE_VERSION@%4.11.1%' -e 's%@TMP_DIR@%%' -e 's%@WHICHPERL@%/sw/comp/perl/5.18.4/milou/bin/perl%' -e 's%@WHICHPYTHON@%/home/$MYUSER/.local/bin/python%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%/usr/bin/convert%' -e 's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e 's%@PERLLIBDIR@%/home/$MYUSER/lib/perl%' -e 's%@PYTHONLIBDIR@%/home/$MYUSER/lib/python%' -e 's%@JAVALIBDIR@%/home/$MYUSER/lib/java%' -e 's%@LAM_BIN@%%' -e 's%@APPCONFIGDIR@%/home/$MYUSER/etc%' -e 's%@BINDIR@%/home/$MYUSER/bin%' -e 's%@MEMELOGS@%/home/$MYUSER/LOGS%' -e 's%@MEMEDB@%/home/$MYUSER/db%' -e 's%@SITE_URL@%%' -e 's%@MAX_TIME@%18000%' -e 's%@DOCDIR@%/home/$MYUSER/doc/%' StatusPage.pm.in > StatusPage.pm make[2]: Leaving directory `$MYUSERbin/meme_4.11.1/scripts' Making all in tests make[2]: Entering directory `$MYUSERbin/meme_4.11.1/tests' Making all in ame make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/ame' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/ame' Making all in clustalw2fasta make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/clustalw2fasta' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/clustalw2fasta' Making all in centrimo make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/centrimo' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/centrimo' Making all in common make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/common' Making all in motif.crp0 make[4]: Entering directory `$MYUSERbin/meme_4.11.1/tests/common/motif.crp0' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/common/motif.crp0' Making all in motif.Puf3p make[4]: Entering directory `$MYUSERbin/meme_4.11.1/tests/common/motif.Puf3p' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/common/motif.Puf3p' make[4]: Entering directory `$MYUSERbin/meme_4.11.1/tests/common' make[4]: Nothing to be done for `all-am'. make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/common' make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/common' Making all in create-priors make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/create-priors' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/create-priors' Making all in draw-mhmm make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/draw-mhmm' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/draw-mhmm' Making all in dreme make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/dreme' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/dreme' Making all in fasta-center make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/fasta-center' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/fasta-center' Making all in fimo make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/fimo' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/fimo' Making all in glam2 make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/glam2' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/glam2' Making all in glam2scan make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/glam2scan' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/glam2scan' Making all in gomo make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/gomo' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/gomo' Making all in mast make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/mast' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/mast' Making all in mcast make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/mcast' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/mcast' Making all in meme make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/meme' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/meme' Making all in mhmm make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/mhmm' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/mhmm' Making all in mhmms make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/mhmms' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/mhmms' Making all in mhmmscan make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/mhmmscan' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/mhmmscan' Making all in motiph make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/motiph' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/motiph' Making all in psp-gen make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/psp-gen' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/psp-gen' Making all in qvalue make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/qvalue' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/qvalue' Making all in scaffold make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/scaffold' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/scaffold' Making all in spamo make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/spamo' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/spamo' Making all in tomtom make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/tomtom' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/tomtom' Making all in web make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/web' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/web' Making all in scripts make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests/scripts' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests/scripts' make[3]: Entering directory `$MYUSERbin/meme_4.11.1/tests' make[3]: Nothing to be done for `all-am'. make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/tests' make[2]: Leaving directory `$MYUSERbin/meme_4.11.1/tests' Making all in doc make[2]: Entering directory `$MYUSERbin/meme_4.11.1/doc' /bin/sed -e "/INSERT_COPYING_FILE/r ../COPYING" -e "/INSERT_COPYING_FILE/d" copyright.html.in > copyright.html make all-recursive make[3]: Entering directory `$MYUSERbin/meme_4.11.1/doc' Making all in examples make[4]: Entering directory `$MYUSERbin/meme_4.11.1/doc/examples' Making all in compute_prior_dist_example_output_files make[5]: Entering directory `$MYUSERbin/meme_4.11.1/doc/examples/compute_prior_dist_example_output_files' make[5]: Nothing to be done for `all'. make[5]: Leaving directory `$MYUSERbin/meme_4.11.1/doc/examples/compute_prior_dist_example_output_files' Making all in sample_opal_scripts make[5]: Entering directory `$MYUSERbin/meme_4.11.1/doc/examples/sample_opal_scripts' make[5]: Nothing to be done for `all'. make[5]: Leaving directory `$MYUSERbin/meme_4.11.1/doc/examples/sample_opal_scripts' make[5]: Entering directory `$MYUSERbin/meme_4.11.1/doc/examples' make[5]: Nothing to be done for `all-am'. make[5]: Leaving directory `$MYUSERbin/meme_4.11.1/doc/examples' make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/doc/examples' Making all in images make[4]: Entering directory `$MYUSERbin/meme_4.11.1/doc/images' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/doc/images' Making all in css make[4]: Entering directory `$MYUSERbin/meme_4.11.1/doc/css' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/doc/css' Making all in js make[4]: Entering directory `$MYUSERbin/meme_4.11.1/doc/js' /bin/sed -e 's%\@VERSION\@%4.11.1%g' -e 's%\@CONTACT\@%%g' -e 's%\@DEV_CONTACT\@%meme-suite@uw.edu%g' -e 's%\@URL\@%%g' -e 's%\@PREV_URL\@%%g' -e 's%\@PREV_VER\@%%g' -e 's%\@NOTICES_URL\@%./notices.txt%g' -e 's%\@NEWS_URL\@%./news.txt%g' menu-configure.js.in > menu-configure.js make all-am make[5]: Entering directory `$MYUSERbin/meme_4.11.1/doc/js' make[5]: Nothing to be done for `all-am'. make[5]: Leaving directory `$MYUSERbin/meme_4.11.1/doc/js' make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/doc/js' make[4]: Entering directory `$MYUSERbin/meme_4.11.1/doc' make[4]: Nothing to be done for `all-am'. make[4]: Leaving directory `$MYUSERbin/meme_4.11.1/doc' make[3]: Leaving directory `$MYUSERbin/meme_4.11.1/doc' make[2]: Leaving directory `$MYUSERbin/meme_4.11.1/doc' Making all in etc make[2]: Entering directory `$MYUSERbin/meme_4.11.1/etc' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `$MYUSERbin/meme_4.11.1/etc' make[2]: Entering directory `$MYUSERbin/meme_4.11.1' make[2]: Leaving directory `$MYUSERbin/meme_4.11.1' make[1]: Leaving directory `$MYUSERbin/meme_4.11.1' #### make test ###################################################################### cd tests/scripts; make check make[1]: Entering directory `/pica/h1/$MYUSER/bin/meme_4.11.1/tests/scripts' make test_driver make[2]: Entering directory `/pica/h1/$MYUSER/bin/meme_4.11.1/tests/scripts' make[2]: `test_driver' is up to date. make[2]: Leaving directory `/pica/h1/$MYUSER/bin/meme_4.11.1/tests/scripts' make check-TESTS make[2]: Entering directory `/pica/h1/$MYUSER/bin/meme_4.11.1/tests/scripts' make[3]: Entering directory `/pica/h1/$MYUSER/bin/meme_4.11.1/tests/scripts' PASS: ama1 PASS: ama2 PASS: ame1 PASS: centrimo1 PASS: create-priors1 PASS: create-priors2 PASS: dreme1 PASS: dreme2 FAIL: fasta-center1 (CRASH!) PASS: fasta-dinucleotide-shuffle1 PASS: fimo1 PASS: fimo2 PASS: fimo3 PASS: fimo4 PASS: glam2_1 PASS: glam2scan1 PASS: gomo1 PASS: gomo2 PASS: mast1 PASS: mast2 PASS: mast3 PASS: mast4 PASS: mast5 PASS: mast6 PASS: mast7 PASS: mast8 PASS: mast9 PASS: mast10 PASS: mast11 PASS: mast12 PASS: mast13 PASS: mast14 PASS: mast15 PASS: mast16 PASS: mast17 PASS: mast18 PASS: mcast1 FAIL: meme1 (CRASH!) FAIL: meme2 (CRASH!) FAIL: meme3 (CRASH!) FAIL: meme4 (CRASH!) FAIL: meme5 (CRASH!) FAIL: meme6 (CRASH!) FAIL: meme7 (CRASH!) FAIL: meme8 (CRASH!) FAIL: meme9 (CRASH!) FAIL: meme10 (CRASH!) FAIL: meme11 (CRASH!) FAIL: meme12 (CRASH!) FAIL: meme13 (CRASH!) FAIL: meme14 (CRASH!) FAIL: meme15 (CRASH!) FAIL: meme16 (CRASH!) FAIL: meme17 (CRASH!) FAIL: meme18 (CRASH!) PASS: meme_psp SKIP: motif-in.meme.crp0.text (meme.txt missing) SKIP: motif-in.meme.crp0.xml (meme.xml missing) SKIP: motif-in.meme.crp0.html (meme.html missing) SKIP: motif-in.meme.lipocalin.text (meme.txt missing) SKIP: motif-in.meme.lipocalin.xml (meme.xml missing) SKIP: motif-in.meme.lipocalin.html (meme.html missing) SKIP: motif-in.meme.puf3p.text (meme.txt missing) SKIP: motif-in.meme.puf3p.xml (meme.xml missing) SKIP: motif-in.meme.puf3p.html (meme.html missing) SKIP: motif-in.meme.crp0.extdna.text (meme.txt missing) SKIP: motif-in.meme.crp0.extdna.xml (meme.xml missing) SKIP: motif-in.meme.crp0.extdna.html (meme.html missing) SKIP: motif-in.dreme.klf1.text (dreme.txt missing) PASS: motif-in.dreme.klf1.xml SKIP: motif-in.dreme.klf1.html (dreme.html missing) SKIP: motif-in.dreme.klf1.extdna.text (dreme.txt missing) PASS: motif-in.dreme.klf1.extdna.xml SKIP: motif-in.dreme.klf1.extdna.html (dreme.html missing) SKIP: motif-in.dreme.puf3p.text (dreme.txt missing) PASS: motif-in.dreme.puf3p.xml SKIP: motif-in.dreme.puf3p.html (dreme.html missing) PASS: motiph1 PASS: motiph2 FAIL: psp-gen1 (CRASH!) FAIL: psp-gen2 (CRASH!) FAIL: psp-gen3 (CRASH!) PASS: qvalue1 PASS: spamo1 PASS: spamo2 FAIL: tomtom_allr (CRASH!) FAIL: tomtom_ed (CRASH!) FAIL: tomtom_kullback (CRASH!) FAIL: tomtom_pearson (CRASH!) FAIL: tomtom_sandelin (CRASH!) FAIL: tomtom_blic1 (CRASH!) FAIL: tomtom_blic5 (CRASH!) FAIL: tomtom_allr_cs (CRASH!) FAIL: tomtom_ed_cs (CRASH!) FAIL: tomtom_kullback_cs (CRASH!) FAIL: tomtom_pearson_cs (CRASH!) FAIL: tomtom_sandelin_cs (CRASH!) FAIL: tomtom_blic1_cs (CRASH!) FAIL: tomtom_blic5_cs (CRASH!) ============================================================================ Testsuite summary for meme 4.11.1 ============================================================================ # TOTAL: 99 # PASS: 45 # SKIP: 18 # XFAIL: 0 # FAIL: 36 # XPASS: 0 # ERROR: 0 ============================================================================ See tests/scripts/test-suite.log ============================================================================ #### tests/scripts/test-suite.log ###################################################################### =============================================== meme 4.11.1: tests/scripts/test-suite.log =============================================== # TOTAL: 99 # PASS: 45 # SKIP: 18 # XFAIL: 0 # FAIL: 36 # XPASS: 0 # ERROR: 0 .. contents:: :depth: 2 RUN: ama ======== ******************************************************************************* Test ama1 ... ama --verbosity 1 --scoring max-odds gomo/motif.meme gomo/seqs.fasta gomo/seqs.bg 1> results/ama1/ama_pycZ4_stdout 2> log PASSED! ******************************************************************************* Test ama2 ... ama --pvalues --verbosity 1 --cs gomo/motif.meme gomo/seqs_red.fasta gomo/seqs.norc.bg 1> results/ama2/ama_Qg6nc_stdout 2> log PASSED! RUN: ame ======== ******************************************************************************* Test ame1 ... ame --oc results/ame1 --silent --verbose 1 --bgformat 0 --control common/Klf1-200-100-shuffled.s common/Klf1-200-100.s common/Jaspar-subset.meme &> log PASSED! RUN: centrimo ============= ******************************************************************************* Test centrimo1 ... centrimo -verbosity 1 -oc results/centrimo -flip common/Klf1.s centrimo/dreme-Klf1.txt &> log PASSED! RUN: create_priors ================== ******************************************************************************* Test create-priors1 ... create-priors -oc results/create-priors1 create-priors/chrX.fa create-priors/DNaseHS_gm12878.wig &> log Creating priors with alpha=1.0 and beta=10000 Sequence size is 3000000 bases. Scores were observed for 4140 bases. Minimum score is 1 Median score is 1 Maximum score is 3.97638 Sum of scores is 7156.07 Sum of un-normalized priors is 762695 Sum of normalized priors = 10000 Sum of prior distribution = 1 PASSED! ******************************************************************************* Test create-priors2 ... create-priors -oc results/create-priors2 create-priors/chrX.fa create-priors/DNaseHS_gm12878.wig &> log Creating priors with alpha=1.0 and beta=10000 Sequence size is 3000000 bases. Scores were observed for 4140 bases. Minimum score is 1 Median score is 1 Maximum score is 3.97638 Sum of scores is 7156.07 Sum of un-normalized priors is 762695 Sum of normalized priors = 10000 Sum of prior distribution = 1 PASSED! RUN: dreme ========== ******************************************************************************* Test dreme1 ... dreme -oc results/dreme1 -v 1 -p common/Klf1-200-100.s &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create HTML file. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create text file. PASSED! ******************************************************************************* Test dreme2 ... dreme -norc -oc results/dreme2 -v 1 -p common/Klf1-200-100.s &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create HTML file. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create text file. PASSED! RUN: fasta-center ================= ******************************************************************************* Test fasta-center1 ... fasta-center -len 100 -dna < common/Klf1-200.s 1> results/fasta-center1/fasta-center_4edbH_stdout 2> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck ------------------------------------------------------------------------------- fasta-center exited with value 127 indicating failure. FAILED! RUN: fasta-dinucleotide-shuffle =============================== ******************************************************************************* Test fasta-dinucleotide-shuffle1 ... fasta-dinucleotide-shuffle -f common/Klf1-200-100.s -t -dinuc 1> results/fasta-dinucleotide-shuffle1/fasta-dinucleotide-shuffle_2ZqKN_stdout 2> log PASSED! RUN: fimo ========= ******************************************************************************* Test fimo1 ... fimo --oc results/fimo1 --motif-pseudo 0.01 fimo/MCM1.meme.html fimo/spiked.fasta &> log Using motif +1 of width 13. Using motif -1 of width 13. Computing q-values. Estimating pi_0 from a uniformly sampled set of 5308 p-values. Estimating pi_0. Estimated pi_0=0.843255 PASSED! ******************************************************************************* Test fimo2 ... fimo --oc results/fimo2 --motif 2 --motif 3 --thresh 0.01 common/crp0.meme.html motiph/spiked.fasta &> log Skipping motif +1. Skipping motif -1. Using motif +2 of width 8. Using motif -2 of width 8. Computing q-values. Estimating pi_0 from a uniformly sampled set of 5318 p-values. Estimating pi_0. Estimated pi_0=1 Using motif +3 of width 11. Using motif -3 of width 11. Computing q-values. Estimating pi_0 from a uniformly sampled set of 5312 p-values. Estimating pi_0. Estimated pi_0=1 PASSED! ******************************************************************************* Test fimo3 ... fimo --oc results/fimo3 --psp fimo/GCN4_YPD.psp --prior-dist fimo/prior.dist.txt fimo/GCN4.meme fimo/GCN4_YPD.fasta &> log Using motif +MA0303.1 of width 21. Using motif -MA0303.1 of width 21. Computing q-values. Estimating pi_0 from a uniformly sampled set of 10000 p-values. Estimating pi_0. Estimated pi_0=1 PASSED! ******************************************************************************* Test fimo4 ... fimo --oc results/fimo4 --parse-genomic-coord --psp fimo/GCN4_YPD-genomic.psp --prior-dist fimo/prior.dist.txt fimo/GCN4.meme fimo/GCN4_YPD-genomic.fasta &> log Using motif +MA0303.1 of width 21. Using motif -MA0303.1 of width 21. Computing q-values. Estimating pi_0 from a uniformly sampled set of 10000 p-values. Estimating pi_0. Estimated pi_0=1 PASSED! RUN: glam2 ========== ******************************************************************************* Test glam2_1 ... glam2 -M -r 3 -n 100 -O results/glam2_1 p common/At.s &> log The output directory 'results/glam2_1' already exists. Its contents will be overwritten. Run 1... 406 iterations Run 2... 445 iterations Run 3... 400 iterations PASSED! RUN: glam2scan ============== ******************************************************************************* Test glam2scan1 ... glam2scan -O results/glam2scan1 p glam2/glam2.txt common/At.s &> log PASSED! RUN: gomo ========= ******************************************************************************* Test gomo1 ... gomo --seed 1 --nostatus --verbosity 1 --oc results/gomo1 --motifs gomo/motif.meme gomo/GO2Gene.map.csv gomo/ama.nozscoring.xml &> log PASSED! ******************************************************************************* Test gomo2 ... gomo --gs --seed 1 --nostatus --verbosity 1 --oc results/gomo2 --motifs gomo/motif.meme gomo/GO2Gene.map.csv gomo/ama.zscoring.xml gomo/ama.nozscoring.xml &> log PASSED! RUN: mast ========= ******************************************************************************* Test mast1 ... mast meme/meme.crp0.oops common/crp0.s -oc results/mast1 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast2 ... mast meme/meme.crp0.zoops common/crp0.s -oc results/mast2 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast3 ... mast meme/meme.crp0.tcm common/crp0.s -oc results/mast3 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast4 ... mast meme/meme.INO_up800.oops common/INO_up800.s -oc results/mast4 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast5 ... mast meme/meme.INO_up800.zoops common/INO_up800.s -oc results/mast5 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast6 ... mast meme/meme.INO_up800.tcm common/INO_up800.s -oc results/mast6 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast7 ... mast meme/meme.farntrans5.oops common/farntrans5.s -oc results/mast7 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast8 ... mast meme/meme.farntrans5.zoops common/farntrans5.s -oc results/mast8 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast9 ... mast meme/meme.farntrans5.tcm common/farntrans5.s -oc results/mast9 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast10 ... mast meme/meme.lipocalin.oops common/lipocalin.s -oc results/mast10 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast11 ... mast meme/meme.lipocalin.zoops common/lipocalin.s -oc results/mast11 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast12 ... mast meme/meme.lipocalin.tcm common/lipocalin.s -oc results/mast12 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast13 ... mast meme/meme.adh.oops common/adh.s -oc results/mast13 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast14 ... mast meme/meme.adh.oops - -oc results/mast14 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast15 ... mast meme/meme.adh.zoops common/adh.s -oc results/mast15 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast16 ... mast meme/meme.adh.zoops - -oc results/mast16 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast17 ... mast meme/meme.adh.tcm common/adh.s -oc results/mast17 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! ******************************************************************************* Test mast18 ... mast meme/meme.adh.tcm - -oc results/mast18 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: mast_xml_to_txt exited abnormally and may have failed to create text output. PASSED! RUN: mcast ========== ******************************************************************************* Test mcast1 ... mcast -oc results/mcast1 meme/meme.lex0.zoops common/lex0.s &> log Creating HMM from motif array. Building HMM: (0) 1 2-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21 | (22) Reading sequences in blocks of 434782 characters. Warning: Cannot estimate pi_0 accurately from fewer than 100 p-values. total p-values = 14. Using pi_zero = 1.0. User time for computation: 0.002999 seconds System time for computation: 0.001 seconds User time for output: 0.001 seconds System time for output: 0.002999 seconds Total user time: 0.003999 seconds Total system time: 0.003999 seconds PASSED! RUN: meme ========= ******************************************************************************* Test meme1 ... meme common/crp0.s -oc results/meme1 -mod oops -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme2 ... meme common/crp0.s -oc results/meme2 -mod zoops -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme3 ... meme common/crp0.s -oc results/meme3 -mod tcm -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme4 ... meme common/adh.s -oc results/meme4 -mod oops -protein -nmotifs 2 -minw 8 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme5 ... meme common/adh.s -oc results/meme5 -mod zoops -protein -nmotifs 2 -minw 8 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme6 ... meme common/adh.s -oc results/meme6 -mod tcm -protein -nmotifs 2 -minw 8 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme7 ... meme common/crp0.s -oc results/meme7 -mod oops -dna -revcomp -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log w set, setting max and min widths to 18 /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme8 ... meme common/crp0.s -oc results/meme8 -mod zoops -dna -revcomp -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log w set, setting max and min widths to 18 /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme9 ... meme common/crp0.s -oc results/meme9 -mod tcm -dna -revcomp -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log w set, setting max and min widths to 18 /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme10 ... meme common/adh.s -oc results/meme10 -mod oops -protein -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log w set, setting max and min widths to 18 /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme11 ... meme common/adh.s -oc results/meme11 -mod zoops -protein -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log w set, setting max and min widths to 18 /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme12 ... meme common/adh.s -oc results/meme12 -mod tcm -protein -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log w set, setting max and min widths to 18 /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme13 ... meme common/crp0.s -oc results/meme13 -mod oops -dna -revcomp -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme14 ... meme common/crp0.s -oc results/meme14 -mod zoops -dna -revcomp -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme15 ... meme common/crp0.s -oc results/meme15 -mod tcm -dna -revcomp -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme16 ... meme common/adh.s -oc results/meme16 -mod oops -protein -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme17 ... meme common/adh.s -oc results/meme17 -mod zoops -protein -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme18 ... meme common/adh.s -oc results/meme18 -mod tcm -protein -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- meme exited with value 1 indicating failure. FAILED! ******************************************************************************* Test meme_psp ... meme common/psp_test.s -psp common/psp_test.psp -minsites 5 -dna -revcomp -minw 7 -maxw 12 -nostatus -text 1> results/meme19/meme_ZLJKX_stdout 2> log PASSED! RUN: motif-in ============= ******************************************************************************* Generating meme motifs... meme -oc results/motif.meme.crp0 -nostatus -dna -nmotifs 3 common/crp0.s /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ******************************************************************************* Test motif-in.meme.crp0.text ... SKIPPED! ******************************************************************************* Test motif-in.meme.crp0.xml ... SKIPPED! ******************************************************************************* Test motif-in.meme.crp0.html ... SKIPPED! ******************************************************************************* Generating meme motifs... meme -oc results/motif.meme.lipocalin -nostatus -protein -nmotifs 3 common/lipocalin.s /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ******************************************************************************* Test motif-in.meme.lipocalin.text ... SKIPPED! ******************************************************************************* Test motif-in.meme.lipocalin.xml ... SKIPPED! ******************************************************************************* Test motif-in.meme.lipocalin.html ... SKIPPED! ******************************************************************************* Generating meme motifs... meme -oc results/motif.meme.puf3p -nostatus -rna -nmotifs 3 common/Puf3p-20.s /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ******************************************************************************* Test motif-in.meme.puf3p.text ... SKIPPED! ******************************************************************************* Test motif-in.meme.puf3p.xml ... SKIPPED! ******************************************************************************* Test motif-in.meme.puf3p.html ... SKIPPED! ******************************************************************************* Generating meme motifs... meme -oc results/motif.meme.crp0.extdna -nostatus -alph common/extended_dna.alph -nmotifs 3 common/crp0.s /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output. ******************************************************************************* Test motif-in.meme.crp0.extdna.text ... SKIPPED! ******************************************************************************* Test motif-in.meme.crp0.extdna.xml ... SKIPPED! ******************************************************************************* Test motif-in.meme.crp0.extdna.html ... SKIPPED! ******************************************************************************* Generating dreme motifs... dreme -oc results/motif.dreme.klf1 -dna -m 3 -p common/Klf1.s /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create HTML file. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create text file. Reading positive sequences common/Klf1.s ... Shuffling positive sequences... Looking for motif 1... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 41938 words... Generalizing top 100 of 41938 REs to 1 ambiguous characters... Generalizing top 100 of 686 REs to 2 ambiguous characters... Generalizing top 61 of 61 REs to 3 ambiguous characters... Generalizing top 3 of 3 REs to 4 ambiguous characters... Computing exact p-values for 100 REs... Best RE was CCMCRCCC GGGYGKGG p-value= 1.8e-071 E-value= 7.6e-067 Unerased_E-value= 7.6e-067 Erasing best word (CCMCRCCC GGGYGKGG)... Looking for motif 2... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 41909 words... Generalizing top 100 of 41909 REs to 1 ambiguous characters... Generalizing top 100 of 642 REs to 2 ambiguous characters... Generalizing top 58 of 58 REs to 3 ambiguous characters... Computing exact p-values for 100 REs... Best RE was BTTATCW WGATAAV p-value= 5.6e-038 E-value= 2.4e-033 Unerased_E-value= 1.3e-033 Erasing best word (BTTATCW WGATAAV)... Looking for motif 3... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 41808 words... Generalizing top 100 of 41808 REs to 1 ambiguous characters... Generalizing top 100 of 637 REs to 2 ambiguous characters... Generalizing top 34 of 34 REs to 3 ambiguous characters... Computing exact p-values for 100 REs... Best RE was MCRCCCA TGGGYGK p-value= 6.9e-024 E-value= 2.9e-019 Unerased_E-value= 2.5e-040 Stopping due to hitting the maximum count. 3 motifs with E-value < 0.05 found in 233.5 seconds. Creating HTML file. Creating text file. ******************************************************************************* Test motif-in.dreme.klf1.text ... SKIPPED! ******************************************************************************* Test motif-in.dreme.klf1.xml ... meme2images -eps results/motif.dreme.klf1/dreme.xml results/motif-in.dreme.klf1.xml PASSED! ******************************************************************************* Test motif-in.dreme.klf1.html ... SKIPPED! ******************************************************************************* Generating dreme motifs... dreme -oc results/motif.dreme.klf1.extdna -alph common/extended_dna.alph -m 3 -p common/Klf1.s /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create HTML file. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create text file. Reading positive sequences common/Klf1.s ... Shuffling positive sequences... Looking for motif 1... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 41938 words... Generalizing top 100 of 41938 REs to 1 ambiguous characters... Generalizing top 100 of 695 REs to 2 ambiguous characters... Generalizing top 62 of 62 REs to 3 ambiguous characters... Generalizing top 3 of 3 REs to 4 ambiguous characters... Computing exact p-values for 100 REs... Best RE was CCMCRCCC GGGYGKGG p-value= 1.8e-071 E-value= 7.6e-067 Unerased_E-value= 7.6e-067 Erasing best word (CCMCRCCC GGGYGKGG)... Looking for motif 2... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 41909 words... Generalizing top 100 of 41909 REs to 1 ambiguous characters... Generalizing top 100 of 650 REs to 2 ambiguous characters... Generalizing top 57 of 57 REs to 3 ambiguous characters... Computing exact p-values for 100 REs... Best RE was BTTATCW WGATAAV p-value= 5.6e-038 E-value= 2.4e-033 Unerased_E-value= 1.3e-033 Erasing best word (BTTATCW WGATAAV)... Looking for motif 3... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 41808 words... Generalizing top 100 of 41808 REs to 1 ambiguous characters... Generalizing top 100 of 644 REs to 2 ambiguous characters... Generalizing top 32 of 32 REs to 3 ambiguous characters... Computing exact p-values for 100 REs... Best RE was MCRCCCA TGGGYGK p-value= 6.9e-024 E-value= 2.9e-019 Unerased_E-value= 2.5e-040 Stopping due to hitting the maximum count. 3 motifs with E-value < 0.05 found in 331.6 seconds. Creating HTML file. Creating text file. ******************************************************************************* Test motif-in.dreme.klf1.extdna.text ... SKIPPED! ******************************************************************************* Test motif-in.dreme.klf1.extdna.xml ... meme2images -eps results/motif.dreme.klf1.extdna/dreme.xml results/motif-in.dreme.klf1.extdna.xml PASSED! ******************************************************************************* Test motif-in.dreme.klf1.extdna.html ... SKIPPED! ******************************************************************************* Generating dreme motifs... dreme -oc results/motif.dreme.puf3p -rna -m 3 -p common/Puf3p.s /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create HTML file. /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Failed to create text file. Reading positive sequences common/Puf3p.s ... Shuffling positive sequences... Looking for motif 1... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 58954 words... Generalizing top 100 of 58954 REs to 1 ambiguous characters... Generalizing top 100 of 499 REs to 2 ambiguous characters... Generalizing top 35 of 35 REs to 3 ambiguous characters... Computing exact p-values for 100 REs... Best RE was UGUAHAUA p-value= 2.1e-068 E-value= 1.2e-063 Unerased_E-value= 1.2e-063 Erasing best word (UGUAHAUA)... Looking for motif 2... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 58665 words... Generalizing top 100 of 58665 REs to 1 ambiguous characters... Generalizing top 100 of 270 REs to 2 ambiguous characters... Generalizing top 14 of 14 REs to 3 ambiguous characters... Computing exact p-values for 100 REs... Best RE was YAUAUAWA p-value= 2.3e-019 E-value= 1.3e-014 Unerased_E-value= 1.7e-020 Erasing best word (YAUAUAWA)... Looking for motif 3... Counting positive sequences with each word... Counting negative sequences with each word... Applying Fisher's Exact Test to 58552 words... Generalizing top 100 of 58552 REs to 1 ambiguous characters... Generalizing top 100 of 201 REs to 2 ambiguous characters... Generalizing top 24 of 24 REs to 3 ambiguous characters... Computing exact p-values for 100 REs... Best RE was GAARR p-value= 1.1e-014 E-value= 6.2e-010 Unerased_E-value= 6.2e-010 Stopping due to hitting the maximum count. 3 motifs with E-value < 0.05 found in 33.0 seconds. Creating HTML file. Creating text file. ******************************************************************************* Test motif-in.dreme.puf3p.text ... SKIPPED! ******************************************************************************* Test motif-in.dreme.puf3p.xml ... meme2images -eps results/motif.dreme.puf3p/dreme.xml results/motif-in.dreme.puf3p.xml PASSED! ******************************************************************************* Test motif-in.dreme.puf3p.html ... SKIPPED! RUN: motiph =========== ******************************************************************************* Test motiph1 ... motiph --seed 0 --bg 2 --pseudocount 0.01 --oc results/motiph1 motiph/spiked.aln motiph/yeast.tree motiph/MCM1.meme.html &> log Using motif +1 of width 13. Read alignment from motiph/spiked.aln. Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600); Computing q-values. Estimating pi_0 from all 879 observed p-values. Estimating pi_0. Estimated pi_0=0.859743 Using motif -1 of width 13. Read alignment from motiph/spiked.aln. Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600); Computing q-values. Estimating pi_0 from all 879 observed p-values. Estimating pi_0. Estimated pi_0=0.813862 Total number of positions scored: 1758 PASSED! ******************************************************************************* Test motiph2 ... motiph --seed 0 --bg 2 --pseudocount 0.01 --oc results/motiph2 --output-pthresh 1 --motif 2 --motif 3 motiph/spiked.aln motiph/yeast.tree common/crp0.meme.html &> log Using motif +2 of width 8. Read alignment from motiph/spiked.aln. Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600); Computing q-values. Estimating pi_0 from all 1243 observed p-values. Estimating pi_0. Estimated pi_0=1 Using motif -2 of width 8. Read alignment from motiph/spiked.aln. Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600); Computing q-values. Estimating pi_0 from all 1243 observed p-values. Estimating pi_0. Estimated pi_0=1 Using motif +3 of width 11. Read alignment from motiph/spiked.aln. Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600); Computing q-values. Estimating pi_0 from all 1014 observed p-values. Estimating pi_0. Estimated pi_0=1 Using motif -3 of width 11. Read alignment from motiph/spiked.aln. Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600); Computing q-values. Estimating pi_0 from all 1014 observed p-values. Estimating pi_0. Estimated pi_0=1 Total number of positions scored: 4514 PASSED! RUN: pspgen =========== ******************************************************************************* Test psp-gen1 ... psp-gen -revcomp -pos psp-gen/one-peak-dna.fasta -neg psp-gen/all-A.fasta 1> results/pspgen1/psp-gen_KuY90_stdout 2> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck ------------------------------------------------------------------------------- psp-gen exited with value 127 indicating failure. FAILED! ******************************************************************************* Test psp-gen2 ... psp-gen -protein -maxrange -triples -pos psp-gen/one-peak-protein.fasta -neg psp-gen/all-A.fasta 1> results/pspgen2/psp-gen_mHjM1_stdout 2> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck ------------------------------------------------------------------------------- psp-gen exited with value 127 indicating failure. FAILED! ******************************************************************************* Test psp-gen3 ... psp-gen -alph common/extended_dna.alph -revcomp -pos psp-gen/one-peak-dna.fasta -neg psp-gen/all-A.fasta 1> results/pspgen1/psp-gen_wRaz4_stdout 2> log /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck ------------------------------------------------------------------------------- psp-gen exited with value 127 indicating failure. FAILED! RUN: qvalue =========== ******************************************************************************* Test qvalue1 ... qvalue --header 1 --append --column 2 --seed 7718 qvalue/uniform.txt 1> results/qvalue1/qvalue__payz_stdout 2> log Read 1000 values from qvalue/uniform.txt. PASSED! RUN: spamo ========== ******************************************************************************* Test spamo1 ... spamo -oc results/spamo1 -verbosity 1 -margin 20 -shared 1 spamo/limits.fasta spamo/primary.meme spamo/secondary.meme &> log PASSED! ******************************************************************************* Test spamo2 ... spamo -oc results/spamo2 -verbosity 1 -margin 20 -shared 1 spamo/random.fasta spamo/primary.meme spamo/secondary.meme &> log PASSED! RUN: tomtom =========== ******************************************************************************* Test tomtom_allr ... tomtom -verbosity 1 -dist allr -oc results/tomtom1 -incomplete-scores common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_ed ... tomtom -verbosity 1 -dist ed -oc results/tomtom2 -incomplete-scores common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_kullback ... tomtom -verbosity 1 -dist kullback -oc results/tomtom3 -incomplete-scores common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_pearson ... tomtom -verbosity 1 -dist pearson -oc results/tomtom4 -incomplete-scores common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_sandelin ... tomtom -verbosity 1 -dist sandelin -oc results/tomtom5 -incomplete-scores common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_blic1 ... tomtom -verbosity 1 -dist blic1 -oc results/tomtom6 -incomplete-scores common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_blic5 ... tomtom -verbosity 1 -dist blic5 -oc results/tomtom7 -incomplete-scores common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_allr_cs ... tomtom -verbosity 1 -dist allr -oc results/tomtom8 common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_ed_cs ... tomtom -verbosity 1 -dist ed -oc results/tomtom9 common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_kullback_cs ... tomtom -verbosity 1 -dist kullback -oc results/tomtom10 common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_pearson_cs ... tomtom -verbosity 1 -dist pearson -oc results/tomtom11 common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_sandelin_cs ... tomtom -verbosity 1 -dist sandelin -oc results/tomtom12 common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_blic1_cs ... tomtom -verbosity 1 -dist blic1 -oc results/tomtom13 common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED! ******************************************************************************* Test tomtom_blic5_cs ... tomtom -verbosity 1 -dist blic5 -oc results/tomtom14 common/sample.meme common/sample.meme &> log Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation /usr/bin/perl: symbol lookup error: /sw/comp/perl_modules/5.18.4/milou/lib/perl5/x86_64-linux-thread-multi/auto/Cwd/Cwd.so: undefined symbol: Perl_xs_apiversion_bootcheck Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output. ------------------------------------------------------------------------------- tomtom exited with value 1 indicating failure. FAILED!