FAIL: fasta-dinucleotide-shuffle1

[yifeng yuan]

Hi all,

I am running into a installation problem.

config.log shows that fatal error: vfork.h: No such file or directory.

make test show that "FAIL: fasta-dinucleotide-shuffle1". I have updated all
dependencies (at least I thought) , but still can not fix it. Can anyone
advice please? Thank you.

#### Environment info:

Ubuntu 18.04.2 LTS terminal on Windows 10

meme-5.3.2

autoconf (GNU Autoconf) 2.69

gcc (Ubuntu 10.1.0-2ubuntu1~18.04) 10.1.0

g++ (Ubuntu 10.1.0-2ubuntu1~18.04) 10.1.0

This is perl 5, version 26, subversion 1 (v5.26.1) built for
x86_64-linux-gnu-thread-multi
(with 67 registered patches, see perl -V for more
detail)

Python 3.8.0

############### config.log

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 whether make supports the include directive... yes (GNU style)

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... 1572864

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... mt

checking if mt 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/lib/sendmail

checking for perl... /usr/bin/perl

checking for convert... no

checking for gs... /usr/bin/gs

checking for xml2-config... no

checking for xslt-config... no

checking for ant... /usr/bin/ant

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

configure: WARNING: libxml2 library not found

configure: WARNING: libxslt library not found

checking for mpicc... /usr/bin/mpicc

checking for mpirun... /usr/bin/mpirun

checking for MPI_Comm_rank in -lmpi... yes

checking for perl... (cached) /usr/bin/perl

checking for python... /usr/bin/python

checking whether /usr/bin/python version is >= 2.7... yes

checking for /usr/bin/python version... 3.8

checking for /usr/bin/python platform... linux

checking for /usr/bin/python script directory...
${prefix}/lib/python3.8/site-packages

checking for /usr/bin/python extension module directory...
${exec_prefix}/lib/python3.8/site-packages

checking for convert... no

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/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/meme-chip/Makefile

config.status: creating tests/mhmm/Makefile

config.status: creating tests/mhmms/Makefile

config.status: creating tests/mhmmscan/Makefile

config.status: creating tests/momo/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/streme/Makefile

config.status: creating tests/scripts/Makefile

config.status: creating tests/tgene/Makefile

config.status: creating tests/tomtom/Makefile

config.status: creating tests/web/Makefile

config.status: creating website/Makefile

config.status: creating website/templates/Makefile

config.status: creating config.h

config.status: config.h is unchanged

config.status: executing depfiles commands

config.status: executing libtool commands

configure: WARNING:

Checking Required Perl Modules:


Checking Optional Modules:

Log::Log4perl missing. Used for logging and debugging by developers.

Math::CDF missing. Only required for fasta-enriched-center script (which is
not called by the web scripts).

XML::Compile::WSDL11 missing. Used for downloading sequence databases from
RSAT


========================

Configuration parameters

========================


Install path: /home/yifeng/meme

Install UID:

Version: 5.3.2

C compiler: gcc

C compiler flags: -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3

Linker: /usr/bin/ld -m elf_x86_64

Special Libs: -lmpi -lz -lm

MPICC /usr/bin/mpicc

MPIRUN /usr/bin/mpirun

MPI_CMD /usr/bin/mpirun -np

MPIINC -DMPI -I/usr/include

MPILIBDIR /usr/lib

MPIFLAGS -DPARALLEL

OPAL URL: no

OPAL DEPLOY DIRECTORY:

BUILD LIBXML2: yes

LIBXML2 compiler flags: -I${top_srcdir}/src/libxml2/include

LIBXML2 libs: ${top_builddir}/src/libxml2/libxml2.la

BUILD LIBXSLT: yes

LIBXSLT compiler flags: -I${top_srcdir}/src/

LIBXSLT libs: ${top_builddir}/src/libxslt/libxslt.la

SOURCE URL: https://meme-suite.org

WEBSITE URL: https://meme-suite.org/meme

ALTERNATE WEBSITE URL:

PREVIOUS VERSION URL:

PREVIOUS VERSION:

NOTICES URL: ./notices.txt

NEWS URL: ./news.txt

WEBSITE CONTACT:

DEVELOPER CONTACT: meme-...@uw.edu

GO-SERVER URL:
http://amigo.geneontology.org/amigo/term/GO_TERM_ID

MEME DB: ${datarootdir}/${PACKAGE_NAME}-5.3.2/db

MEME LOGS: ${localstatedir}/${PACKAGE_NAME}-5.3.2/LOGS

MEME TEMP FILES:

PERL: /usr/bin/perl

PYTHON: /usr/bin/python

PYTHON VERSiON: 3.8

CONVERT:

GHOSTSCRIPT: /usr/bin/gs

QUOTA:

EXPIRY: 4

DRMAA QUEUE:

DRMAA QUEUE SHORT:

MAXTIME: 14400

MAXTIME SHORT: 300

MAXMEMORY: 4

MAXMEMORY SHORT: 1

STREME LENGTH FACTOR: 1e6


Run the following commands to compile, test and install meme:

make

make test

make install


Then make sure that the following two directories are added to

your PATH variable:

/home/yifeng/meme/bin

/home/yifeng/meme/libexec/meme-5.3.2


This can often be done by editing the file named .profile to add

the following line:

export PATH=/home/yifeng/meme/bin:/home/yifeng/meme/libexec/meme-5.3.2:$PATH


: checking for strings.h

configure:8033: gcc -c -g -O2 conftest.c >&5

configure:8033: $? = 0

configure:8033: result: yes

configure:8033: checking for inttypes.h

configure:8033: gcc -c -g -O2 conftest.c >&5

configure:8033: $? = 0

configure:8033: result: yes

configure:8033: checking for stdint.h

configure:8033: gcc -c -g -O2 conftest.c >&5

configure:8033: $? = 0

configure:8033: result: yes

configure:8033: checking for unistd.h

configure:8033: gcc -c -g -O2 conftest.c >&5

configure:8033: $? = 0

configure:8033: result: yes

configure:8047: checking for dlfcn.h

configure:8047: gcc -c -g -O2 conftest.c >&5

configure:8047: $? = 0

configure:8047: result: yes

configure:8303: checking for objdir

configure:8318: result: .libs

configure:8582: checking if gcc supports -fno-rtti -fno-exceptions

configure:8600: gcc -c -g -O2 -fno-rtti -fno-exceptions conftest.c >&5

cc1: warning: command-line option '-fno-rtti' is valid for C++/D/ObjC++ but
not for C

configure:8604: $? = 0

configure:8617: result: no

configure:8975: checking for gcc option to produce PIC

configure:8982: result: -fPIC -DPIC

configure:8990: checking if gcc PIC flag -fPIC -DPIC works

configure:9008: gcc -c -g -O2 -fPIC -DPIC -DPIC conftest.c >&5

configure:9012: $? = 0

configure:9025: result: yes

configure:9054: checking if gcc static flag -static works

configure:9082: result: yes

configure:9097: checking if gcc supports -c -o file.o

configure:9118: gcc -c -g -O2 -o out/conftest2.o conftest.c >&5

configure:9122: $? = 0

configure:9144: result: yes

configure:9152: checking if gcc supports -c -o file.o

configure:9199: result: yes

configure:9232: checking whether the gcc linker (/usr/bin/ld -m elf_x86_64)
supports shared libraries

configure:10491: result: yes

configure:10528: checking whether -lc should be explicitly linked in

configure:10536: gcc -c -g -O2 conftest.c >&5

configure:10539: $? = 0

configure:10554: gcc -shared -fPIC -DPIC conftest.o -v -Wl,-soname
-Wl,conftest -o conftest 2\>\&1 \| /bin/grep -lc \>/dev/null 2\>\&1

configure:10557: $? = 0

configure:10571: result: no

configure:10731: checking dynamic linker characteristics

configure:11312: gcc -o conftest -g -O2 -Wl,-rpath -Wl,/foo conftest.c
>&5

configure:11312: $? = 0

configure:11549: result: GNU/Linux ld.so

configure:11671: checking how to hardcode library paths into programs

configure:11696: result: immediate

configure:12244: checking whether stripping libraries is possible

configure:12249: result: yes

configure:12284: checking if libtool supports shared libraries

configure:12286: result: yes

configure:12289: checking whether to build shared libraries

configure:12314: result: yes

configure:12317: checking whether to build static libraries

configure:12321: result: yes

configure:12359: checking whether make sets $(MAKE)

configure:12381: result: yes

configure:12392: checking for ld

configure:12422: result: /usr/bin/ld -m elf_x86_64

configure:12432: checking for sed

configure:12462: result: /bin/sed

configure:12472: checking for sendmail

configure:12504: result: /usr/lib/sendmail

configure:12514: checking for perl

configure:12532: found /usr/bin/perl

configure:12544: result: /usr/bin/perl

configure:12554: checking for convert

configure:12587: result: no

configure:12594: checking for gs

configure:12612: found /usr/bin/gs

configure:12624: result: /usr/bin/gs

configure:12634: checking for xml2-config

configure:12667: result: no

configure:12674: checking for xslt-config

configure:12707: result: no

configure:12714: checking for ant

configure:12732: found /usr/bin/ant

configure:12744: result: /usr/bin/ant

configure:12760: checking for isnan, sqrt, log, exp, fabs, pow, floor, ceil
in -lm

configure:12785: gcc -o conftest -g -O2 conftest.c -lm >&5

conftest.c:31:6: warning: built-in function 'isnan' declared as
non-function [-Wbuiltin-declaration-mismatch]

31 | char isnan, sqrt, log, exp, fabs, pow, floor, ceil ();

| ^~~~~

conftest.c:31:13: warning: built-in function 'sqrt' declared as
non-function [-Wbuiltin-declaration-mismatch]

31 | char isnan, sqrt, log, exp, fabs, pow, floor, ceil ();

| ^~~~

conftest.c:31:19: warning: built-in function 'log' declared as non-function
[-Wbuiltin-declaration-mismatch]

31 | char isnan, sqrt, log, exp, fabs, pow, floor, ceil ();

| ^~~

conftest.c:31:24: warning: built-in function 'exp' declared as non-function
[-Wbuiltin-declaration-mismatch]

31 | char isnan, sqrt, log, exp, fabs, pow, floor, ceil ();

| ^~~

conftest.c:31:29: warning: built-in function 'fabs' declared as
non-function [-Wbuiltin-declaration-mismatch]

31 | char isnan, sqrt, log, exp, fabs, pow, floor, ceil ();

| ^~~~

conftest.c:31:35: warning: built-in function 'pow' declared as non-function
[-Wbuiltin-declaration-mismatch]

31 | char isnan, sqrt, log, exp, fabs, pow, floor, ceil ();

| ^~~

conftest.c:31:40: warning: built-in function 'floor' declared as
non-function [-Wbuiltin-declaration-mismatch]

31 | char isnan, sqrt, log, exp, fabs, pow, floor, ceil ();

| ^~~~~

conftest.c:31:47: warning: conflicting types for built-in function 'ceil';
expected 'double(double)' [-Wbuiltin-declaration-mismatch]

31 | char isnan, sqrt, log, exp, fabs, pow, floor, ceil ();

| ^~~~

conftest.c:1:1: note: 'ceil' is declared in header '<math.h>'

1 | /* confdefs.h */

configure:12785: $? = 0

configure:12794: result: yes

configure:12808: checking for compress in -lz

configure:12833: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:12833: $? = 0

configure:12842: result: yes

configure:12858: checking for ANSI C header files

configure:12962: result: yes

configure:12970: checking for sys/wait.h that is POSIX.1 compatible

configure:12996: gcc -c -g -O2 conftest.c >&5

configure:12996: $? = 0

configure:13003: result: yes

configure:13014: checking arpa/inet.h usability

configure:13014: gcc -c -g -O2 conftest.c >&5

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking arpa/inet.h presence

configure:13014: gcc -E conftest.c

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking for arpa/inet.h

configure:13014: result: yes

configure:13014: checking ctype.h usability

configure:13014: gcc -c -g -O2 conftest.c >&5

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking ctype.h presence

configure:13014: gcc -E conftest.c

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking for ctype.h

configure:13014: result: yes

configure:13014: checking fcntl.h usability

configure:13014: gcc -c -g -O2 conftest.c >&5

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking fcntl.h presence

configure:13014: gcc -E conftest.c

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking for fcntl.h

configure:13014: result: yes

configure:13014: checking limits.h usability

configure:13014: gcc -c -g -O2 conftest.c >&5

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking limits.h presence

configure:13014: gcc -E conftest.c

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking for limits.h

configure:13014: result: yes

configure:13014: checking netdb.h usability

configure:13014: gcc -c -g -O2 conftest.c >&5

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking netdb.h presence

configure:13014: gcc -E conftest.c

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking for netdb.h

configure:13014: result: yes

configure:13014: checking netinet/in.h usability

configure:13014: gcc -c -g -O2 conftest.c >&5

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking netinet/in.h presence

configure:13014: gcc -E conftest.c

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking for netinet/in.h

configure:13014: result: yes

configure:13014: checking for stdlib.h

configure:13014: result: yes

configure:13014: checking for string.h

configure:13014: result: yes

configure:13014: checking for strings.h

configure:13014: result: yes

configure:13014: checking sys/socket.h usability

configure:13014: gcc -c -g -O2 conftest.c >&5

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking sys/socket.h presence

configure:13014: gcc -E conftest.c

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking for sys/socket.h

configure:13014: result: yes

configure:13014: checking sys/time.h usability

configure:13014: gcc -c -g -O2 conftest.c >&5

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking sys/time.h presence

configure:13014: gcc -E conftest.c

configure:13014: $? = 0

configure:13014: result: yes

configure:13014: checking for sys/time.h

configure:13014: result: yes

configure:13014: checking for unistd.h

configure:13014: result: yes

configure:13026: checking for an ANSI C-conforming const

configure:13092: gcc -c -g -O2 conftest.c >&5

configure:13092: $? = 0

configure:13099: result: yes

configure:13107: checking for stdbool.h that conforms to C99

configure:13174: gcc -c -g -O2 conftest.c >&5

configure:13174: $? = 0

configure:13181: result: yes

configure:13183: checking for _Bool

configure:13183: gcc -c -g -O2 conftest.c >&5

configure:13183: $? = 0

configure:13183: gcc -c -g -O2 conftest.c >&5

conftest.c: In function 'main':

conftest.c:76:20: error: expected expression before ')' token

76 | if (sizeof ((_Bool)))

| ^

configure:13183: $? = 1

configure: failed program was:

| /* confdefs.h */

| #define PACKAGE_NAME "meme"

| #define PACKAGE_TARNAME "meme"

| #define PACKAGE_VERSION "5.3.2"

| #define PACKAGE_STRING "meme 5.3.2"

| #define PACKAGE_BUGREPORT ""

| #define PACKAGE_URL ""

| #define PACKAGE "meme"

| #define VERSION "5.3.2"

| #define STDC_HEADERS 1

| #define HAVE_SYS_TYPES_H 1

| #define HAVE_SYS_STAT_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_MEMORY_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_INTTYPES_H 1

| #define HAVE_STDINT_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE_DLFCN_H 1

| #define LT_OBJDIR ".libs/"

| #define HOSTNAME "T540P"

| #define HAVE_LIBM 1

| #define HAVE_LIBZ 1

| #define STDC_HEADERS 1

| #define HAVE_SYS_WAIT_H 1

| #define HAVE_ARPA_INET_H 1

| #define HAVE_CTYPE_H 1

| #define HAVE_FCNTL_H 1

| #define HAVE_LIMITS_H 1

| #define HAVE_NETDB_H 1

| #define HAVE_NETINET_IN_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_SYS_SOCKET_H 1

| #define HAVE_SYS_TIME_H 1

| #define HAVE_UNISTD_H 1

| /* end confdefs.h. */

| #include <stdio.h>

| #ifdef HAVE_SYS_TYPES_H

| # include <sys/types.h>

| #endif

| #ifdef HAVE_SYS_STAT_H

| # include <sys/stat.h>

| #endif

| #ifdef STDC_HEADERS

| # include <stdlib.h>

| # include <stddef.h>

| #else

| # ifdef HAVE_STDLIB_H

| # include <stdlib.h>

| # endif

| #endif

| #ifdef HAVE_STRING_H

| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H

| # include <memory.h>

| # endif

| # include <string.h>

| #endif

| #ifdef HAVE_STRINGS_H

| # include <strings.h>

| #endif

| #ifdef HAVE_INTTYPES_H

| # include <inttypes.h>

| #endif

| #ifdef HAVE_STDINT_H

| # include <stdint.h>

| #endif

| #ifdef HAVE_UNISTD_H

| # include <unistd.h>

| #endif

| int

| main ()

| {

| if (sizeof ((_Bool)))

| return 0;

| ;

| return 0;

| }

configure:13183: result: yes

configure:13200: checking for pid_t

configure:13200: gcc -c -g -O2 conftest.c >&5

configure:13200: $? = 0

configure:13200: gcc -c -g -O2 conftest.c >&5

conftest.c: In function 'main':

conftest.c:78:20: error: expected expression before ')' token

78 | if (sizeof ((pid_t)))

| ^

configure:13200: $? = 1

configure: failed program was:

| /* confdefs.h */

| #define PACKAGE_NAME "meme"

| #define PACKAGE_TARNAME "meme"

| #define PACKAGE_VERSION "5.3.2"

| #define PACKAGE_STRING "meme 5.3.2"

| #define PACKAGE_BUGREPORT ""

| #define PACKAGE_URL ""

| #define PACKAGE "meme"

| #define VERSION "5.3.2"

| #define STDC_HEADERS 1

| #define HAVE_SYS_TYPES_H 1

| #define HAVE_SYS_STAT_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_MEMORY_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_INTTYPES_H 1

| #define HAVE_STDINT_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE_DLFCN_H 1

| #define LT_OBJDIR ".libs/"

| #define HOSTNAME "T540P"

| #define HAVE_LIBM 1

| #define HAVE_LIBZ 1

| #define STDC_HEADERS 1

| #define HAVE_SYS_WAIT_H 1

| #define HAVE_ARPA_INET_H 1

| #define HAVE_CTYPE_H 1

| #define HAVE_FCNTL_H 1

| #define HAVE_LIMITS_H 1

| #define HAVE_NETDB_H 1

| #define HAVE_NETINET_IN_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_SYS_SOCKET_H 1

| #define HAVE_SYS_TIME_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE__BOOL 1

| #define HAVE_STDBOOL_H 1

| /* end confdefs.h. */

| #include <stdio.h>

| #ifdef HAVE_SYS_TYPES_H

| # include <sys/types.h>

| #endif

| #ifdef HAVE_SYS_STAT_H

| # include <sys/stat.h>

| #endif

| #ifdef STDC_HEADERS

| # include <stdlib.h>

| # include <stddef.h>

| #else

| # ifdef HAVE_STDLIB_H

| # include <stdlib.h>

| # endif

| #endif

| #ifdef HAVE_STRING_H

| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H

| # include <memory.h>

| # endif

| # include <string.h>

| #endif

| #ifdef HAVE_STRINGS_H

| # include <strings.h>

| #endif

| #ifdef HAVE_INTTYPES_H

| # include <inttypes.h>

| #endif

| #ifdef HAVE_STDINT_H

| # include <stdint.h>

| #endif

| #ifdef HAVE_UNISTD_H

| # include <unistd.h>

| #endif

| int

| main ()

| {

| if (sizeof ((pid_t)))

| return 0;

| ;

| return 0;

| }

configure:13200: result: yes

configure:13211: checking for size_t

configure:13211: gcc -c -g -O2 conftest.c >&5

configure:13211: $? = 0

configure:13211: gcc -c -g -O2 conftest.c >&5

conftest.c: In function 'main':

conftest.c:78:21: error: expected expression before ')' token

78 | if (sizeof ((size_t)))

| ^

configure:13211: $? = 1

configure: failed program was:

| /* confdefs.h */

| #define PACKAGE_NAME "meme"

| #define PACKAGE_TARNAME "meme"

| #define PACKAGE_VERSION "5.3.2"

| #define PACKAGE_STRING "meme 5.3.2"

| #define PACKAGE_BUGREPORT ""

| #define PACKAGE_URL ""

| #define PACKAGE "meme"

| #define VERSION "5.3.2"

| #define STDC_HEADERS 1

| #define HAVE_SYS_TYPES_H 1

| #define HAVE_SYS_STAT_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_MEMORY_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_INTTYPES_H 1

| #define HAVE_STDINT_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE_DLFCN_H 1

| #define LT_OBJDIR ".libs/"

| #define HOSTNAME "T540P"

| #define HAVE_LIBM 1

| #define HAVE_LIBZ 1

| #define STDC_HEADERS 1

| #define HAVE_SYS_WAIT_H 1

| #define HAVE_ARPA_INET_H 1

| #define HAVE_CTYPE_H 1

| #define HAVE_FCNTL_H 1

| #define HAVE_LIMITS_H 1

| #define HAVE_NETDB_H 1

| #define HAVE_NETINET_IN_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_SYS_SOCKET_H 1

| #define HAVE_SYS_TIME_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE__BOOL 1

| #define HAVE_STDBOOL_H 1

| /* end confdefs.h. */

| #include <stdio.h>

| #ifdef HAVE_SYS_TYPES_H

| # include <sys/types.h>

| #endif

| #ifdef HAVE_SYS_STAT_H

| # include <sys/stat.h>

| #endif

| #ifdef STDC_HEADERS

| # include <stdlib.h>

| # include <stddef.h>

| #else

| # ifdef HAVE_STDLIB_H

| # include <stdlib.h>

| # endif

| #endif

| #ifdef HAVE_STRING_H

| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H

| # include <memory.h>

| # endif

| # include <string.h>

| #endif

| #ifdef HAVE_STRINGS_H

| # include <strings.h>

| #endif

| #ifdef HAVE_INTTYPES_H

| # include <inttypes.h>

| #endif

| #ifdef HAVE_STDINT_H

| # include <stdint.h>

| #endif

| #ifdef HAVE_UNISTD_H

| # include <unistd.h>

| #endif

| int

| main ()

| {

| if (sizeof ((size_t)))

| return 0;

| ;

| return 0;

| }

configure:13211: result: yes

configure:13226: checking vfork.h usability

configure:13226: gcc -c -g -O2 conftest.c >&5

conftest.c:75:10: fatal error: vfork.h: No such file or directory

75 | #include <vfork.h>

| ^~~~~~~~~

compilation terminated.

configure:13226: $? = 1

configure: failed program was:

| /* confdefs.h */

| #define PACKAGE_NAME "meme"

| #define PACKAGE_TARNAME "meme"

| #define PACKAGE_VERSION "5.3.2"

| #define PACKAGE_STRING "meme 5.3.2"

| #define PACKAGE_BUGREPORT ""

| #define PACKAGE_URL ""

| #define PACKAGE "meme"

| #define VERSION "5.3.2"

| #define STDC_HEADERS 1

| #define HAVE_SYS_TYPES_H 1

| #define HAVE_SYS_STAT_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_MEMORY_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_INTTYPES_H 1

| #define HAVE_STDINT_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE_DLFCN_H 1

| #define LT_OBJDIR ".libs/"

| #define HOSTNAME "T540P"

| #define HAVE_LIBM 1

| #define HAVE_LIBZ 1

| #define STDC_HEADERS 1

| #define HAVE_SYS_WAIT_H 1

| #define HAVE_ARPA_INET_H 1

| #define HAVE_CTYPE_H 1

| #define HAVE_FCNTL_H 1

| #define HAVE_LIMITS_H 1

| #define HAVE_NETDB_H 1

| #define HAVE_NETINET_IN_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_SYS_SOCKET_H 1

| #define HAVE_SYS_TIME_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE__BOOL 1

| #define HAVE_STDBOOL_H 1

| /* end confdefs.h. */

| #include <stdio.h>

| #ifdef HAVE_SYS_TYPES_H

| # include <sys/types.h>

| #endif

| #ifdef HAVE_SYS_STAT_H

| # include <sys/stat.h>

| #endif

| #ifdef STDC_HEADERS

| # include <stdlib.h>

| # include <stddef.h>

| #else

| # ifdef HAVE_STDLIB_H

| # include <stdlib.h>

| # endif

| #endif

| #ifdef HAVE_STRING_H

| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H

| # include <memory.h>

| # endif

| # include <string.h>

| #endif

| #ifdef HAVE_STRINGS_H

| # include <strings.h>

| #endif

| #ifdef HAVE_INTTYPES_H

| # include <inttypes.h>

| #endif

| #ifdef HAVE_STDINT_H

| # include <stdint.h>

| #endif

| #ifdef HAVE_UNISTD_H

| # include <unistd.h>

| #endif

| #include <vfork.h>

configure:13226: result: no

configure:13226: checking vfork.h presence

configure:13226: gcc -E conftest.c

conftest.c:42:10: fatal error: vfork.h: No such file or directory

42 | #include <vfork.h>

| ^~~~~~~~~

compilation terminated.

configure:13226: $? = 1

configure: failed program was:

| /* confdefs.h */

| #define PACKAGE_NAME "meme"

| #define PACKAGE_TARNAME "meme"

| #define PACKAGE_VERSION "5.3.2"

| #define PACKAGE_STRING "meme 5.3.2"

| #define PACKAGE_BUGREPORT ""

| #define PACKAGE_URL ""

| #define PACKAGE "meme"

| #define VERSION "5.3.2"

| #define STDC_HEADERS 1

| #define HAVE_SYS_TYPES_H 1

| #define HAVE_SYS_STAT_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_MEMORY_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_INTTYPES_H 1

| #define HAVE_STDINT_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE_DLFCN_H 1

| #define LT_OBJDIR ".libs/"

| #define HOSTNAME "T540P"

| #define HAVE_LIBM 1

| #define HAVE_LIBZ 1

| #define STDC_HEADERS 1

| #define HAVE_SYS_WAIT_H 1

| #define HAVE_ARPA_INET_H 1

| #define HAVE_CTYPE_H 1

| #define HAVE_FCNTL_H 1

| #define HAVE_LIMITS_H 1

| #define HAVE_NETDB_H 1

| #define HAVE_NETINET_IN_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_SYS_SOCKET_H 1

| #define HAVE_SYS_TIME_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE__BOOL 1

| #define HAVE_STDBOOL_H 1

| /* end confdefs.h. */

| #include <vfork.h>

configure:13226: result: no

configure:13226: checking for vfork.h

configure:13226: result: no

configure:13239: checking for fork

configure:13239: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:65:6: warning: conflicting types for built-in function 'fork';
expected 'int(void)' [-Wbuiltin-declaration-mismatch]

65 | char fork ();

| ^~~~

configure:13239: $? = 0

configure:13239: result: yes

configure:13239: checking for vfork

configure:13239: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13239: $? = 0

configure:13239: result: yes

configure:13249: checking for working fork

configure:13271: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13271: $? = 0

configure:13271: ./conftest

configure:13271: $? = 0

configure:13281: result: yes

configure:13302: checking for working vfork

configure:13412: result: yes

configure:13439: checking for stdlib.h

configure:13439: result: yes

configure:13449: checking for GNU libc compatible malloc

configure:13473: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13473: $? = 0

configure:13473: ./conftest

configure:13473: $? = 0

configure:13483: result: yes

configure:13506: checking for stdlib.h

configure:13506: result: yes

configure:13516: checking for GNU libc compatible realloc

configure:13540: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13540: $? = 0

configure:13540: ./conftest

configure:13540: $? = 0

configure:13550: result: yes

configure:13571: checking return type of signal handlers

configure:13589: gcc -c -g -O2 conftest.c >&5

conftest.c: In function 'main':

conftest.c:56:10: error: void value not ignored as it ought to be

56 | return *(signal (0, 0)) (0) == 1;

| ~^~~~~~~~~~~~~~~~~~

configure:13589: $? = 1

configure: failed program was:

| /* confdefs.h */

| #define PACKAGE_NAME "meme"

| #define PACKAGE_TARNAME "meme"

| #define PACKAGE_VERSION "5.3.2"

| #define PACKAGE_STRING "meme 5.3.2"

| #define PACKAGE_BUGREPORT ""

| #define PACKAGE_URL ""

| #define PACKAGE "meme"

| #define VERSION "5.3.2"

| #define STDC_HEADERS 1

| #define HAVE_SYS_TYPES_H 1

| #define HAVE_SYS_STAT_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_MEMORY_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_INTTYPES_H 1

| #define HAVE_STDINT_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE_DLFCN_H 1

| #define LT_OBJDIR ".libs/"

| #define HOSTNAME "T540P"

| #define HAVE_LIBM 1

| #define HAVE_LIBZ 1

| #define STDC_HEADERS 1

| #define HAVE_SYS_WAIT_H 1

| #define HAVE_ARPA_INET_H 1

| #define HAVE_CTYPE_H 1

| #define HAVE_FCNTL_H 1

| #define HAVE_LIMITS_H 1

| #define HAVE_NETDB_H 1

| #define HAVE_NETINET_IN_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_SYS_SOCKET_H 1

| #define HAVE_SYS_TIME_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE__BOOL 1

| #define HAVE_STDBOOL_H 1

| #define HAVE_FORK 1

| #define HAVE_VFORK 1

| #define HAVE_WORKING_VFORK 1

| #define HAVE_WORKING_FORK 1

| #define HAVE_STDLIB_H 1

| #define HAVE_MALLOC 1

| #define HAVE_STDLIB_H 1

| #define HAVE_REALLOC 1

| /* end confdefs.h. */

| #include <sys/types.h>

| #include <signal.h>

|

| int

| main ()

| {

| return *(signal (0, 0)) (0) == 1;

| ;

| return 0;

| }

configure:13596: result: void

configure:13604: checking whether lstat correctly handles trailing slash

configure:13630: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13630: $? = 0

configure:13630: ./conftest

configure:13630: $? = 0

configure:13647: result: yes

configure:13666: checking whether stat accepts an empty string

configure:13686: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13686: $? = 0

configure:13686: ./conftest

configure:13686: $? = 0

configure:13696: result: no

configure:13715: checking for floor

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:75:6: warning: conflicting types for built-in function 'floor';
expected 'double(double)' [-Wbuiltin-declaration-mismatch]

75 | char floor ();

| ^~~~~

conftest.c:63:1: note: 'floor' is declared in header '<math.h>'

62 | # include <limits.h>

63 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for getcwd

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for gethostbyname

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for isascii

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:78:6: warning: conflicting types for built-in function
'isascii'; expected 'int(int)' [-Wbuiltin-declaration-mismatch]

78 | char isascii ();

| ^~~~~~~

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for memset

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:79:6: warning: conflicting types for built-in function 'memset';
expected 'void *(void *, int, long unsigned int)'
[-Wbuiltin-declaration-mismatch]

79 | char memset ();

| ^~~~~~

conftest.c:67:1: note: 'memset' is declared in header '<string.h>'

66 | # include <limits.h>

67 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for pow

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:80:6: warning: conflicting types for built-in function 'pow';
expected 'double(double, double)' [-Wbuiltin-declaration-mismatch]

80 | char pow ();

| ^~~

conftest.c:68:1: note: 'pow' is declared in header '<math.h>'

67 | # include <limits.h>

68 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for rint

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:81:6: warning: conflicting types for built-in function 'rint';
expected 'double(double)' [-Wbuiltin-declaration-mismatch]

81 | char rint ();

| ^~~~

conftest.c:69:1: note: 'rint' is declared in header '<math.h>'

68 | # include <limits.h>

69 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for socket

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for sqrt

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:83:6: warning: conflicting types for built-in function 'sqrt';
expected 'double(double)' [-Wbuiltin-declaration-mismatch]

83 | char sqrt ();

| ^~~~

conftest.c:71:1: note: 'sqrt' is declared in header '<math.h>'

70 | # include <limits.h>

71 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for strchr

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:84:6: warning: conflicting types for built-in function 'strchr';
expected 'char *(const char *, int)' [-Wbuiltin-declaration-mismatch]

84 | char strchr ();

| ^~~~~~

conftest.c:72:1: note: 'strchr' is declared in header '<string.h>'

71 | # include <limits.h>

72 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for strcspn

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:85:6: warning: conflicting types for built-in function
'strcspn'; expected 'long unsigned int(const char *, const char *)'
[-Wbuiltin-declaration-mismatch]

85 | char strcspn ();

| ^~~~~~~

conftest.c:73:1: note: 'strcspn' is declared in header '<string.h>'

72 | # include <limits.h>

73 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for strdup

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:86:6: warning: conflicting types for built-in function 'strdup';
expected 'char *(const char *)' [-Wbuiltin-declaration-mismatch]

86 | char strdup ();

| ^~~~~~

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for strspn

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:87:6: warning: conflicting types for built-in function 'strspn';
expected 'long unsigned int(const char *, const char *)'
[-Wbuiltin-declaration-mismatch]

87 | char strspn ();

| ^~~~~~

conftest.c:75:1: note: 'strspn' is declared in header '<string.h>'

74 | # include <limits.h>

75 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13715: checking for strstr

configure:13715: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

conftest.c:88:6: warning: conflicting types for built-in function 'strstr';
expected 'char *(const char *, const char *)'
[-Wbuiltin-declaration-mismatch]

88 | char strstr ();

| ^~~~~~

conftest.c:76:1: note: 'strstr' is declared in header '<string.h>'

75 | # include <limits.h>

76 | #else

configure:13715: $? = 0

configure:13715: result: yes

configure:13726: checking for strlcpy

configure:13726: gcc -o conftest -g -O2 conftest.c -lz -lm >&5

/tmp/cc86CQGu.o: In function `main':

/home/yifeng/bin/meme-5.3.2/conftest.c:100: undefined reference to `strlcpy'

collect2: error: ld returned 1 exit status

configure:13726: $? = 1

configure: failed program was:

| /* confdefs.h */

| #define PACKAGE_NAME "meme"

| #define PACKAGE_TARNAME "meme"

| #define PACKAGE_VERSION "5.3.2"

| #define PACKAGE_STRING "meme 5.3.2"

| #define PACKAGE_BUGREPORT ""

| #define PACKAGE_URL ""

| #define PACKAGE "meme"

| #define VERSION "5.3.2"

| #define STDC_HEADERS 1

| #define HAVE_SYS_TYPES_H 1

| #define HAVE_SYS_STAT_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_MEMORY_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_INTTYPES_H 1

| #define HAVE_STDINT_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE_DLFCN_H 1

| #define LT_OBJDIR ".libs/"

| #define HOSTNAME "T540P"

| #define HAVE_LIBM 1

| #define HAVE_LIBZ 1

| #define STDC_HEADERS 1

| #define HAVE_SYS_WAIT_H 1

| #define HAVE_ARPA_INET_H 1

| #define HAVE_CTYPE_H 1

| #define HAVE_FCNTL_H 1

| #define HAVE_LIMITS_H 1

| #define HAVE_NETDB_H 1

| #define HAVE_NETINET_IN_H 1

| #define HAVE_STDLIB_H 1

| #define HAVE_STRING_H 1

| #define HAVE_STRINGS_H 1

| #define HAVE_SYS_SOCKET_H 1

| #define HAVE_SYS_TIME_H 1

| #define HAVE_UNISTD_H 1

| #define HAVE__BOOL 1

| #define HAVE_STDBOOL_H 1

| #define HAVE_FORK 1

| #define HAVE_VFORK 1

| #define HAVE_WORKING_VFORK 1

| #define HAVE_WORKING_FORK 1

| #define HAVE_STDLIB_H 1

| #define HAVE_MALLOC 1

| #define HAVE_STDLIB_H 1

| #define HAVE_REALLOC 1

| #define RETSIGTYPE void

| #define LSTAT_FOLLOWS_SLASHED_SYMLINK 1

| #define HAVE_FLOOR 1

| #define HAVE_GETCWD 1

| #define HAVE_GETHOSTBYNAME 1

| #define HAVE_ISASCII 1

| #define HAVE_MEMSET 1

| #define HAVE_POW 1

| #define HAVE_RINT 1

| #define HAVE_SOCKET 1

| #define HAVE_SQRT 1

| #define HAVE_STRCHR 1

| #define HAVE_STRCSPN 1

| #define HAVE_STRDUP 1

| #define HAVE_STRSPN 1

| #define HAVE_STRSTR 1

| /* end confdefs.h. */

| /* Define strlcpy to an innocuous variant, in case <limits.h> declares
strlcpy.

| For example, HP-UX 11i <limits.h> declares gettimeofday. */

| #define strlcpy innocuous_strlcpy

|

| /* System header to define __stub macros and hopefully few prototypes,

| which can conflict with char strlcpy (); below.

| Prefer <limits.h> to <assert.h> if __STDC__ is defined, since

| <limits.h> exists even on freestanding compilers. */

|

| #ifdef __STDC__

| # include <limits.h>

| #else

| # include <assert.h>

| #endif

|

| #undef strlcpy

|

| /* Override any GCC internal prototype to avoid an error.

| Use char because int might match the return type of a GCC

| builtin and then its argument prototype would still apply. */

| #ifdef __cplusplus

| extern "C"

| #endif

| char strlcpy ();

| /* The GNU C library defines this for functions which it implements

| to always fail with ENOSYS. Some functions are actually named

| something starting with __ and the normal name is an alias. */

| #if defined __stub_strlcpy || defined __stub___strlcpy

| choke me

| #endif

|

| int

| main ()

| {

| return strlcpy ();

| ;

| return 0;

| }

configure:13726: result: no

configure:13782: WARNING: libxml2 library not found

configure:13797: WARNING: libxslt library not found

configure:14201: checking for mpicc

configure:14219: found /usr/bin/mpicc

configure:14231: result: /usr/bin/mpicc

configure:14246: checking for mpirun

configure:14264: found /usr/bin/mpirun

configure:14276: result: /usr/bin/mpirun

configure:14295: checking for MPI_Comm_rank in -lmpi

configure:14320: gcc -o conftest -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ conftest.c -lmpi -lz -lm >&5

configure:14320: $? = 0

configure:14329: result: yes

configure:14844: checking for perl

configure:14874: result: /usr/bin/perl

configure:14921: checking for python

configure:14939: found /usr/bin/python

configure:14951: result: /usr/bin/python

configure:14974: checking whether /usr/bin/python version is >= 2.7

configure:14985: /usr/bin/python -c import sys # split strings by '.' and
convert to numeric. Append some zeros # because we need at least 4 digits
for the hex conversion. # map returns an iterator in Python 3.0 and a list
in 2.x minver = list(map(int, '2.7'.split('.'))) + [0, 0, 0] minverhex = 0
# xrange is not present in Python 3.0 and range returns an iterator for i
in list(range(0, 4)): minverhex = (minverhex << 8) + minver[i]
sys.exit(sys.hexversion < minverhex)

configure:14988: $? = 0

configure:14990: result: yes

configure:15083: checking for /usr/bin/python version

configure:15090: result: 3.8

configure:15102: checking for /usr/bin/python platform

configure:15109: result: linux

configure:15135: checking for /usr/bin/python script directory

configure:15170: result: ${prefix}/lib/python3.8/site-packages

configure:15179: checking for /usr/bin/python extension module directory

configure:15214: result: ${exec_prefix}/lib/python3.8/site-packages

configure:15275: checking for convert

configure:15308: result: no

configure:15352: checking for gs

configure:15382: result: /usr/bin/gs

configure:15737: checking that generated files are newer than configure

configure:15743: result: done

configure:15810: creating ./config.status


## ---------------------- ##

## Running config.status. ##

## ---------------------- ##


This file was extended by meme config.status 5.3.2, which was

generated by GNU Autoconf 2.69. Invocation command line was


CONFIG_FILES =

CONFIG_HEADERS =

CONFIG_LINKS =

CONFIG_COMMANDS =

$ ./config.status


on T540P


config.status:1435: creating Makefile

config.status:1435: creating doc/Makefile

config.status:1435: creating doc/css/Makefile

config.status:1435: creating doc/examples/Makefile

config.status:1435: creating
doc/examples/compute_prior_dist_example_output_files/Makefile

config.status:1435: creating doc/examples/sample_opal_scripts/Makefile

config.status:1435: creating doc/images/Makefile

config.status:1435: creating doc/js/Makefile

config.status:1435: creating etc/Makefile

config.status:1435: creating src/filters/Makefile

config.status:1435: creating src/filters/purge/Makefile

config.status:1435: creating src/filters/dust/Makefile

config.status:1435: creating scripts/Makefile

config.status:1435: creating src/Makefile

config.status:1435: creating src/libxml2/Makefile

config.status:1435: creating src/libxml2/include/Makefile

config.status:1435: creating src/libxml2/include/libxml/Makefile

config.status:1435: creating src/libxslt/Makefile

config.status:1435: creating src/parallel/Makefile

config.status:1435: creating tests/Makefile

config.status:1435: creating tests/ame/Makefile

config.status:1435: creating tests/centrimo/Makefile

config.status:1435: creating tests/clustalw2fasta/Makefile

config.status:1435: creating tests/common/Makefile

config.status:1435: creating tests/common/motif.crp0/Makefile

config.status:1435: creating tests/common/motif.Puf3p/Makefile

config.status:1435: creating tests/create-priors/Makefile

config.status:1435: creating tests/draw-mhmm/Makefile

config.status:1435: creating tests/dreme/Makefile

config.status:1435: creating tests/fasta-center/Makefile

config.status:1435: creating tests/fimo/Makefile

config.status:1435: creating tests/glam2/Makefile

config.status:1435: creating tests/glam2scan/Makefile

config.status:1435: creating tests/gomo/Makefile

config.status:1435: creating tests/mast/Makefile

config.status:1435: creating tests/mcast/Makefile

config.status:1435: creating tests/meme/Makefile

config.status:1435: creating tests/meme-chip/Makefile

config.status:1435: creating tests/mhmm/Makefile

config.status:1435: creating tests/mhmms/Makefile

config.status:1435: creating tests/mhmmscan/Makefile

config.status:1435: creating tests/momo/Makefile

config.status:1435: creating tests/motiph/Makefile

config.status:1435: creating tests/psp-gen/Makefile

config.status:1435: creating tests/qvalue/Makefile

config.status:1435: creating tests/scaffold/Makefile

config.status:1435: creating tests/spamo/Makefile

config.status:1435: creating tests/streme/Makefile

config.status:1435: creating tests/scripts/Makefile

config.status:1435: creating tests/tgene/Makefile

config.status:1435: creating tests/tomtom/Makefile

config.status:1435: creating tests/web/Makefile

config.status:1435: creating website/Makefile

config.status:1435: creating website/templates/Makefile

config.status:1435: creating config.h

config.status:1616: config.h is unchanged

config.status:1695: executing depfiles commands

config.status:1772: cd src/filters/purge && sed -e '/#
am--include-marker/d' Makefile | make -f - am--depfiles

make: Nothing to be done for 'am--depfiles'.

config.status:1777: $? = 0

config.status:1772: cd src/filters/dust && sed -e '/#
am--include-marker/d' Makefile | make -f - am--depfiles

make: Nothing to be done for 'am--depfiles'.

config.status:1777: $? = 0

config.status:1772: cd src && sed -e '/# am--include-marker/d'
Makefile | make -f - am--depfiles

make: Nothing to be done for 'am--depfiles'.

config.status:1777: $? = 0

config.status:1772: cd src/libxml2 && sed -e '/#
am--include-marker/d' Makefile | make -f - am--depfiles

make: Nothing to be done for 'am--depfiles'.

config.status:1777: $? = 0

config.status:1772: cd src/libxslt && sed -e '/#
am--include-marker/d' Makefile | make -f - am--depfiles

make: Nothing to be done for 'am--depfiles'.

config.status:1777: $? = 0

config.status:1772: cd src/parallel && sed -e '/#
am--include-marker/d' Makefile | make -f - am--depfiles

make: Nothing to be done for 'am--depfiles'.

config.status:1777: $? = 0

config.status:1695: executing libtool commands

configure:18217: WARNING:

Checking Required Perl Modules:


Checking Optional Modules:

Log::Log4perl missing. Used for logging and debugging by developers.

Math::CDF missing. Only required for fasta-enriched-center script (which is
not called by the web scripts).

XML::Compile::WSDL11 missing. Used for downloading sequence databases from
RSAT


## ---------------- ##

## Cache variables. ##

## ---------------- ##


ac_cv_build=x86_64-unknown-linux-gnu

ac_cv_c_compiler_gnu=yes

ac_cv_c_const=yes

ac_cv_env_CC_set=

ac_cv_env_CC_value=

ac_cv_env_CFLAGS_set=

ac_cv_env_CFLAGS_value=

ac_cv_env_CPPFLAGS_set=

ac_cv_env_CPPFLAGS_value=

ac_cv_env_CPP_set=

ac_cv_env_CPP_value=

ac_cv_env_LDFLAGS_set=

ac_cv_env_LDFLAGS_value=

ac_cv_env_LIBS_set=

ac_cv_env_LIBS_value=

ac_cv_env_LT_SYS_LIBRARY_PATH_set=

ac_cv_env_LT_SYS_LIBRARY_PATH_value=

ac_cv_env_PYTHON_set=

ac_cv_env_PYTHON_value=

ac_cv_env_build_alias_set=

ac_cv_env_build_alias_value=

ac_cv_env_host_alias_set=

ac_cv_env_host_alias_value=

ac_cv_env_target_alias_set=

ac_cv_env_target_alias_value=

ac_cv_func_floor=yes

ac_cv_func_fork=yes

ac_cv_func_fork_works=yes

ac_cv_func_getcwd=yes

ac_cv_func_gethostbyname=yes

ac_cv_func_isascii=yes

ac_cv_func_lstat_dereferences_slashed_symlink=yes

ac_cv_func_malloc_0_nonnull=yes

ac_cv_func_memset=yes

ac_cv_func_pow=yes

ac_cv_func_realloc_0_nonnull=yes

ac_cv_func_rint=yes

ac_cv_func_socket=yes

ac_cv_func_sqrt=yes

ac_cv_func_stat_empty_string_bug=no

ac_cv_func_strchr=yes

ac_cv_func_strcspn=yes

ac_cv_func_strdup=yes

ac_cv_func_strlcpy=no

ac_cv_func_strspn=yes

ac_cv_func_strstr=yes

ac_cv_func_vfork=yes

ac_cv_func_vfork_works=yes

ac_cv_header_arpa_inet_h=yes

ac_cv_header_ctype_h=yes

ac_cv_header_dlfcn_h=yes

ac_cv_header_fcntl_h=yes

ac_cv_header_inttypes_h=yes

ac_cv_header_limits_h=yes

ac_cv_header_memory_h=yes

ac_cv_header_netdb_h=yes

ac_cv_header_netinet_in_h=yes

ac_cv_header_stdbool_h=yes

ac_cv_header_stdc=yes

ac_cv_header_stdint_h=yes

ac_cv_header_stdlib_h=yes

ac_cv_header_string_h=yes

ac_cv_header_strings_h=yes

ac_cv_header_sys_socket_h=yes

ac_cv_header_sys_stat_h=yes

ac_cv_header_sys_time_h=yes

ac_cv_header_sys_types_h=yes

ac_cv_header_sys_wait_h=yes

ac_cv_header_unistd_h=yes

ac_cv_header_vfork_h=no

ac_cv_host=x86_64-unknown-linux-gnu

ac_cv_lib_m_isnan__sqrt__log__exp__fabs__pow__floor__ceil=yes

ac_cv_lib_mpi_MPI_Comm_rank=yes

ac_cv_lib_z_compress=yes

ac_cv_objext=o

ac_cv_path_ANT=/usr/bin/ant

ac_cv_path_EGREP='/bin/grep -E'

ac_cv_path_FGREP='/bin/grep -F'

ac_cv_path_GHOSTSCRIPT=/usr/bin/gs

ac_cv_path_GREP=/bin/grep

ac_cv_path_LD='/usr/bin/ld -m elf_x86_64'

ac_cv_path_MPICC=/usr/bin/mpicc

ac_cv_path_MPIRUN=/usr/bin/mpirun

ac_cv_path_PERL=/usr/bin/perl

ac_cv_path_PYTHON=/usr/bin/python

ac_cv_path_SED=/bin/sed

ac_cv_path_SENDMAIL=/usr/lib/sendmail

ac_cv_path_install='/usr/bin/install -c'

ac_cv_path_lt_DD=/bin/dd

ac_cv_path_mkdir=/bin/mkdir

ac_cv_prog_AWK=gawk

ac_cv_prog_CPP='gcc -E'

ac_cv_prog_ac_ct_AR=ar

ac_cv_prog_ac_ct_CC=gcc

ac_cv_prog_ac_ct_MANIFEST_TOOL=mt

ac_cv_prog_ac_ct_OBJDUMP=objdump

ac_cv_prog_ac_ct_RANLIB=ranlib

ac_cv_prog_ac_ct_STRIP=strip

ac_cv_prog_cc_c89=

ac_cv_prog_cc_g=yes

ac_cv_prog_cc_gcc_c_o=yes

ac_cv_prog_make_make_set=yes

ac_cv_type__Bool=yes

ac_cv_type_pid_t=yes

ac_cv_type_signal=void

ac_cv_type_size_t=yes

am_cv_CC_dependencies_compiler_type=gcc3

am_cv_make_support_nested_variables=yes

am_cv_prog_cc_c_o=yes

am_cv_python_platform=linux

am_cv_python_pyexecdir='${exec_prefix}/lib/python3.8/site-packages'

am_cv_python_pythondir='${prefix}/lib/python3.8/site-packages'

am_cv_python_version=3.8

lt_cv_ar_at_file=@

lt_cv_archive_cmds_need_lc=no

lt_cv_deplibs_check_method=pass_all

lt_cv_file_magic_cmd='$MAGIC_CMD'

lt_cv_file_magic_test_file=

lt_cv_ld_reload_flag=-r

lt_cv_nm_interface='BSD nm'

lt_cv_objdir=.libs

lt_cv_path_LD=/usr/bin/ld

lt_cv_path_NM='/usr/bin/nm -B'

lt_cv_path_mainfest_tool=no

lt_cv_prog_compiler_c_o=yes

lt_cv_prog_compiler_pic='-fPIC -DPIC'

lt_cv_prog_compiler_pic_works=yes

lt_cv_prog_compiler_rtti_exceptions=no

lt_cv_prog_compiler_static_works=yes

lt_cv_prog_gnu_ld=yes

lt_cv_sharedlib_from_linklib_cmd='printf %s\n'

lt_cv_shlibpath_overrides_runpath=yes

lt_cv_sys_global_symbol_pipe='sed -n -e '\''s/^.*[
]\([ABCDGIRSTW][ABCDGIRSTW]*\)[ ][ ]*\([_A-Za-z][_A-Za-z0-9]*\)$/\1 \2
\2/p'\'' | sed '\''/ __gnu_lto/d'\'''

lt_cv_sys_global_symbol_to_c_name_address='sed -n -e '\''s/^: \(.*\) .*$/
{"\1", (void *) 0},/p'\'' -e '\''s/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/
{"\1", (void *) \&\1},/p'\'''

lt_cv_sys_global_symbol_to_c_name_address_lib_prefix='sed -n -e '\''s/^:
\(.*\) .*$/ {"\1", (void *) 0},/p'\'' -e '\''s/^[ABCDGIRSTW][ABCDGIRSTW]*
.* \(lib.*\)$/ {"\1", (void *) \&\1},/p'\'' -e
'\''s/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/ {"lib\1", (void *)
\&\1},/p'\'''

lt_cv_sys_global_symbol_to_cdecl='sed -n -e '\''s/^T .* \(.*\)$/extern int
\1();/p'\'' -e '\''s/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/extern char
\1;/p'\'''

lt_cv_sys_global_symbol_to_import=

lt_cv_sys_max_cmd_len=1572864

lt_cv_to_host_file_cmd=func_convert_file_noop

lt_cv_to_tool_file_cmd=func_convert_file_noop

lt_cv_truncate_bin='/bin/dd bs=4096 count=1'


## ----------------- ##

## Output variables. ##

## ----------------- ##


ACLOCAL='${SHELL} /home/yifeng/bin/meme-5.3.2/config/missing aclocal-1.16'

ALT_URL=''

AMDEPBACKSLASH='\'

AMDEP_FALSE='#'

AMDEP_TRUE=''

AMTAR='$${TAR-tar}'

AM_BACKSLASH='\'

AM_DEFAULT_V='$(AM_DEFAULT_VERBOSITY)'

AM_DEFAULT_VERBOSITY='1'

AM_V='$(V)'

ANT='/usr/bin/ant'

AR='ar'

AUTOCONF='${SHELL} /home/yifeng/bin/meme-5.3.2/config/missing autoconf'

AUTOHEADER='${SHELL} /home/yifeng/bin/meme-5.3.2/config/missing autoheader'

AUTOMAKE='${SHELL} /home/yifeng/bin/meme-5.3.2/config/missing automake-1.16'

AWK='gawk'

BUILD_LIBXML2_FALSE='#'

BUILD_LIBXML2_TRUE=''

BUILD_LIBXSLT_FALSE='#'

BUILD_LIBXSLT_TRUE=''

CATALINA_BASE=''

CATALINA_HOME=''

CC='gcc'

CCDEPMODE='depmode=gcc3'

CFLAGS='-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3'

CONTACT=''

CONVERT=''

CPP='gcc -E'

CPPFLAGS=''

CYGPATH_W='echo'

DEBUG_FLAGS=''

DEFS='-DHAVE_CONFIG_H'

DEPDIR='.deps'

DEV_CONTACT='meme-...@uw.edu'

DLLTOOL='false'

DRMAA_QUEUE=''

DRMAA_QUEUE_SHORT=''

DSYMUTIL=''

DUMPBIN=''

ECHO_C=''

ECHO_N='-n'

ECHO_T=''

EGREP='/bin/grep -E'

EXEEXT=''

EXPIRY='4'

FGREP='/bin/grep -F'

GHOSTSCRIPT='/usr/bin/gs'

GOSERVER_URL='http://amigo.geneontology.org/amigo/term/GO_TERM_ID'

GREP='/bin/grep'

HAVE_PYTHON_3_FALSE='#'

HAVE_PYTHON_3_TRUE=''

HAVE_PYTHON_FALSE='#'

HAVE_PYTHON_TRUE=''

HOSTNAME='T540P'

INSTALL_DATA='${INSTALL} -m 644'

INSTALL_PROGRAM='${INSTALL}'

INSTALL_SCRIPT='${INSTALL}'

INSTALL_STRIP_PROGRAM='$(install_sh) -c -s'

LAMBIN=''

LD='/usr/bin/ld -m elf_x86_64'

LDFLAGS=''

LIBEXSLT_CFLAGS=''

LIBEXSLT_LIBS=''

LIBOBJS=''

LIBS='-lmpi -lz -lm '

LIBTOOL='$(SHELL) $(top_builddir)/libtool'

LIBXML2_CFLAGS='-I${top_srcdir}/src/libxml2/include'

LIBXML2_LIBS='${top_builddir}/src/libxml2/libxml2.la'

LIBXSLT_CFLAGS='-I${top_srcdir}/src/'

LIBXSLT_LIBS='${top_builddir}/src/libxslt/libxslt.la'

LIPO=''

LN_S='ln -s'

LTLIBOBJS=''

LT_SYS_LIBRARY_PATH=''

MACHID='linux'

MAKEINFO='${SHELL} /home/yifeng/bin/meme-5.3.2/config/missing makeinfo'

MANIFEST_TOOL=':'

MAST_PORT=''

MAXMEMORY='4'

MAXMEMORY_SHORT='1'

MAXTIME='14400'

MAXTIME_SHORT='300'

MEME_DB='${datarootdir}/${PACKAGE_NAME}-5.3.2/db'

MEME_DIRECTORY='${prefix}'

MEME_LOGS='${localstatedir}/${PACKAGE_NAME}-5.3.2/LOGS'

MEME_PORT=''

MEME_TEMP=''

METAMEME_EXTERNAL_FALSE=''

METAMEME_EXTERNAL_TRUE='#'

MKDIR_P='/bin/mkdir -p'

MPICC='/usr/bin/mpicc'

MPIFLAGS='-DPARALLEL '

MPIINC='-DMPI -I/usr/include'

MPILIBDIR='/usr/lib'

MPIRUN='/usr/bin/mpirun'

MPITYPE='mpich'

MPI_CMD='/usr/bin/mpirun -np'

NEWS_URL='./news.txt'

NM='/usr/bin/nm -B'

NMEDIT=''

NOTICES_URL='./notices.txt'

OBJDUMP='objdump'

OBJEXT='o'

OPAL_DEPLOY=''

OPAL_URL='no'

OPT_FLAGS='-O3'

OTOOL64=''

OTOOL=''

PACKAGE='meme'

PACKAGE_BUGREPORT=''

PACKAGE_NAME='meme'

PACKAGE_STRING='meme 5.3.2'

PACKAGE_TARNAME='meme'

PACKAGE_URL=''

PACKAGE_VERSION='5.3.2'

PARALLEL_FALSE='#'

PARALLEL_IS_LAM_FALSE=''

PARALLEL_IS_LAM_TRUE='#'

PARALLEL_TRUE=''

PATH_SEPARATOR=':'

PERL='/usr/bin/perl'

PREV_URL=''

PREV_VER=''

PYTHON='/usr/bin/python'

PYTHON_EXEC_PREFIX='${exec_prefix}'

PYTHON_PLATFORM='linux'

PYTHON_PREFIX='${prefix}'

PYTHON_VERSION='3.8'

QUOTA=''

RANLIB='ranlib'

SED='/bin/sed'

SENDMAIL='/usr/lib/sendmail'

SET_MAKE=''

SHELL='/bin/bash'

SOURCE_URL='https://meme-suite.org'

STREME_LENGTH_FACTOR='1e6'

STRIP='strip'

URL='https://meme-suite.org/meme'

VERSION='5.3.2'

WANT_STRLCPY_FALSE='#'

WANT_STRLCPY_TRUE=''

WEBSERVICE=''

WEBSERVICE_FALSE=''

WEBSERVICE_TRUE='#'

WEBSITE_FALSE=''

WEBSITE_TRUE='#'

WEB_FALSE=''

WEB_TRUE='#'

XML2_CONFIG=''

XSLT_CONFIG=''

ac_ct_AR='ar'

ac_ct_CC='gcc'

ac_ct_DUMPBIN=''

am__EXEEXT_FALSE=''

am__EXEEXT_TRUE='#'

am__fastdepCC_FALSE='#'

am__fastdepCC_TRUE=''

am__include='include'

am__isrc=''

am__leading_dot='.'

am__nodep='_no'

am__quote=''

am__tar='$${TAR-tar} chof - "$$tardir"'

am__untar='$${TAR-tar} xf -'

bindir='${exec_prefix}/bin'

build='x86_64-unknown-linux-gnu'

build_alias=''

build_cpu='x86_64'

build_os='linux-gnu'

build_vendor='unknown'

datadir='${datarootdir}'

datarootdir='${prefix}/share'

docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'

dvidir='${docdir}'

exec_prefix='${prefix}'

host='x86_64-unknown-linux-gnu'

host_alias=''

host_cpu='x86_64'

host_os='linux-gnu'

host_vendor='unknown'

htmldir='${docdir}'

includedir='${prefix}/include'

infodir='${datarootdir}/info'

install_sh='${SHELL} /home/yifeng/bin/meme-5.3.2/config/install-sh'

libdir='${exec_prefix}/lib'

libexecdir='${exec_prefix}/libexec'

localedir='${datarootdir}/locale'

localstatedir='${prefix}/var'

mandir='${datarootdir}/man'

mkdir_p='$(MKDIR_P)'

oldincludedir='/usr/include'

pdfdir='${docdir}'

pkgpyexecdir='${pyexecdir}/meme'

pkgpythondir='${pythondir}/meme'

prefix='/home/yifeng/meme'

program_transform_name='s,x,x,'

psdir='${docdir}'

pyexecdir='${exec_prefix}/lib/python3.8/site-packages'

pythondir='${prefix}/lib/python3.8/site-packages'

sbindir='${exec_prefix}/sbin'

sharedstatedir='${prefix}/com'

sysconfdir='${prefix}/etc'

target_alias=''


## ----------- ##

## confdefs.h. ##

## ----------- ##


/* confdefs.h */

#define PACKAGE_NAME "meme"

#define PACKAGE_TARNAME "meme"

#define PACKAGE_VERSION "5.3.2"

#define PACKAGE_STRING "meme 5.3.2"

#define PACKAGE_BUGREPORT ""

#define PACKAGE_URL ""

#define PACKAGE "meme"

#define VERSION "5.3.2"

#define STDC_HEADERS 1

#define HAVE_SYS_TYPES_H 1

#define HAVE_SYS_STAT_H 1

#define HAVE_STDLIB_H 1

#define HAVE_STRING_H 1

#define HAVE_MEMORY_H 1

#define HAVE_STRINGS_H 1

#define HAVE_INTTYPES_H 1

#define HAVE_STDINT_H 1

#define HAVE_UNISTD_H 1

#define HAVE_DLFCN_H 1

#define LT_OBJDIR ".libs/"

#define HOSTNAME "T540P"

#define HAVE_LIBM 1

#define HAVE_LIBZ 1

#define STDC_HEADERS 1

#define HAVE_SYS_WAIT_H 1

#define HAVE_ARPA_INET_H 1

#define HAVE_CTYPE_H 1

#define HAVE_FCNTL_H 1

#define HAVE_LIMITS_H 1

#define HAVE_NETDB_H 1

#define HAVE_NETINET_IN_H 1

#define HAVE_STDLIB_H 1

#define HAVE_STRING_H 1

#define HAVE_STRINGS_H 1

#define HAVE_SYS_SOCKET_H 1

#define HAVE_SYS_TIME_H 1

#define HAVE_UNISTD_H 1

#define HAVE__BOOL 1

#define HAVE_STDBOOL_H 1

#define HAVE_FORK 1

#define HAVE_VFORK 1

#define HAVE_WORKING_VFORK 1

#define HAVE_WORKING_FORK 1

#define HAVE_STDLIB_H 1

#define HAVE_MALLOC 1

#define HAVE_STDLIB_H 1

#define HAVE_REALLOC 1

#define RETSIGTYPE void

#define LSTAT_FOLLOWS_SLASHED_SYMLINK 1

#define HAVE_FLOOR 1

#define HAVE_GETCWD 1

#define HAVE_GETHOSTBYNAME 1

#define HAVE_ISASCII 1

#define HAVE_MEMSET 1

#define HAVE_POW 1

#define HAVE_RINT 1

#define HAVE_SOCKET 1

#define HAVE_SQRT 1

#define HAVE_STRCHR 1

#define HAVE_STRCSPN 1

#define HAVE_STRDUP 1

#define HAVE_STRSPN 1

#define HAVE_STRSTR 1

#define Linux /**/

#define HAVE_LIBMPI 1

#define SOURCE_URL "https://meme-suite.org"

#define SITE_URL "https://meme-suite.org/meme"

#define ALT_URL ""

#define PERL "/usr/bin/perl"

#define PYTHON "/usr/bin/python"

#define CONVERT_PATH ""

#define GHOSTSCRIPT_PATH "/usr/bin/gs"


configure: exit 0
################## make.log
make all-recursive
make[1]: Entering directory '/home/yifeng/bin/meme-5.3.2'
Making all in src
make[2]: Entering directory '/home/yifeng/bin/meme-5.3.2/src'
echo '#define MEME_DIR "/home/yifeng/meme"' >dir.h
echo '#define DATA_DIR "/home/yifeng/meme/share/meme-5.3.2" ' >> dir.h
echo '#define BIN_DIR "/home/yifeng/meme/bin" ' >> dir.h
echo '#define LIBEXEC_DIR "/home/yifeng/meme/libexec/meme-5.3.2" ' >> dir.h
echo '#define TEMP_DIR "" ' >> dir.h
echo '#define REVISION "a59d059eb54fe4eabc583a57b6ac224ff124e311"' >
projrel.h
echo '#define ARCHIVE_DATE "Sat Feb 6 16:38:33 2021 -0800"' >> projrel.h
make all-recursive
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/src'
Making all in filters
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/filters'
Making all in purge
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/filters/purge'
depbase=`echo afnio.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT afnio.o -MD -MP -MF
$depbase.Tpo -c -o afnio.o afnio.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo alphabet.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT alphabet.o -MD -MP
-MF $depbase.Tpo -c -o alphabet.o alphabet.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo block.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT block.o -MD -MP -MF
$depbase.Tpo -c -o block.o block.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo dheap.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT dheap.o -MD -MP -MF
$depbase.Tpo -c -o dheap.o dheap.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo gblast.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT gblast.o -MD -MP
-MF $depbase.Tpo -c -o gblast.o gblast.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo karlin.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT karlin.o -MD -MP
-MF $depbase.Tpo -c -o karlin.o karlin.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo mheap.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT mheap.o -MD -MP -MF
$depbase.Tpo -c -o mheap.o mheap.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo mlist.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT mlist.o -MD -MP -MF
$depbase.Tpo -c -o mlist.o mlist.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo pairaln.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT pairaln.o -MD -MP
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mv -f $depbase.Tpo $depbase.Po
depbase=`echo pmain.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT pmain.o -MD -MP -MF
$depbase.Tpo -c -o pmain.o pmain.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo purge.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT purge.o -MD -MP -MF
$depbase.Tpo -c -o purge.o purge.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo random.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT random.o -MD -MP
-MF $depbase.Tpo -c -o random.o random.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo seqset.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT seqset.o -MD -MP
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mv -f $depbase.Tpo $depbase.Po
depbase=`echo sequence.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT sequence.o -MD -MP
-MF $depbase.Tpo -c -o sequence.o sequence.c &&\
mv -f $depbase.Tpo $depbase.Po
/bin/bash ../../../libtool --tag=CC --mode=link gcc -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o
purge afnio.o alphabet.o block.o dheap.o gblast.o karlin.o mheap.o mlist.o
pairaln.o pmain.o purge.o random.o seqset.o sequence.o -lm -lmpi -lz -lm
libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o purge afnio.o alphabet.o block.o dheap.o
gblast.o karlin.o mheap.o mlist.o pairaln.o pmain.o purge.o random.o
seqset.o sequence.o -lmpi -lz -lm
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/filters/purge'
Making all in dust
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/filters/dust'
depbase=`echo tust.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT tust.o -MD -MP -MF
$depbase.Tpo -c -o tust.o tust.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo dust.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT dust.o -MD -MP -MF
$depbase.Tpo -c -o dust.o dust.c &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo getfa.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
gcc -DHAVE_CONFIG_H -I. -I../../.. -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT getfa.o -MD -MP -MF
$depbase.Tpo -c -o getfa.o getfa.c &&\
mv -f $depbase.Tpo $depbase.Po
/bin/bash ../../../libtool --tag=CC --mode=link gcc -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o
dust tust.o dust.o getfa.o -lmpi -lz -lm
libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o dust tust.o dust.o getfa.o -lmpi -lz -lm
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/filters/dust'
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/filters'
make[5]: Nothing to be done for 'all-am'.
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/filters'
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/filters'
Making all in libxml2
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/libxml2'
Making all in include
make[5]: Entering directory
'/home/yifeng/bin/meme-5.3.2/src/libxml2/include'
Making all in .
make[6]: Entering directory
'/home/yifeng/bin/meme-5.3.2/src/libxml2/include'
make[6]: Nothing to be done for 'all-am'.
make[6]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/libxml2/include'
Making all in libxml
make[6]: Entering directory
'/home/yifeng/bin/meme-5.3.2/src/libxml2/include/libxml'
make[6]: Nothing to be done for 'all'.
make[6]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/src/libxml2/include/libxml'
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/libxml2/include'
Making all in .
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/libxml2'
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I. -I./include -w -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxml2_la-chvalid.lo -MD -MP
-MF .deps/libxml2_la-chvalid.Tpo -c -o libxml2_la-chvalid.lo `test -f
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT libxml2_la-chvalid.lo -MD -MP -MF .deps/libxml2_la-chvalid.Tpo -c
chvalid.c -fPIC -DPIC -o .libs/libxml2_la-chvalid.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT libxml2_la-chvalid.lo -MD -MP -MF .deps/libxml2_la-chvalid.Tpo -c
chvalid.c -o libxml2_la-chvalid.o >/dev/null 2>&1
mv -f .deps/libxml2_la-chvalid.Tpo .deps/libxml2_la-chvalid.Plo
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I. -I./include -w -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxml2_la-debugXML.lo -MD -MP
-MF .deps/libxml2_la-debugXML.Tpo -c -o libxml2_la-debugXML.lo `test -f
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT libxml2_la-debugXML.lo -MD -MP -MF .deps/libxml2_la-debugXML.Tpo -c
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT libxml2_la-debugXML.lo -MD -MP -MF .deps/libxml2_la-debugXML.Tpo -c
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mv -f .deps/libxml2_la-debugXML.Tpo .deps/libxml2_la-debugXML.Plo
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I. -I./include -w -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxml2_la-dict.lo -MD -MP -MF
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT libxml2_la-dict.lo -MD -MP -MF .deps/libxml2_la-dict.Tpo -c dict.c
-fPIC -DPIC -o .libs/libxml2_la-dict.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT libxml2_la-dict.lo -MD -MP -MF .deps/libxml2_la-dict.Tpo -c dict.c
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT libxml2_la-encoding.lo -MD -MP -MF .deps/libxml2_la-encoding.Tpo -c
encoding.c -o libxml2_la-encoding.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -I. -I./include -w
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
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-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
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libxslt_la-pattern.lo -MD -MP -MF .deps/libxslt_la-pattern.Tpo -c -o
libxslt_la-pattern.lo `test -f 'pattern.c' || echo './'`pattern.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxslt_la-pattern.lo
-MD -MP -MF .deps/libxslt_la-pattern.Tpo -c pattern.c -fPIC -DPIC -o
.libs/libxslt_la-pattern.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxslt_la-pattern.lo
-MD -MP -MF .deps/libxslt_la-pattern.Tpo -c pattern.c -o
libxslt_la-pattern.o >/dev/null 2>&1
mv -f .deps/libxslt_la-pattern.Tpo .deps/libxslt_la-pattern.Plo
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
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libxslt_la-preproc.lo -MD -MP -MF .deps/libxslt_la-preproc.Tpo -c -o
libxslt_la-preproc.lo `test -f 'preproc.c' || echo './'`preproc.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxslt_la-preproc.lo
-MD -MP -MF .deps/libxslt_la-preproc.Tpo -c preproc.c -fPIC -DPIC -o
.libs/libxslt_la-preproc.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxslt_la-preproc.lo
-MD -MP -MF .deps/libxslt_la-preproc.Tpo -c preproc.c -o
libxslt_la-preproc.o >/dev/null 2>&1
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
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libxslt_la-security.lo -MD -MP -MF .deps/libxslt_la-security.Tpo -c -o
libxslt_la-security.lo `test -f 'security.c' || echo './'`security.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-security.lo -MD -MP -MF .deps/libxslt_la-security.Tpo -c
security.c -fPIC -DPIC -o .libs/libxslt_la-security.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-security.lo -MD -MP -MF .deps/libxslt_la-security.Tpo -c
security.c -o libxslt_la-security.o >/dev/null 2>&1
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
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libxslt_la-templates.lo -MD -MP -MF .deps/libxslt_la-templates.Tpo -c -o
libxslt_la-templates.lo `test -f 'templates.c' || echo './'`templates.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-templates.lo -MD -MP -MF .deps/libxslt_la-templates.Tpo -c
templates.c -fPIC -DPIC -o .libs/libxslt_la-templates.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-templates.lo -MD -MP -MF .deps/libxslt_la-templates.Tpo -c
templates.c -o libxslt_la-templates.o >/dev/null 2>&1
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
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libxslt_la-transform.lo -MD -MP -MF .deps/libxslt_la-transform.Tpo -c -o
libxslt_la-transform.lo `test -f 'transform.c' || echo './'`transform.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-transform.lo -MD -MP -MF .deps/libxslt_la-transform.Tpo -c
transform.c -fPIC -DPIC -o .libs/libxslt_la-transform.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-transform.lo -MD -MP -MF .deps/libxslt_la-transform.Tpo -c
transform.c -o libxslt_la-transform.o >/dev/null 2>&1
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
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libxslt_la-variables.lo -MD -MP -MF .deps/libxslt_la-variables.Tpo -c -o
libxslt_la-variables.lo `test -f 'variables.c' || echo './'`variables.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-variables.lo -MD -MP -MF .deps/libxslt_la-variables.Tpo -c
variables.c -fPIC -DPIC -o .libs/libxslt_la-variables.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-variables.lo -MD -MP -MF .deps/libxslt_la-variables.Tpo -c
variables.c -o libxslt_la-variables.o >/dev/null 2>&1
mv -f .deps/libxslt_la-variables.Tpo .deps/libxslt_la-variables.Plo
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-xslt.lo -MD -MP -MF .deps/libxslt_la-xslt.Tpo -c -o
libxslt_la-xslt.lo `test -f 'xslt.c' || echo './'`xslt.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxslt_la-xslt.lo
-MD -MP -MF .deps/libxslt_la-xslt.Tpo -c xslt.c -fPIC -DPIC -o
.libs/libxslt_la-xslt.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libxslt_la-xslt.lo
-MD -MP -MF .deps/libxslt_la-xslt.Tpo -c xslt.c -o libxslt_la-xslt.o
>/dev/null 2>&1
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-xsltlocale.lo -MD -MP -MF .deps/libxslt_la-xsltlocale.Tpo -c -o
libxslt_la-xsltlocale.lo `test -f 'xsltlocale.c' || echo './'`xsltlocale.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-xsltlocale.lo -MD -MP -MF .deps/libxslt_la-xsltlocale.Tpo -c
xsltlocale.c -fPIC -DPIC -o .libs/libxslt_la-xsltlocale.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-xsltlocale.lo -MD -MP -MF .deps/libxslt_la-xsltlocale.Tpo -c
xsltlocale.c -o libxslt_la-xsltlocale.o >/dev/null 2>&1
mv -f .deps/libxslt_la-xsltlocale.Tpo .deps/libxslt_la-xsltlocale.Plo
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I../.. -I../../src/libxml2/include -I../../src -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-xsltutils.lo -MD -MP -MF .deps/libxslt_la-xsltutils.Tpo -c -o
libxslt_la-xsltutils.lo `test -f 'xsltutils.c' || echo './'`xsltutils.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-xsltutils.lo -MD -MP -MF .deps/libxslt_la-xsltutils.Tpo -c
xsltutils.c -fPIC -DPIC -o .libs/libxslt_la-xsltutils.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../..
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libxslt_la-xsltutils.lo -MD -MP -MF .deps/libxslt_la-xsltutils.Tpo -c
xsltutils.c -o libxslt_la-xsltutils.o >/dev/null 2>&1
mv -f .deps/libxslt_la-xsltutils.Tpo .deps/libxslt_la-xsltutils.Plo
/bin/bash ../../libtool --tag=CC --mode=link gcc
-I../../src/libxml2/include -I../../src -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o libxslt.la
libxslt_la-attributes.lo libxslt_la-attrvt.lo libxslt_la-documents.lo
libxslt_la-extensions.lo libxslt_la-extra.lo libxslt_la-functions.lo
libxslt_la-imports.lo libxslt_la-keys.lo libxslt_la-numbers.lo
libxslt_la-namespaces.lo libxslt_la-pattern.lo libxslt_la-preproc.lo
libxslt_la-security.lo libxslt_la-templates.lo libxslt_la-transform.lo
libxslt_la-variables.lo libxslt_la-xslt.lo libxslt_la-xsltlocale.lo
libxslt_la-xsltutils.lo ../../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: (cd .libs/libxslt.lax/libxml2.a && ar x
"/home/yifeng/bin/meme-5.3.2/src/libxslt/../../src/libxml2/.libs/libxml2.a")
libtool: link: ar cru .libs/libxslt.a .libs/libxslt_la-attributes.o
.libs/libxslt_la-attrvt.o .libs/libxslt_la-documents.o
.libs/libxslt_la-extensions.o .libs/libxslt_la-extra.o
.libs/libxslt_la-functions.o .libs/libxslt_la-imports.o
.libs/libxslt_la-keys.o .libs/libxslt_la-numbers.o
.libs/libxslt_la-namespaces.o .libs/libxslt_la-pattern.o
.libs/libxslt_la-preproc.o .libs/libxslt_la-security.o
.libs/libxslt_la-templates.o .libs/libxslt_la-transform.o
.libs/libxslt_la-variables.o .libs/libxslt_la-xslt.o
.libs/libxslt_la-xsltlocale.o .libs/libxslt_la-xsltutils.o
.libs/libxslt.lax/libxml2.a/libxml2_la-HTMLparser.o
.libs/libxslt.lax/libxml2.a/libxml2_la-HTMLtree.o
.libs/libxslt.lax/libxml2.a/libxml2_la-SAX2.o
.libs/libxslt.lax/libxml2.a/libxml2_la-chvalid.o
.libs/libxslt.lax/libxml2.a/libxml2_la-debugXML.o
.libs/libxslt.lax/libxml2.a/libxml2_la-dict.o
.libs/libxslt.lax/libxml2.a/libxml2_la-encoding.o
.libs/libxslt.lax/libxml2.a/libxml2_la-entities.o
.libs/libxslt.lax/libxml2.a/libxml2_la-error.o
.libs/libxslt.lax/libxml2.a/libxml2_la-globals.o
.libs/libxslt.lax/libxml2.a/libxml2_la-hash.o
.libs/libxslt.lax/libxml2.a/libxml2_la-list.o
.libs/libxslt.lax/libxml2.a/libxml2_la-parser.o
.libs/libxslt.lax/libxml2.a/libxml2_la-parserInternals.o
.libs/libxslt.lax/libxml2.a/libxml2_la-pattern.o
.libs/libxslt.lax/libxml2.a/libxml2_la-relaxng.o
.libs/libxslt.lax/libxml2.a/libxml2_la-threads.o
.libs/libxslt.lax/libxml2.a/libxml2_la-tree.o
.libs/libxslt.lax/libxml2.a/libxml2_la-uri.o
.libs/libxslt.lax/libxml2.a/libxml2_la-valid.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlIO.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlmemory.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlreader.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlregexp.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlsave.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlschemas.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlschemastypes.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlstring.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlunicode.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xmlwriter.o
.libs/libxslt.lax/libxml2.a/libxml2_la-xpath.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libxslt.a
libtool: link: rm -fr .libs/libxslt.lax
libtool: link: ( cd ".libs" && rm -f "libxslt.la" && ln -s "../libxslt.la"
"libxslt.la" )
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/libxslt'
Making all in .
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/src'
gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
ame-ame.o -MD -MP -MF .deps/ame-ame.Tpo -c -o ame-ame.o `test -f 'ame.c' ||
echo './'`ame.c
mv -f .deps/ame-ame.Tpo .deps/ame-ame.Po
gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
ame-ramen_scan.o -MD -MP -MF .deps/ame-ramen_scan.Tpo -c -o
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mv -f .deps/ame-ramen_scan.Tpo .deps/ame-ramen_scan.Po
gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
ame-fisher_exact.o -MD -MP -MF .deps/ame-fisher_exact.Tpo -c -o
ame-fisher_exact.o `test -f 'fisher_exact.c' || echo './'`fisher_exact.c
mv -f .deps/ame-fisher_exact.Tpo .deps/ame-fisher_exact.Po
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-alignment.lo -MD -MP -MF
.deps/libcommon_la-alignment.Tpo -c -o libcommon_la-alignment.lo `test -f
'alignment.c' || echo './'`alignment.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-alignment.lo -MD -MP -MF .deps/libcommon_la-alignment.Tpo -c
alignment.c -fPIC -DPIC -o .libs/libcommon_la-alignment.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-alignment.lo -MD -MP -MF .deps/libcommon_la-alignment.Tpo -c
alignment.c -o libcommon_la-alignment.o >/dev/null 2>&1
mv -f .deps/libcommon_la-alignment.Tpo .deps/libcommon_la-alignment.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-alph-in.lo -MD -MP -MF
.deps/libcommon_la-alph-in.Tpo -c -o libcommon_la-alph-in.lo `test -f
'alph-in.c' || echo './'`alph-in.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-alph-in.lo -MD -MP -MF .deps/libcommon_la-alph-in.Tpo -c
alph-in.c -fPIC -DPIC -o .libs/libcommon_la-alph-in.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-alph-in.lo -MD -MP -MF .deps/libcommon_la-alph-in.Tpo -c
alph-in.c -o libcommon_la-alph-in.o >/dev/null 2>&1
mv -f .deps/libcommon_la-alph-in.Tpo .deps/libcommon_la-alph-in.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-alphabet.lo -MD -MP -MF
.deps/libcommon_la-alphabet.Tpo -c -o libcommon_la-alphabet.lo `test -f
'alphabet.c' || echo './'`alphabet.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-alphabet.lo -MD -MP -MF .deps/libcommon_la-alphabet.Tpo -c
alphabet.c -fPIC -DPIC -o .libs/libcommon_la-alphabet.o
alphabet.c: In function ‘alph_print_json’:
alphabet.c:628:28: warning: ‘%06X’ directive output may be truncated
writing between 6 and 8 bytes into a region of size 7 [-Wformat-truncation=]
628 | snprintf(colour, 7, "%06X", alph_colour(alph, i));
| ^~~~
alphabet.c:628:27: note: directive argument in the range [1, 4294967295]
628 | snprintf(colour, 7, "%06X", alph_colour(alph, i));
| ^~~~~~
In file included from /usr/include/stdio.h:862,
from array.h:12,
from alphabet.h:12,
from alphabet.c:12:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:64:10: note:
‘__builtin___snprintf_chk’ output between 7 and 9 bytes into a destination
of size 7
64 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL -
1,
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
65 | __bos (__s), __fmt, __va_arg_pack ());
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
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In file included from json-reader.c:2:
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as truth value [-Wparentheses]
596 | assert(jsonrd->token.state = TS_IN_PROGRESS);
| ^~~~~~
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-mhmmscan.lo -MD -MP -MF .deps/libcommon_la-mhmmscan.Tpo -c
mhmmscan.c -o libcommon_la-mhmmscan.o >/dev/null 2>&1
mv -f .deps/libcommon_la-mhmmscan.Tpo .deps/libcommon_la-mhmmscan.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-mhmm-state.lo -MD -MP -MF
.deps/libcommon_la-mhmm-state.Tpo -c -o libcommon_la-mhmm-state.lo `test -f
'mhmm-state.c' || echo './'`mhmm-state.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-mhmm-state.lo -MD -MP -MF .deps/libcommon_la-mhmm-state.Tpo -c
mhmm-state.c -fPIC -DPIC -o .libs/libcommon_la-mhmm-state.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-mhmm-state.lo -MD -MP -MF .deps/libcommon_la-mhmm-state.Tpo -c
mhmm-state.c -o libcommon_la-mhmm-state.o >/dev/null 2>&1
mv -f .deps/libcommon_la-mhmm-state.Tpo .deps/libcommon_la-mhmm-state.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-momo-algorithm.lo -MD -MP
-MF .deps/libcommon_la-momo-algorithm.Tpo -c -o
libcommon_la-momo-algorithm.lo `test -f 'momo-algorithm.c' || echo
'./'`momo-algorithm.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-algorithm.lo -MD -MP -MF
.deps/libcommon_la-momo-algorithm.Tpo -c momo-algorithm.c -fPIC -DPIC -o
.libs/libcommon_la-momo-algorithm.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-algorithm.lo -MD -MP -MF
.deps/libcommon_la-momo-algorithm.Tpo -c momo-algorithm.c -o
libcommon_la-momo-algorithm.o >/dev/null 2>&1
mv -f .deps/libcommon_la-momo-algorithm.Tpo
.deps/libcommon_la-momo-algorithm.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-momo-input.lo -MD -MP -MF
.deps/libcommon_la-momo-input.Tpo -c -o libcommon_la-momo-input.lo `test -f
'momo-input.c' || echo './'`momo-input.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-input.lo -MD -MP -MF .deps/libcommon_la-momo-input.Tpo -c
momo-input.c -fPIC -DPIC -o .libs/libcommon_la-momo-input.o
In file included from /usr/include/string.h:494,
from momo-input.c:8:
In function ‘strncat’,
inlined from ‘get_tsv_mod_array’ at momo-input.c:566:3:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:136:10: warning:
‘__builtin_strncat’ specified bound depends on the length of the source
argument [-Wstringop-overflow=]
136 | return __builtin___strncat_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
momo-input.c: In function ‘get_tsv_mod_array’:
momo-input.c:566:3: note: length computed here
566 | strncat(*modless, sequence_mod_iterator,
strlen(sequence_mod_iterator));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-input.lo -MD -MP -MF .deps/libcommon_la-momo-input.Tpo -c
momo-input.c -o libcommon_la-momo-input.o >/dev/null 2>&1
mv -f .deps/libcommon_la-momo-input.Tpo .deps/libcommon_la-momo-input.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-momo-modl.lo -MD -MP -MF
.deps/libcommon_la-momo-modl.Tpo -c -o libcommon_la-momo-modl.lo `test -f
'momo-modl.c' || echo './'`momo-modl.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-modl.lo -MD -MP -MF .deps/libcommon_la-momo-modl.Tpo -c
momo-modl.c -fPIC -DPIC -o .libs/libcommon_la-momo-modl.o
In file included from /usr/include/string.h:494,
from momo-modl.c:8:
In function ‘strncat’,
inlined from ‘regexmotif_to_string’ at momo-modl.c:228:7:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:136:10: warning:
‘__builtin_strncat’ specified bound depends on the length of the source
argument [-Wstringop-overflow=]
136 | return __builtin___strncat_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
momo-modl.c: In function ‘regexmotif_to_string’:
momo-modl.c:228:7: note: length computed here
228 | strncat(result, mod_info->mod_name,
strlen(mod_info->mod_name));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-modl.lo -MD -MP -MF .deps/libcommon_la-momo-modl.Tpo -c
momo-modl.c -o libcommon_la-momo-modl.o >/dev/null 2>&1
mv -f .deps/libcommon_la-momo-modl.Tpo .deps/libcommon_la-momo-modl.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-momo-motifx.lo -MD -MP
-MF .deps/libcommon_la-momo-motifx.Tpo -c -o libcommon_la-momo-motifx.lo
`test -f 'momo-motifx.c' || echo './'`momo-motifx.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-motifx.lo -MD -MP -MF .deps/libcommon_la-momo-motifx.Tpo
-c momo-motifx.c -fPIC -DPIC -o .libs/libcommon_la-momo-motifx.o
In file included from /usr/include/string.h:494,
from momo-motifx.c:8:
In function ‘strncat’,
inlined from ‘create_motifx_motif’ at momo-motifx.c:266:5:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:136:10: warning:
‘__builtin_strncat’ specified bound depends on the length of the source
argument [-Wstringop-overflow=]
136 | return __builtin___strncat_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
momo-motifx.c: In function ‘create_motifx_motif’:
momo-motifx.c:266:36: note: length computed here
266 | strncat(pattern_name, pattern, strlen(pattern)/2);
| ^~~~~~~~~~~~~~~
In file included from /usr/include/string.h:494,
from momo-motifx.c:8:
In function ‘strncat’,
inlined from ‘create_motifx_motif’ at momo-motifx.c:268:5:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:136:10: warning:
‘__builtin_strncat’ specified bound depends on the length of the source
argument [-Wstringop-overflow=]
136 | return __builtin___strncat_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
momo-motifx.c: In function ‘create_motifx_motif’:
momo-motifx.c:268:5: note: length computed here
268 | strncat(pattern_name, modname, strlen(modname));
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-motifx.lo -MD -MP -MF .deps/libcommon_la-momo-motifx.Tpo
-c momo-motifx.c -o libcommon_la-momo-motifx.o >/dev/null 2>&1
mv -f .deps/libcommon_la-momo-motifx.Tpo .deps/libcommon_la-momo-motifx.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-momo-output.lo -MD -MP
-MF .deps/libcommon_la-momo-output.Tpo -c -o libcommon_la-momo-output.lo
`test -f 'momo-output.c' || echo './'`momo-output.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-output.lo -MD -MP -MF .deps/libcommon_la-momo-output.Tpo
-c momo-output.c -fPIC -DPIC -o .libs/libcommon_la-momo-output.o
In file included from /usr/include/string.h:494,
from macros.h:49,
from utils.h:17,
from array.h:14,
from matrix.h:13,
from motif.h:12,
from motif-in.h:5,
from momo-output.c:1:
In function ‘strncat’,
inlined from ‘momo_print_motifs’ at momo-output.c:201:7:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:136:10: warning:
‘__builtin_strncat’ specified bound depends on the length of the source
argument [-Wstringop-overflow=]
136 | return __builtin___strncat_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
momo-output.c: In function ‘momo_print_motifs’:
momo-output.c:201:7: note: length computed here
201 | strncat(motif_png, motif_name, strlen(motif_name));
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/string.h:494,
from macros.h:49,
from utils.h:17,
from array.h:14,
from matrix.h:13,
from motif.h:12,
from motif-in.h:5,
from momo-output.c:1:
In function ‘strncat’,
inlined from ‘momo_print_motifs’ at momo-output.c:215:7:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:136:10: warning:
‘__builtin_strncat’ specified bound depends on the length of the source
argument [-Wstringop-overflow=]
136 | return __builtin___strncat_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
momo-output.c: In function ‘momo_print_motifs’:
momo-output.c:215:7: note: length computed here
215 | strncat(logo_file, options.output_dirname,
strlen(options.output_dirname));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-output.lo -MD -MP -MF .deps/libcommon_la-momo-output.Tpo
-c momo-output.c -o libcommon_la-momo-output.o >/dev/null 2>&1
mv -f .deps/libcommon_la-momo-output.Tpo .deps/libcommon_la-momo-output.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-momo-simple.lo -MD -MP
-MF .deps/libcommon_la-momo-simple.Tpo -c -o libcommon_la-momo-simple.lo
`test -f 'momo-simple.c' || echo './'`momo-simple.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-simple.lo -MD -MP -MF .deps/libcommon_la-momo-simple.Tpo
-c momo-simple.c -fPIC -DPIC -o .libs/libcommon_la-momo-simple.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-momo-simple.lo -MD -MP -MF .deps/libcommon_la-momo-simple.Tpo
-c momo-simple.c -o libcommon_la-momo-simple.o >/dev/null 2>&1
mv -f .deps/libcommon_la-momo-simple.Tpo .deps/libcommon_la-momo-simple.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-motif.lo -MD -MP -MF
.deps/libcommon_la-motif.Tpo -c -o libcommon_la-motif.lo `test -f 'motif.c'
|| echo './'`motif.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-motif.lo
-MD -MP -MF .deps/libcommon_la-motif.Tpo -c motif.c -fPIC -DPIC -o
.libs/libcommon_la-motif.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-motif.lo
-MD -MP -MF .deps/libcommon_la-motif.Tpo -c motif.c -o libcommon_la-motif.o
>/dev/null 2>&1
mv -f .deps/libcommon_la-motif.Tpo .deps/libcommon_la-motif.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-motif-db.lo -MD -MP -MF
.deps/libcommon_la-motif-db.Tpo -c -o libcommon_la-motif-db.lo `test -f
'motif-db.c' || echo './'`motif-db.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-motif-db.lo -MD -MP -MF .deps/libcommon_la-motif-db.Tpo -c
motif-db.c -fPIC -DPIC -o .libs/libcommon_la-motif-db.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-motif-db.lo -MD -MP -MF .deps/libcommon_la-motif-db.Tpo -c
motif-db.c -o libcommon_la-motif-db.o >/dev/null 2>&1
mv -f .deps/libcommon_la-motif-db.Tpo .deps/libcommon_la-motif-db.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-motif-in.lo -MD -MP -MF
.deps/libcommon_la-motif-in.Tpo -c -o libcommon_la-motif-in.lo `test -f
'motif-in.c' || echo './'`motif-in.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-motif-in.lo -MD -MP -MF .deps/libcommon_la-motif-in.Tpo -c
motif-in.c -fPIC -DPIC -o .libs/libcommon_la-motif-in.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-motif-in.lo -MD -MP -MF .deps/libcommon_la-motif-in.Tpo -c
motif-in.c -o libcommon_la-motif-in.o >/dev/null 2>&1
mv -f .deps/libcommon_la-motif-in.Tpo .deps/libcommon_la-motif-in.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-motif-in-common.lo -MD
-MP -MF .deps/libcommon_la-motif-in-common.Tpo -c -o
libcommon_la-motif-in-common.lo `test -f 'motif-in-common.c' || echo
'./'`motif-in-common.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-motif-in-common.lo -MD -MP -MF
.deps/libcommon_la-motif-in-common.Tpo -c motif-in-common.c -fPIC -DPIC -o
.libs/libcommon_la-motif-in-common.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-motif-in-common.lo -MD -MP -MF
.deps/libcommon_la-motif-in-common.Tpo -c motif-in-common.c -o
libcommon_la-motif-in-common.o >/dev/null 2>&1
mv -f .deps/libcommon_la-motif-in-common.Tpo
.deps/libcommon_la-motif-in-common.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-motif-in-dreme-xml.lo -MD
-MP -MF .deps/libcommon_la-motif-in-dreme-xml.Tpo -c -o
libcommon_la-motif-in-dreme-xml.lo `test -f 'motif-in-dreme-xml.c' || echo
'./'`motif-in-dreme-xml.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-motif-in-dreme-xml.lo -MD -MP -MF
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/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-sax-parser-utils.lo -MD
-MP -MF .deps/libcommon_la-sax-parser-utils.Tpo -c -o
libcommon_la-sax-parser-utils.lo `test -f 'sax-parser-utils.c' || echo
'./'`sax-parser-utils.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-sax-parser-utils.lo -MD -MP -MF
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-o .libs/libcommon_la-sax-parser-utils.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-sax-parser-utils.lo -MD -MP -MF
.deps/libcommon_la-sax-parser-utils.Tpo -c sax-parser-utils.c -o
libcommon_la-sax-parser-utils.o >/dev/null 2>&1
mv -f .deps/libcommon_la-sax-parser-utils.Tpo
.deps/libcommon_la-sax-parser-utils.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-scanned-sequence.lo -MD
-MP -MF .deps/libcommon_la-scanned-sequence.Tpo -c -o
libcommon_la-scanned-sequence.lo `test -f 'scanned-sequence.c' || echo
'./'`scanned-sequence.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-scanned-sequence.lo -MD -MP -MF
.deps/libcommon_la-scanned-sequence.Tpo -c scanned-sequence.c -fPIC -DPIC
-o .libs/libcommon_la-scanned-sequence.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-scanned-sequence.lo -MD -MP -MF
.deps/libcommon_la-scanned-sequence.Tpo -c scanned-sequence.c -o
libcommon_la-scanned-sequence.o >/dev/null 2>&1
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.deps/libcommon_la-scanned-sequence.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-scored-sites.lo -MD -MP
-MF .deps/libcommon_la-scored-sites.Tpo -c -o libcommon_la-scored-sites.lo
`test -f 'scored-sites.c' || echo './'`scored-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-scored-sites.lo -MD -MP -MF
.deps/libcommon_la-scored-sites.Tpo -c scored-sites.c -fPIC -DPIC -o
.libs/libcommon_la-scored-sites.o
In file included from /usr/include/string.h:494,
from macros.h:49,
from utils.h:17,
from array.h:14,
from scored-sites.c:11:
In function ‘strncpy’,
inlined from ‘new_scored_site’ at scored-sites.c:79:3,
inlined from ‘add_scored_site’ at scored-sites.c:125:30:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning:
‘__builtin_strncpy’ specified bound 100 equals destination size
[-Wstringop-truncation]
106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
inlined from ‘new_scored_site’ at scored-sites.c:80:3,
inlined from ‘add_scored_site’ at scored-sites.c:125:30:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning:
‘__builtin_strncpy’ specified bound 100 equals destination size
[-Wstringop-truncation]
106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
inlined from ‘new_scored_site’ at scored-sites.c:88:3,
inlined from ‘add_scored_site’ at scored-sites.c:125:30:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning:
‘__builtin_strncpy’ specified bound 100 equals destination size
[-Wstringop-truncation]
106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘strncpy’,
inlined from ‘new_scored_site’ at scored-sites.c:89:3,
inlined from ‘add_scored_site’ at scored-sites.c:125:30:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning:
‘__builtin_strncpy’ specified bound 100 equals destination size
[-Wstringop-truncation]
106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-scored-sites.lo -MD -MP -MF
.deps/libcommon_la-scored-sites.Tpo -c scored-sites.c -o
libcommon_la-scored-sites.o >/dev/null 2>&1
mv -f .deps/libcommon_la-scored-sites.Tpo
.deps/libcommon_la-scored-sites.Plo
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-seq.lo -MD -MP -MF
.deps/libcommon_la-seq.Tpo -c -o libcommon_la-seq.lo `test -f 'seq.c' ||
echo './'`seq.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-seq.lo
-MD -MP -MF .deps/libcommon_la-seq.Tpo -c seq.c -fPIC -DPIC -o
.libs/libcommon_la-seq.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-seq.lo
-MD -MP -MF .deps/libcommon_la-seq.Tpo -c seq.c -o libcommon_la-seq.o
>/dev/null 2>&1
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/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-seq-reader-from-fasta.lo
-MD -MP -MF .deps/libcommon_la-seq-reader-from-fasta.Tpo -c -o
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echo './'`seq-reader-from-fasta.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
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-fPIC -DPIC -o .libs/libcommon_la-seq-reader-from-fasta.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
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libcommon_la-seq-reader-from-fasta.o >/dev/null 2>&1
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/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -MT libcommon_la-simple-getopt.lo -MD -MP
-MF .deps/libcommon_la-simple-getopt.Tpo -c -o
libcommon_la-simple-getopt.lo `test -f 'simple-getopt.c' || echo
'./'`simple-getopt.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
libcommon_la-simple-getopt.lo -MD -MP -MF
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.libs/libcommon_la-simple-getopt.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -fno-strict-aliasing
-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
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libcommon_la-simple-getopt.lo -MD -MP -MF
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/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
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-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
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-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
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.deps/libcommon_la-spearman-rank-correlation.Tpo -c
spearman-rank-correlation.c -o libcommon_la-spearman-rank-correlation.o
>/dev/null 2>&1
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/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
-DSTREEHUGE -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
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.deps/libcommon_la-streme-sax.Tpo -c -o libcommon_la-streme-sax.lo `test -f
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-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
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-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
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/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
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libcommon_la-streme-utils.lo -MD -MP -MF
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-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
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libcommon_la-streme-utils.lo -MD -MP -MF
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libcommon_la-streme-utils.o >/dev/null 2>&1
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/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
-I.. -fno-strict-aliasing -I../src/libxml2/include -I../src/
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-MF .deps/libcommon_la-string-builder.Tpo -c -o
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'./'`string-builder.c
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-I../src/libxml2/include -I../src/ -DSTREEHUGE -std=gnu89 -fno-common -Wall
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libcommon_la-string-builder.lo -MD -MP -MF
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libcommon_la-string-builder.lo -MD -MP -MF
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/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.
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.libs/libcommon.lax/libxml2.a/libxml2_la-chvalid.o
.libs/libcommon.lax/libxml2.a/libxml2_la-debugXML.o
.libs/libcommon.lax/libxml2.a/libxml2_la-dict.o
.libs/libcommon.lax/libxml2.a/libxml2_la-encoding.o
.libs/libcommon.lax/libxml2.a/libxml2_la-entities.o
.libs/libcommon.lax/libxml2.a/libxml2_la-error.o
.libs/libcommon.lax/libxml2.a/libxml2_la-globals.o
.libs/libcommon.lax/libxml2.a/libxml2_la-hash.o
.libs/libcommon.lax/libxml2.a/libxml2_la-list.o
.libs/libcommon.lax/libxml2.a/libxml2_la-parser.o
.libs/libcommon.lax/libxml2.a/libxml2_la-parserInternals.o
.libs/libcommon.lax/libxml2.a/libxml2_la-pattern.o
.libs/libcommon.lax/libxml2.a/libxml2_la-relaxng.o
.libs/libcommon.lax/libxml2.a/libxml2_la-threads.o
.libs/libcommon.lax/libxml2.a/libxml2_la-tree.o
.libs/libcommon.lax/libxml2.a/libxml2_la-uri.o
.libs/libcommon.lax/libxml2.a/libxml2_la-valid.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlIO.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlmemory.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlreader.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlregexp.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlsave.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlschemas.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlschemastypes.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlstring.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlunicode.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xmlwriter.o
.libs/libcommon.lax/libxml2.a/libxml2_la-xpath.o
.libs/libcommon.lax/lt1-libxml2_la-HTMLparser.o
.libs/libcommon.lax/lt2-libxml2_la-HTMLtree.o
.libs/libcommon.lax/lt3-libxml2_la-SAX2.o
.libs/libcommon.lax/lt4-libxml2_la-chvalid.o
.libs/libcommon.lax/lt5-libxml2_la-debugXML.o
.libs/libcommon.lax/lt6-libxml2_la-dict.o
.libs/libcommon.lax/lt7-libxml2_la-encoding.o
.libs/libcommon.lax/lt8-libxml2_la-entities.o
.libs/libcommon.lax/lt9-libxml2_la-error.o
.libs/libcommon.lax/lt10-libxml2_la-globals.o
.libs/libcommon.lax/lt11-libxml2_la-hash.o
.libs/libcommon.lax/lt12-libxml2_la-list.o
.libs/libcommon.lax/lt13-libxml2_la-parser.o
.libs/libcommon.lax/lt14-libxml2_la-parserInternals.o
.libs/libcommon.lax/lt15-libxml2_la-pattern.o
.libs/libcommon.lax/lt16-libxml2_la-relaxng.o
.libs/libcommon.lax/lt17-libxml2_la-threads.o
.libs/libcommon.lax/lt18-libxml2_la-tree.o
.libs/libcommon.lax/lt19-libxml2_la-uri.o
.libs/libcommon.lax/lt20-libxml2_la-valid.o
.libs/libcommon.lax/lt21-libxml2_la-xmlIO.o
.libs/libcommon.lax/lt22-libxml2_la-xmlmemory.o
.libs/libcommon.lax/lt23-libxml2_la-xmlreader.o
.libs/libcommon.lax/lt24-libxml2_la-xmlregexp.o
.libs/libcommon.lax/lt25-libxml2_la-xmlsave.o
.libs/libcommon.lax/lt26-libxml2_la-xmlschemas.o
.libs/libcommon.lax/lt27-libxml2_la-xmlschemastypes.o
.libs/libcommon.lax/lt28-libxml2_la-xmlstring.o
.libs/libcommon.lax/lt29-libxml2_la-xmlunicode.o
.libs/libcommon.lax/lt30-libxml2_la-xmlwriter.o
.libs/libcommon.lax/lt31-libxml2_la-xpath.o
.libs/libcommon.lax/libxslt.a/libxslt_la-attributes.o
.libs/libcommon.lax/libxslt.a/libxslt_la-attrvt.o
.libs/libcommon.lax/libxslt.a/libxslt_la-documents.o
.libs/libcommon.lax/libxslt.a/libxslt_la-extensions.o
.libs/libcommon.lax/libxslt.a/libxslt_la-extra.o
.libs/libcommon.lax/libxslt.a/libxslt_la-functions.o
.libs/libcommon.lax/libxslt.a/libxslt_la-imports.o
.libs/libcommon.lax/libxslt.a/libxslt_la-keys.o
.libs/libcommon.lax/libxslt.a/libxslt_la-namespaces.o
.libs/libcommon.lax/libxslt.a/libxslt_la-numbers.o
.libs/libcommon.lax/libxslt.a/libxslt_la-pattern.o
.libs/libcommon.lax/libxslt.a/libxslt_la-preproc.o
.libs/libcommon.lax/libxslt.a/libxslt_la-security.o
.libs/libcommon.lax/libxslt.a/libxslt_la-templates.o
.libs/libcommon.lax/libxslt.a/libxslt_la-transform.o
.libs/libcommon.lax/libxslt.a/libxslt_la-variables.o
.libs/libcommon.lax/libxslt.a/libxslt_la-xslt.o
.libs/libcommon.lax/libxslt.a/libxslt_la-xsltlocale.o
.libs/libcommon.lax/libxslt.a/libxslt_la-xsltutils.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libcommon.a
libtool: link: rm -fr .libs/libcommon.lax .libs/libcommon.lax
libtool: link: ( cd ".libs" && rm -f "libcommon.la" && ln -s
"../libcommon.la" "libcommon.la" )
/bin/bash ../libtool --tag=CC --mode=link gcc -DMAIN
-I../src/libxml2/include -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o ame ame-ame.o ame-ramen_scan.o
ame-fisher_exact.o libcommon.la ../src/libxml2/libxml2.la -lm -lmpi -lz
-lm
libtool: link: gcc -DMAIN -I../src/libxml2/include -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o ame ame-ame.o
ame-ramen_scan.o ame-fisher_exact.o ./.libs/libcommon.a
../src/libxml2/.libs/libxml2.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
centrimo-centrimo.o -MD -MP -MF .deps/centrimo-centrimo.Tpo -c -o
centrimo-centrimo.o `test -f 'centrimo.c' || echo './'`centrimo.c
mv -f .deps/centrimo-centrimo.Tpo .deps/centrimo-centrimo.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
centrimo-fisher_exact.o -MD -MP -MF .deps/centrimo-fisher_exact.Tpo -c -o
centrimo-fisher_exact.o `test -f 'fisher_exact.c' || echo
'./'`fisher_exact.c
mv -f .deps/centrimo-fisher_exact.Tpo .deps/centrimo-fisher_exact.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -o centrimo centrimo-centrimo.o centrimo-fisher_exact.o libcommon.la
../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o centrimo
centrimo-centrimo.o centrimo-fisher_exact.o ./.libs/libcommon.a
../src/libxml2/.libs/libxml2.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DSTREEHUGE -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT enr-enr.o -MD -MP -MF .deps/enr-enr.Tpo -c -o enr-enr.o `test -f
'enr.c' || echo './'`enr.c
mv -f .deps/enr-enr.Tpo .deps/enr-enr.Po
gcc -DHAVE_CONFIG_H -I. -I.. -DSTREEHUGE -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT enr-fisher_exact.o -MD -MP -MF .deps/enr-fisher_exact.Tpo -c -o
enr-fisher_exact.o `test -f 'fisher_exact.c' || echo './'`fisher_exact.c
mv -f .deps/enr-fisher_exact.Tpo .deps/enr-fisher_exact.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -DSTREEHUGE
-I../src/libxml2/include -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o enr enr-enr.o enr-fisher_exact.o
libcommon.la ../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -DSTREEHUGE -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o enr
enr-enr.o enr-fisher_exact.o ./.libs/libcommon.a
../src/libxml2/.libs/libxml2.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
fimo-fimo.o -MD -MP -MF .deps/fimo-fimo.Tpo -c -o fimo-fimo.o `test -f
'fimo.c' || echo './'`fimo.c
mv -f .deps/fimo-fimo.Tpo .deps/fimo-fimo.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
fimo-fimo-output.o -MD -MP -MF .deps/fimo-fimo-output.Tpo -c -o
fimo-fimo-output.o `test -f 'fimo-output.c' || echo './'`fimo-output.c
mv -f .deps/fimo-fimo-output.Tpo .deps/fimo-fimo-output.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -o fimo fimo-fimo.o fimo-fimo-output.o libcommon.la
../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o fimo fimo-fimo.o
fimo-fimo-output.o ./.libs/libcommon.a ../src/libxml2/.libs/libxml2.a
-lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_alphabet.o -MD -MP
-MF .deps/glam2-glam2_alphabet.Tpo -c -o glam2-glam2_alphabet.o `test -f
'glam2_alphabet.c' || echo './'`glam2_alphabet.c
mv -f .deps/glam2-glam2_alphabet.Tpo .deps/glam2-glam2_alphabet.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_args.o -MD -MP -MF
.deps/glam2-glam2_args.Tpo -c -o glam2-glam2_args.o `test -f 'glam2_args.c'
|| echo './'`glam2_args.c
mv -f .deps/glam2-glam2_args.Tpo .deps/glam2-glam2_args.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_column_sample.o -MD
-MP -MF .deps/glam2-glam2_column_sample.Tpo -c -o
glam2-glam2_column_sample.o `test -f 'glam2_column_sample.c' || echo
'./'`glam2_column_sample.c
mv -f .deps/glam2-glam2_column_sample.Tpo .deps/glam2-glam2_column_sample.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_dirichlet.o -MD -MP
-MF .deps/glam2-glam2_dirichlet.Tpo -c -o glam2-glam2_dirichlet.o `test -f
'glam2_dirichlet.c' || echo './'`glam2_dirichlet.c
mv -f .deps/glam2-glam2_dirichlet.Tpo .deps/glam2-glam2_dirichlet.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_dna_prior.o -MD -MP
-MF .deps/glam2-glam2_dna_prior.Tpo -c -o glam2-glam2_dna_prior.o `test -f
'glam2_dna_prior.c' || echo './'`glam2_dna_prior.c
mv -f .deps/glam2-glam2_dna_prior.Tpo .deps/glam2-glam2_dna_prior.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_fasta.o -MD -MP -MF
.deps/glam2-glam2_fasta.Tpo -c -o glam2-glam2_fasta.o `test -f
'glam2_fasta.c' || echo './'`glam2_fasta.c
mv -f .deps/glam2-glam2_fasta.Tpo .deps/glam2-glam2_fasta.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_glam2.o -MD -MP -MF
.deps/glam2-glam2_glam2.Tpo -c -o glam2-glam2_glam2.o `test -f
'glam2_glam2.c' || echo './'`glam2_glam2.c
mv -f .deps/glam2-glam2_glam2.Tpo .deps/glam2-glam2_glam2.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_glam2_aln.o -MD -MP
-MF .deps/glam2-glam2_glam2_aln.Tpo -c -o glam2-glam2_glam2_aln.o `test -f
'glam2_glam2_aln.c' || echo './'`glam2_glam2_aln.c
mv -f .deps/glam2-glam2_glam2_aln.Tpo .deps/glam2-glam2_glam2_aln.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_init.o -MD -MP -MF
.deps/glam2-glam2_init.Tpo -c -o glam2-glam2_init.o `test -f 'glam2_init.c'
|| echo './'`glam2_init.c
mv -f .deps/glam2-glam2_init.Tpo .deps/glam2-glam2_init.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_output.o -MD -MP
-MF .deps/glam2-glam2_output.Tpo -c -o glam2-glam2_output.o `test -f
'glam2_output.c' || echo './'`glam2_output.c
mv -f .deps/glam2-glam2_output.Tpo .deps/glam2-glam2_output.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_recode3_20comp.o
-MD -MP -MF .deps/glam2-glam2_recode3_20comp.Tpo -c -o
glam2-glam2_recode3_20comp.o `test -f 'glam2_recode3_20comp.c' || echo
'./'`glam2_recode3_20comp.c
mv -f .deps/glam2-glam2_recode3_20comp.Tpo
.deps/glam2-glam2_recode3_20comp.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_site_sample.o -MD
-MP -MF .deps/glam2-glam2_site_sample.Tpo -c -o glam2-glam2_site_sample.o
`test -f 'glam2_site_sample.c' || echo './'`glam2_site_sample.c
mv -f .deps/glam2-glam2_site_sample.Tpo .deps/glam2-glam2_site_sample.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2-glam2_util.o -MD -MP -MF
.deps/glam2-glam2_util.Tpo -c -o glam2-glam2_util.o `test -f 'glam2_util.c'
|| echo './'`glam2_util.c
mv -f .deps/glam2-glam2_util.Tpo .deps/glam2-glam2_util.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o glam2
glam2-glam2_alphabet.o glam2-glam2_args.o glam2-glam2_column_sample.o
glam2-glam2_dirichlet.o glam2-glam2_dna_prior.o glam2-glam2_fasta.o
glam2-glam2_glam2.o glam2-glam2_glam2_aln.o glam2-glam2_init.o
glam2-glam2_output.o glam2-glam2_recode3_20comp.o glam2-glam2_site_sample.o
glam2-glam2_util.o libcommon.la -lmpi -lz -lm
libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o glam2 glam2-glam2_alphabet.o
glam2-glam2_args.o glam2-glam2_column_sample.o glam2-glam2_dirichlet.o
glam2-glam2_dna_prior.o glam2-glam2_fasta.o glam2-glam2_glam2.o
glam2-glam2_glam2_aln.o glam2-glam2_init.o glam2-glam2_output.o
glam2-glam2_recode3_20comp.o glam2-glam2_site_sample.o glam2-glam2_util.o
./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_alignment.o -MD
-MP -MF .deps/glam2scan-glam2_alignment.Tpo -c -o
glam2scan-glam2_alignment.o `test -f 'glam2_alignment.c' || echo
'./'`glam2_alignment.c
mv -f .deps/glam2scan-glam2_alignment.Tpo .deps/glam2scan-glam2_alignment.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_alphabet.o -MD
-MP -MF .deps/glam2scan-glam2_alphabet.Tpo -c -o glam2scan-glam2_alphabet.o
`test -f 'glam2_alphabet.c' || echo './'`glam2_alphabet.c
mv -f .deps/glam2scan-glam2_alphabet.Tpo .deps/glam2scan-glam2_alphabet.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_dna_prior.o -MD
-MP -MF .deps/glam2scan-glam2_dna_prior.Tpo -c -o
glam2scan-glam2_dna_prior.o `test -f 'glam2_dna_prior.c' || echo
'./'`glam2_dna_prior.c
mv -f .deps/glam2scan-glam2_dna_prior.Tpo .deps/glam2scan-glam2_dna_prior.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_fasta.o -MD -MP
-MF .deps/glam2scan-glam2_fasta.Tpo -c -o glam2scan-glam2_fasta.o `test -f
'glam2_fasta.c' || echo './'`glam2_fasta.c
mv -f .deps/glam2scan-glam2_fasta.Tpo .deps/glam2scan-glam2_fasta.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_dirichlet.o -MD
-MP -MF .deps/glam2scan-glam2_dirichlet.Tpo -c -o
glam2scan-glam2_dirichlet.o `test -f 'glam2_dirichlet.c' || echo
'./'`glam2_dirichlet.c
mv -f .deps/glam2scan-glam2_dirichlet.Tpo .deps/glam2scan-glam2_dirichlet.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_heap.o -MD -MP
-MF .deps/glam2scan-glam2_heap.Tpo -c -o glam2scan-glam2_heap.o `test -f
'glam2_heap.c' || echo './'`glam2_heap.c
mv -f .deps/glam2scan-glam2_heap.Tpo .deps/glam2scan-glam2_heap.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_motif.o -MD -MP
-MF .deps/glam2scan-glam2_motif.Tpo -c -o glam2scan-glam2_motif.o `test -f
'glam2_motif.c' || echo './'`glam2_motif.c
mv -f .deps/glam2scan-glam2_motif.Tpo .deps/glam2scan-glam2_motif.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_scan.o -MD -MP
-MF .deps/glam2scan-glam2_scan.Tpo -c -o glam2scan-glam2_scan.o `test -f
'glam2_scan.c' || echo './'`glam2_scan.c
mv -f .deps/glam2scan-glam2_scan.Tpo .deps/glam2scan-glam2_scan.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_scan_args.o -MD
-MP -MF .deps/glam2scan-glam2_scan_args.Tpo -c -o
glam2scan-glam2_scan_args.o `test -f 'glam2_scan_args.c' || echo
'./'`glam2_scan_args.c
mv -f .deps/glam2scan-glam2_scan_args.Tpo .deps/glam2scan-glam2_scan_args.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_scan_init.o -MD
-MP -MF .deps/glam2scan-glam2_scan_init.Tpo -c -o
glam2scan-glam2_scan_init.o `test -f 'glam2_scan_init.c' || echo
'./'`glam2_scan_init.c
mv -f .deps/glam2scan-glam2_scan_init.Tpo .deps/glam2scan-glam2_scan_init.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_scan_output.o
-MD -MP -MF .deps/glam2scan-glam2_scan_output.Tpo -c -o
glam2scan-glam2_scan_output.o `test -f 'glam2_scan_output.c' || echo
'./'`glam2_scan_output.c
mv -f .deps/glam2scan-glam2_scan_output.Tpo
.deps/glam2scan-glam2_scan_output.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
glam2scan-glam2_recode3_20comp.o -MD -MP -MF
.deps/glam2scan-glam2_recode3_20comp.Tpo -c -o
glam2scan-glam2_recode3_20comp.o `test -f 'glam2_recode3_20comp.c' || echo
'./'`glam2_recode3_20comp.c
mv -f .deps/glam2scan-glam2_recode3_20comp.Tpo
.deps/glam2scan-glam2_recode3_20comp.Po
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT glam2scan-glam2_util.o -MD -MP
-MF .deps/glam2scan-glam2_util.Tpo -c -o glam2scan-glam2_util.o `test -f
'glam2_util.c' || echo './'`glam2_util.c
mv -f .deps/glam2scan-glam2_util.Tpo .deps/glam2scan-glam2_util.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o glam2scan
glam2scan-glam2_alignment.o glam2scan-glam2_alphabet.o
glam2scan-glam2_dna_prior.o glam2scan-glam2_fasta.o
glam2scan-glam2_dirichlet.o glam2scan-glam2_heap.o glam2scan-glam2_motif.o
glam2scan-glam2_scan.o glam2scan-glam2_scan_args.o
glam2scan-glam2_scan_init.o glam2scan-glam2_scan_output.o
glam2scan-glam2_recode3_20comp.o glam2scan-glam2_util.o libcommon.la -lmpi
-lz -lm
libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o glam2scan glam2scan-glam2_alignment.o
glam2scan-glam2_alphabet.o glam2scan-glam2_dna_prior.o
glam2scan-glam2_fasta.o glam2scan-glam2_dirichlet.o glam2scan-glam2_heap.o
glam2scan-glam2_motif.o glam2scan-glam2_scan.o glam2scan-glam2_scan_args.o
glam2scan-glam2_scan_init.o glam2scan-glam2_scan_output.o
glam2scan-glam2_recode3_20comp.o glam2scan-glam2_util.o
./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -I../src/
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT gomo-gomo.o -MD -MP -MF .deps/gomo-gomo.Tpo -c -o gomo-gomo.o
`test -f 'gomo.c' || echo './'`gomo.c
mv -f .deps/gomo-gomo.Tpo .deps/gomo-gomo.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -I../src/
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT gomo-gomo_highlight.o -MD -MP -MF .deps/gomo-gomo_highlight.Tpo -c
-o gomo-gomo_highlight.o `test -f 'gomo_highlight.c' || echo
'./'`gomo_highlight.c
mv -f .deps/gomo-gomo_highlight.Tpo .deps/gomo-gomo_highlight.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -I../src/
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT gomo-merger.o -MD -MP -MF .deps/gomo-merger.Tpo -c -o
gomo-merger.o `test -f 'merger.c' || echo './'`merger.c
mv -f .deps/gomo-merger.Tpo .deps/gomo-merger.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -I../src/
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT gomo-ranksum_test.o -MD -MP -MF .deps/gomo-ranksum_test.Tpo -c -o
gomo-ranksum_test.o `test -f 'ranksum_test.c' || echo './'`ranksum_test.c
mv -f .deps/gomo-ranksum_test.Tpo .deps/gomo-ranksum_test.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -I../src/
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT gomo-read_csv.o -MD -MP -MF .deps/gomo-read_csv.Tpo -c -o
gomo-read_csv.o `test -f 'read_csv.c' || echo './'`read_csv.c
mv -f .deps/gomo-read_csv.Tpo .deps/gomo-read_csv.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-I../src/ -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o gomo gomo-gomo.o
gomo-gomo_highlight.o gomo-merger.o gomo-ranksum_test.o gomo-read_csv.o
libcommon.la ../src/libxml2/libxml2.la ../src/libxslt/libxslt.la -lmpi -lz
-lm
libtool: link: gcc -I../src/libxml2/include -I../src/ -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o gomo
gomo-gomo.o gomo-gomo_highlight.o gomo-merger.o gomo-ranksum_test.o
gomo-read_csv.o ./.libs/libcommon.a ../src/libxml2/.libs/libxml2.a
../src/libxslt/.libs/libxslt.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
mast-diagram.o -MD -MP -MF .deps/mast-diagram.Tpo -c -o mast-diagram.o
`test -f 'diagram.c' || echo './'`diagram.c
mv -f .deps/mast-diagram.Tpo .deps/mast-diagram.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
mast-mast.o -MD -MP -MF .deps/mast-mast.Tpo -c -o mast-mast.o `test -f
'mast.c' || echo './'`mast.c
mv -f .deps/mast-mast.Tpo .deps/mast-mast.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -o mast mast-diagram.o mast-mast.o libcommon.la
../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o mast mast-diagram.o
mast-mast.o ./.libs/libcommon.a ../src/libxml2/.libs/libxml2.a -lmpi -lz
-lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
mcast-mcast.o -MD -MP -MF .deps/mcast-mcast.Tpo -c -o mcast-mcast.o `test
-f 'mcast.c' || echo './'`mcast.c
mv -f .deps/mcast-mcast.Tpo .deps/mcast-mcast.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -o mcast mcast-mcast.o libcommon.la ../src/libxml2/libxml2.la -lmpi
-lz -lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o mcast mcast-mcast.o
./.libs/libcommon.a ../src/libxml2/.libs/libxml2.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
momo-momo.o -MD -MP -MF .deps/momo-momo.Tpo -c -o momo-momo.o `test -f
'momo.c' || echo './'`momo.c
mv -f .deps/momo-momo.Tpo .deps/momo-momo.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
momo-fisher_exact.o -MD -MP -MF .deps/momo-fisher_exact.Tpo -c -o
momo-fisher_exact.o `test -f 'fisher_exact.c' || echo './'`fisher_exact.c
mv -f .deps/momo-fisher_exact.Tpo .deps/momo-fisher_exact.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -o momo momo-momo.o momo-fisher_exact.o libcommon.la
../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o momo momo-momo.o
momo-fisher_exact.o ./.libs/libcommon.a ../src/libxml2/.libs/libxml2.a
-lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DSTREEHUGE -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT streme-streme.o -MD -MP -MF .deps/streme-streme.Tpo -c -o
streme-streme.o `test -f 'streme.c' || echo './'`streme.c
mv -f .deps/streme-streme.Tpo .deps/streme-streme.Po
gcc -DHAVE_CONFIG_H -I. -I.. -DSTREEHUGE -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT streme-fisher_exact.o -MD -MP -MF .deps/streme-fisher_exact.Tpo -c
-o streme-fisher_exact.o `test -f 'fisher_exact.c' || echo
'./'`fisher_exact.c
mv -f .deps/streme-fisher_exact.Tpo .deps/streme-fisher_exact.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -DSTREEHUGE
-I../src/libxml2/include -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o streme streme-streme.o
streme-fisher_exact.o libcommon.la ../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -DSTREEHUGE -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o
streme streme-streme.o streme-fisher_exact.o ./.libs/libcommon.a
../src/libxml2/.libs/libxml2.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
spamo-cisml-sax.o -MD -MP -MF .deps/spamo-cisml-sax.Tpo -c -o
spamo-cisml-sax.o `test -f 'cisml-sax.c' || echo './'`cisml-sax.c
mv -f .deps/spamo-cisml-sax.Tpo .deps/spamo-cisml-sax.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -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../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
spamo-spamo-matches.o -MD -MP -MF .deps/spamo-spamo-matches.Tpo -c -o
spamo-spamo-matches.o `test -f 'spamo-matches.c' || echo
'./'`spamo-matches.c
mv -f .deps/spamo-spamo-matches.Tpo .deps/spamo-spamo-matches.Po
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -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
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
spamo-spamo-scan.o -MD -MP -MF .deps/spamo-spamo-scan.Tpo -c -o
spamo-spamo-scan.o `test -f 'spamo-scan.c' || echo './'`spamo-scan.c
mv -f .deps/spamo-spamo-scan.Tpo .deps/spamo-spamo-scan.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-std=gnu89 -fno-common -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
../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -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 ../src/libxml2/.libs/libxml2.a
-lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
tgene-tgene.o -MD -MP -MF .deps/tgene-tgene.Tpo -c -o tgene-tgene.o `test
-f 'tgene.c' || echo './'`tgene.c
mv -f .deps/tgene-tgene.Tpo .deps/tgene-tgene.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -o tgene tgene-tgene.o libcommon.la ../src/libxml2/libxml2.la -lmpi
-lz -lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o tgene tgene-tgene.o
./.libs/libcommon.a ../src/libxml2/.libs/libxml2.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -I../src/libxml2/include -std=gnu89
-fno-common -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/bash ../libtool --tag=CC --mode=link gcc -DMAIN
-I../src/libxml2/include -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o tomtom tomtom-tomtom.o libcommon.la
../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -DMAIN -I../src/libxml2/include -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o tomtom
tomtom-tomtom.o ./.libs/libcommon.a ../src/libxml2/.libs/libxml2.a -lmpi
-lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT alphtype-alphtype.o -MD -MP -MF
.deps/alphtype-alphtype.Tpo -c -o alphtype-alphtype.o `test -f 'alphtype.c'
|| echo './'`alphtype.c
mv -f .deps/alphtype-alphtype.Tpo .deps/alphtype-alphtype.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o alphtype
alphtype-alphtype.o libcommon.la -lmpi -lz -lm
libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o alphtype alphtype-alphtype.o
./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
ama-ama.o -MD -MP -MF .deps/ama-ama.Tpo -c -o ama-ama.o `test -f 'ama.c' ||
echo './'`ama.c
mv -f .deps/ama-ama.Tpo .deps/ama-ama.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -o ama ama-ama.o libcommon.la ../src/libxml2/libxml2.la -lmpi -lz
-lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o ama ama-ama.o
./.libs/libcommon.a ../src/libxml2/.libs/libxml2.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DCL_MAIN -I../src/libxml2/include
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ceqlogo-ceqlogo.o -MD -MP -MF .deps/ceqlogo-ceqlogo.Tpo -c -o
ceqlogo-ceqlogo.o `test -f 'ceqlogo.c' || echo './'`ceqlogo.c
mv -f .deps/ceqlogo-ceqlogo.Tpo .deps/ceqlogo-ceqlogo.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -DCL_MAIN
-I../src/libxml2/include -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o ceqlogo ceqlogo-ceqlogo.o
libcommon.la ../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: gcc -DCL_MAIN -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o
ceqlogo ceqlogo-ceqlogo.o ./.libs/libcommon.a
../src/libxml2/.libs/libxml2.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT clustalw2fasta-clustalw2fasta.o
-MD -MP -MF .deps/clustalw2fasta-clustalw2fasta.Tpo -c -o
clustalw2fasta-clustalw2fasta.o `test -f 'clustalw2fasta.c' || echo
'./'`clustalw2fasta.c
mv -f .deps/clustalw2fasta-clustalw2fasta.Tpo
.deps/clustalw2fasta-clustalw2fasta.Po
/bin/bash ../libtool --tag=CC --mode=link gcc -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o
clustalw2fasta clustalw2fasta-clustalw2fasta.o libcommon.la -lmpi -lz -lm
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662 | (void) mkstemp(tmp_filename); // create temp file
| ^~~~~~~~~~~~~~~~~~~~~
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gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -std=gnu89 -fno-common -Wall
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'./'`logs.c
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/bin/bash ../libtool --tag=CC --mode=link gcc -DMAIN -std=gnu89
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libtool: link: gcc -DMAIN -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o llr llr-llr.o llr-logs.o
./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT meme2alph-meme2alph.o -MD -MP
-MF .deps/meme2alph-meme2alph.Tpo -c -o meme2alph-meme2alph.o `test -f
'meme2alph.c' || echo './'`meme2alph.c
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/bin/bash ../libtool --tag=CC --mode=link gcc -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme2alph
meme2alph-meme2alph.o libcommon.la -lmpi -lz -lm
libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o meme2alph meme2alph-meme2alph.o
./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT meme2images-meme2images.o -MD
-MP -MF .deps/meme2images-meme2images.Tpo -c -o meme2images-meme2images.o
`test -f 'meme2images.c' || echo './'`meme2images.c
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/bin/bash ../libtool --tag=CC --mode=link gcc -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme2images
meme2images-meme2images.o libcommon.la -lmpi -lz -lm
libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o meme2images meme2images-meme2images.o
./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -Wall -Wno-unused
-DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT meme2meme-meme2meme.o -MD -MP
-MF .deps/meme2meme-meme2meme.Tpo -c -o meme2meme-meme2meme.o `test -f
'meme2meme.c' || echo './'`meme2meme.c
In file included from /usr/include/string.h:494,
from macros.h:49,
from utils.h:17,
from array.h:14,
from matrix.h:13,
from motif.h:12,
from motif-in.h:5,
from meme2meme.c:7:
In function ‘strncpy’,
inlined from ‘split_url_pattern’ at meme2meme.c:219:5,
inlined from ‘generate_minimal_meme’ at meme2meme.c:257:17,
inlined from ‘main’ at meme2meme.c:454:3:
/usr/include/x86_64-linux-gnu/bits/string_fortified.h:106:10: warning:
‘__builtin_strncpy’ output truncated before terminating nul copying as many
bytes from a string as its length [-Wstringop-truncation]
106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos
(__dest));
|
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
meme2meme.c: In function ‘main’:
meme2meme.c:216:13: note: length computed here
216 | len = strlen(start);
| ^~~~~~~~~~~~~
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-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme2meme
meme2meme-meme2meme.o libcommon.la -lmpi -lz -lm
libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o meme2meme meme2meme-meme2meme.o
./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -std=gnu89 -fno-common -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/bash ../libtool --tag=CC --mode=link gcc -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o
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libtool: link: gcc -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o meme-get-motif
meme_get_motif-meme-get-motif.o ./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -I../src/libxml2/include -std=gnu89
-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -MT
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-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
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motif_shuffle_columns-motif-shuffle-columns.o libcommon.la -lmpi -lz -lm
libtool: link: gcc -I../src/libxml2/include -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o motif-shuffle-columns
motif_shuffle_columns-motif-shuffle-columns.o ./.libs/libcommon.a -lmpi
-lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DMOTIPH -I../src/libxml2/include
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-lmpi -lz -lm
libtool: link: gcc -DMOTIPH -I../src/libxml2/include -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o motiph
motiph-motiph.o ./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DMOTIPH -I../src/libxml2/include
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-I../src/libxml2/include -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
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-lmpi -lz -lm
libtool: link: gcc -DMOTIPH -I../src/libxml2/include -std=gnu89 -fno-common
-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o pmp_bf
pmp_bf-pmp_bf.o ./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -I../src/libxml2/include -std=gnu89
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gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -I../src/libxml2/include -std=gnu89
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-lm
libtool: link: gcc -DMAIN -I../src/libxml2/include -std=gnu89 -fno-common
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gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -std=gnu89 -fno-common -Wall
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|| echo './'`qvalue.c
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libtool: link: gcc -DMAIN -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o qvalue qvalue-qvalue.o
./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -std=gnu89 -fno-common -Wall
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-c -o ranksum_test-ranksum_test.o `test -f 'ranksum_test.c' || echo
'./'`ranksum_test.c
mv -f .deps/ranksum_test-ranksum_test.Tpo .deps/ranksum_test-ranksum_test.Po
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libtool: link: gcc -DMAIN -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
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./.libs/libcommon.a -lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -std=gnu89 -fno-common -Wall
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reconcile_tree_alignment-reconcile-tree-alignment.o libcommon.la -lm -lmpi
-lz -lm
libtool: link: gcc -DMAIN -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
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-lmpi -lz -lm
gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -std=gnu89 -fno-common -Wall
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-lz -lm
libtool: link: gcc -DMAIN -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
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gcc -DHAVE_CONFIG_H -I. -I.. -DMAIN -std=gnu89 -fno-common -Wall
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-fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o
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libcommon.la -lm -lmpi -lz -lm
libtool: link: gcc -DMAIN -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
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-lz -lm
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src'
Making all in parallel
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/parallel'
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-banner.o -MD -MP -MF ../.deps/meme-banner.Tpo -c -o
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/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
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-O3 -MT ../meme-calculate_p_y.o -MD -MP -MF
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/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
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../fasta-get-markov.c: In function ‘output_stats’:
../fasta-get-markov.c:662:12: warning: ignoring return value of ‘mkstemp’
declared with attribute ‘warn_unused_result’ [-Wunused-result]
662 | (void) mkstemp(tmp_filename); // create temp file
| ^~~~~~~~~~~~~~~~~~~~~
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/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-fisher_exact.o -MD -MP -MF ../.deps/meme-fisher_exact.Tpo
-c -o ../meme-fisher_exact.o `test -f '../fisher_exact.c' || echo
'./'`../fisher_exact.c
mv -f ../.deps/meme-fisher_exact.Tpo ../.deps/meme-fisher_exact.Po
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-init.o -MD -MP -MF ../.deps/meme-init.Tpo -c -o
../meme-init.o `test -f '../init.c' || echo './'`../init.c
mv -f ../.deps/meme-init.Tpo ../.deps/meme-init.Po
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-log_erfc.o -MD -MP -MF ../.deps/meme-log_erfc.Tpo -c -o
../meme-log_erfc.o `test -f '../log_erfc.c' || echo './'`../log_erfc.c
mv -f ../.deps/meme-log_erfc.Tpo ../.deps/meme-log_erfc.Po
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-message.o -MD -MP -MF ../.deps/meme-message.Tpo -c -o
../meme-message.o `test -f '../message.c' || echo './'`../message.c
mv -f ../.deps/meme-message.Tpo ../.deps/meme-message.Po
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-mp.o -MD -MP -MF ../.deps/meme-mp.Tpo -c -o ../meme-mp.o
`test -f '../mp.c' || echo './'`../mp.c
mv -f ../.deps/meme-mp.Tpo ../.deps/meme-mp.Po
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-partition.o -MD -MP -MF ../.deps/meme-partition.Tpo -c -o
../meme-partition.o `test -f '../partition.c' || echo './'`../partition.c
mv -f ../.deps/meme-partition.Tpo ../.deps/meme-partition.Po
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-seed.o -MD -MP -MF ../.deps/meme-seed.Tpo -c -o
../meme-seed.o `test -f '../seed.c' || echo './'`../seed.c
mv -f ../.deps/meme-seed.Tpo ../.deps/meme-seed.Po
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -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
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-ushuffle.o -MD -MP -MF ../.deps/meme-ushuffle.Tpo -c -o
../meme-ushuffle.o `test -f '../ushuffle.c' || echo './'`../ushuffle.c
mv -f ../.deps/meme-ushuffle.Tpo ../.deps/meme-ushuffle.Po
/usr/bin/mpicc -DHAVE_CONFIG_H -I. -I../.. -I.. -DPARALLEL
-I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np" -DMEME_MAIN
-std=gnu89 -fno-common -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__
-O3 -MT ../meme-verbosity.o -MD -MP -MF ../.deps/meme-verbosity.Tpo -c -o
../meme-verbosity.o `test -f '../verbosity.c' || echo './'`../verbosity.c
mv -f ../.deps/meme-verbosity.Tpo ../.deps/meme-verbosity.Po
/bin/bash ../../libtool --tag=CC --mode=link /usr/bin/mpicc -I..
-DPARALLEL -I../../src/libxml2/include -DMPI_CMD="/usr/bin/mpirun -np"
-DMEME_MAIN -std=gnu89 -fno-common -Wall -Wno-unused -DUNIX
-D__USE_FIXED_PROTOTYPES__ -O3 -o meme ../meme-banner.o ../meme-bates.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-fasta-get-markov.o ../meme-fisher_exact.o ../meme-init.o
../meme-justlike.o ../meme-likelihood.o ../meme-llr.o ../meme-log_erfc.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
../../src/libxml2/libxml2.la -lmpi -lz -lm
libtool: link: /usr/bin/mpicc -I.. -DPARALLEL -I../../src/libxml2/include
"-DMPI_CMD=/usr/bin/mpirun -np" -DMEME_MAIN -std=gnu89 -fno-common -Wall
-Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3 -o meme ../meme-banner.o
../meme-bates.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-fasta-get-markov.o ../meme-fisher_exact.o
../meme-init.o ../meme-justlike.o ../meme-likelihood.o ../meme-llr.o
../meme-log_erfc.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 ../../src/libxml2/.libs/libxml2.a
-lmpi -lz -lm
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/parallel'
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src'
make[2]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src'
Making all in scripts
make[2]: Entering directory '/home/yifeng/bin/meme-5.3.2/scripts'
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' meme-chip.pl.in > meme-chip; \
chmod +x meme-chip
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' dreme_py3.py.in > dreme; \
chmod +x dreme
rm -f ../src/dreme
ln dreme ../src/dreme # Copy to src for testing purposes
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' ama-qvalues.pl.in > ama-qvalues; \
chmod +x ama-qvalues
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' beeml2meme.pl.in > beeml2meme; \
chmod +x beeml2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' dreme_xml_to_html.pl.in >
dreme_xml_to_html; \
chmod +x dreme_xml_to_html
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' dreme_xml_to_txt.pl.in >
dreme_xml_to_txt; \
chmod +x dreme_xml_to_txt
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' elm2meme.pl.in > elm2meme; \
chmod +x elm2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-center.pl.in > fasta-center; \
chmod +x fasta-center
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-dinucleotide-shuffle-py3.in >
fasta-dinucleotide-shuffle; \
chmod +x fasta-dinucleotide-shuffle
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-fetch.pl.in > fasta-fetch; \
chmod +x fasta-fetch
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-hamming-enrich-py3.in >
fasta-hamming-enrich; \
chmod +x fasta-hamming-enrich
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-make-index.pl.in >
fasta-make-index; \
chmod +x fasta-make-index
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-most.pl.in > fasta-most; \
chmod +x fasta-most
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-re-match.pl.in > fasta-re-match; \
chmod +x fasta-re-match
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-subsample.pl.in > fasta-subsample;
\
chmod +x fasta-subsample
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' fasta-unique-names.pl.in >
fasta-unique-names; \
chmod +x fasta-unique-names
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' glam2html-py3.in > glam2html; \
chmod +x glam2html
rm -f ../src/glam2html
ln glam2html ../src/glam2html # Copy to src for testing purposes
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' glam2psfm-py3.in > glam2psfm; \
chmod +x glam2psfm
rm -f ../src/glam2psfm
ln glam2psfm ../src/glam2psfm # Copy to src for testing purposes
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' glam2scan2html-py3.in > glam2scan2html; \
chmod +x glam2scan2html
rm -f ../src/glam2scan2html
ln glam2scan2html ../src/glam2scan2html # Copy to src for testing purposes
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' chen2meme.pl.in > chen2meme; \
chmod +x chen2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' jaspar2meme.pl.in > jaspar2meme; \
chmod +x jaspar2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' hart2meme-bkg.pl.in > hart2meme-bkg; \
chmod +x hart2meme-bkg
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' hartemink2psp.pl.in > hartemink2psp; \
chmod +x hartemink2psp
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' iupac2meme.pl.in > iupac2meme; \
chmod +x iupac2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' mast_xml_to_html.pl.in >
mast_xml_to_html; \
chmod +x mast_xml_to_html
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' mast_xml_to_txt.pl.in > mast_xml_to_txt;
\
chmod +x mast_xml_to_txt
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' matrix2meme.pl.in > matrix2meme; \
chmod +x matrix2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' meme-chip_html_to_tsv.pl.in >
meme-chip_html_to_tsv; \
chmod +x meme-chip_html_to_tsv
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' meme-rename.pl.in > meme-rename; \
chmod +x meme-rename
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' meme_xml_to_html.pl.in >
meme_xml_to_html; \
chmod +x meme_xml_to_html
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' nmica2meme.pl.in > nmica2meme; \
chmod +x nmica2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' priority2meme.pl.in > priority2meme; \
chmod +x priority2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' psp-gen.pl.in > psp-gen; \
chmod +x psp-gen
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' rsat-retrieve-seq.pl.in >
rsat-retrieve-seq; \
chmod +x rsat-retrieve-seq
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' rsat-supported-organisms.pl.in >
rsat-supported-organisms; \
chmod +x rsat-supported-organisms
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' rna2meme.pl.in > rna2meme; \
chmod +x rna2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' scpd2meme.pl.in > scpd2meme; \
chmod +x scpd2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' sites2meme.pl.in > sites2meme; \
chmod +x sites2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' streme_xml_to_html.pl.in >
streme_xml_to_html; \
chmod +x streme_xml_to_html
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' taipale2meme.pl.in > taipale2meme; \
chmod +x taipale2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' tamo2meme.pl.in > tamo2meme; \
chmod +x tamo2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' tomtom_xml_to_html.pl.in >
tomtom_xml_to_html; \
chmod +x tomtom_xml_to_html
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' transfac2meme.pl.in > transfac2meme; \
chmod +x transfac2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' uniprobe2meme.pl.in > uniprobe2meme; \
chmod +x uniprobe2meme
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' Globals.pm.in > Globals.pm
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' MemeWebUtils.pm.in > MemeWebUtils.pm
/bin/sed -e
's%@ARCHIVE_REVISION@%a59d059eb54fe4eabc583a57b6ac224ff124e311%' -e
's%@ARCHIVE_DATE@%Sat Feb 6 16:38:33 2021 -0800%' -e
's%@ARCHIVE_VERSION@%5.3.2%' -e 's%@TMP_DIR@%%' -e 's%@WHICHMONO@%%' -e
's%@WHICHPERL@%/usr/bin/perl%' -e 's%@WHICHPYTHON@%/usr/bin/python%' -e
's%@WHICHPYTHON3@%%' -e 's%@WHICHJAVA@%%' -e 's%@WHICHCONVERT@%%' -e
's%@WHICHGHOSTSCRIPT@%/usr/bin/gs%' -e
's%@PERLLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/perl%' -e
's%@PYTHONLIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/python%' -e
's%@JAVALIBDIR@%/home/yifeng/meme/lib/meme-5.3.2/java%' -e 's%@LAM_BIN@%%'
-e 's%@APPCONFIGDIR@%/home/yifeng/meme/share/meme-5.3.2%' -e
's%@BINDIR@%/home/yifeng/meme/bin%' -e
's%@LIBEXECDIR@%/home/yifeng/meme/libexec/meme-5.3.2%' -e
's%@MEMELOGS@%/home/yifeng/meme/var/meme-5.3.2/LOGS%' -e
's%@MEMEDB@%/home/yifeng/meme/share/meme-5.3.2/db%' -e
's%@SITE_URL@%https://meme-suite.org/meme%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e 's%@MAX_TIME@%14400%' -e
's%@DOCDIR@%/home/yifeng/meme/share/meme-5.3.2/doc/%' -e 's%@maxmemory@%4%'
-e 's%@streme_length_factor@%1e6%' StatusPage.pm.in > StatusPage.pm
cp fasta-dinucleotide-shuffle fasta-dinucleotide-shuffle.py
cp fasta-hamming-enrich fasta-hamming-enrich.py
make[2]: Leaving directory '/home/yifeng/bin/meme-5.3.2/scripts'
Making all in tests
make[2]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests'
Making all in ame
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/ame'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/ame'
Making all in clustalw2fasta
make[3]: Entering directory
'/home/yifeng/bin/meme-5.3.2/tests/clustalw2fasta'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/tests/clustalw2fasta'
Making all in centrimo
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/centrimo'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/centrimo'
Making all in common
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/common'
Making all in motif.crp0
make[4]: Entering directory
'/home/yifeng/bin/meme-5.3.2/tests/common/motif.crp0'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/tests/common/motif.crp0'
Making all in motif.Puf3p
make[4]: Entering directory
'/home/yifeng/bin/meme-5.3.2/tests/common/motif.Puf3p'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/tests/common/motif.Puf3p'
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/common'
make[4]: Nothing to be done for 'all-am'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/common'
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/common'
Making all in create-priors
make[3]: Entering directory
'/home/yifeng/bin/meme-5.3.2/tests/create-priors'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/create-priors'
Making all in draw-mhmm
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/draw-mhmm'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/draw-mhmm'
Making all in dreme
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/dreme'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/dreme'
Making all in fasta-center
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/fasta-center'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/fasta-center'
Making all in fimo
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/fimo'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/fimo'
Making all in glam2
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/glam2'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/glam2'
Making all in glam2scan
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/glam2scan'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/glam2scan'
Making all in gomo
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/gomo'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/gomo'
Making all in mast
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mast'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mast'
Making all in mcast
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mcast'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mcast'
Making all in meme
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/meme'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/meme'
Making all in meme-chip
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/meme-chip'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/meme-chip'
Making all in mhmm
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mhmm'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mhmm'
Making all in mhmms
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mhmms'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mhmms'
Making all in momo
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/momo'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/momo'
Making all in mhmmscan
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mhmmscan'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mhmmscan'
Making all in motiph
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/motiph'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/motiph'
Making all in psp-gen
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/psp-gen'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/psp-gen'
Making all in qvalue
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/qvalue'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/qvalue'
Making all in scaffold
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/scaffold'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/scaffold'
Making all in spamo
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/spamo'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/spamo'
Making all in streme
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/streme'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/streme'
Making all in tgene
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/tgene'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/tgene'
Making all in tomtom
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/tomtom'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/tomtom'
Making all in web
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/web'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/web'
Making all in scripts
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests'
make[3]: Nothing to be done for 'all-am'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests'
make[2]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests'
Making all in doc
make[2]: Entering directory '/home/yifeng/bin/meme-5.3.2/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 '/home/yifeng/bin/meme-5.3.2/doc'
Making all in examples
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/doc/examples'
Making all in compute_prior_dist_example_output_files
make[5]: Entering directory
'/home/yifeng/bin/meme-5.3.2/doc/examples/compute_prior_dist_example_output_files'
make[5]: Nothing to be done for 'all'.
make[5]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/doc/examples/compute_prior_dist_example_output_files'
Making all in sample_opal_scripts
make[5]: Entering directory
'/home/yifeng/bin/meme-5.3.2/doc/examples/sample_opal_scripts'
make[5]: Nothing to be done for 'all'.
make[5]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/doc/examples/sample_opal_scripts'
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/doc/examples'
/bin/sed -e 's%@WHICHPERL@%/usr/bin/perl%' create_examples.pl.in >
create_examples; \
chmod +x create_examples
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc/examples'
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc/examples'
Making all in images
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/doc/images'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc/images'
Making all in css
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/doc/css'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc/css'
Making all in js
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/doc/js'
/bin/sed -e 's%\@VERSION\@%5.3.2%g' -e 's%\@CONTACT\@%%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e 's%\@ALT_URL\@%%g' -e
's%\@URL\@%https://meme-suite.org/meme%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' constants.js.in > constants.js
/bin/sed -e 's%\@VERSION\@%5.3.2%g' -e 's%\@CONTACT\@%%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e 's%\@ALT_URL\@%%g' -e
's%\@URL\@%https://meme-suite.org/meme%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.js.in > menu.js
/bin/sed -e 's%\@VERSION\@%5.3.2%g' -e 's%\@CONTACT\@%%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e 's%\@ALT_URL\@%%g' -e
's%\@URL\@%https://meme-suite.org/meme%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
/bin/sed -e 's%\@VERSION\@%5.3.2%g' -e 's%\@CONTACT\@%%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e 's%\@ALT_URL\@%%g' -e
's%\@URL\@%https://meme-suite.org/meme%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-data.js.in > menu-data.js
make all-am
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/doc/js'
make[5]: Nothing to be done for 'all-am'.
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc/js'
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc/js'
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/doc'
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' download.html.in > download.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' download-index.html.in >
download-index.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' general-faq.html.in >
general-faq.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' install.html.in > install.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' scripting.html.in > scripting.html
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc'
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc'
make[2]: Leaving directory '/home/yifeng/bin/meme-5.3.2/doc'
Making all in etc
make[2]: Entering directory '/home/yifeng/bin/meme-5.3.2/etc'
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
ame_template.html.in > ame_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
beadstring.xsl.in > beadstring.xsl
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
centrimo_template.html.in > centrimo_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
tgene_template.html.in > tgene_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
constants.js.in > constants.js
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
constants.xsl.in > constants.xsl
/bin/sed 's%tname%constants.js%' ./xsl-wrapper.in | /bin/sed '5r
constants.js' > constants.js.xsl
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
dreme_template.html.in > dreme_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
gomo-to-html.xsl.in > gomo-to-html.xsl
/usr/bin/perl ../etc/generate_xsl_icons.pl ../doc/images/gomo_icon.png >
icons.xsl
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
logging.conf.in > logging.conf
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
mast_template.html.in > mast_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
mcast_template.html.in > mcast_template.html
/bin/sed 's%tname%meme.css%' ./xsl-wrapper.in | /bin/sed '5r meme.css' >
meme.css.xsl
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
meme_template.html.in > meme_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
momo_template.html.in > momo_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
meme-chip_template.html.in > meme-chip_template.html
/usr/bin/perl ../etc/generate_js_wrapped_template.pl motif_logo_template
template.eps > motif_logo_template.js
/bin/sed 's%tname%simple-shared-doc.js%' ./xsl-wrapper.in | /bin/sed '5r
simple-shared-doc.js' > simple-shared-doc.js.xsl
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
spamo_template.html.in > spamo_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
streme_template.html.in > streme_template.html
/bin/sed -e 's%\@SOURCE_URL\@%https://meme-suite.org%g' -e
's%\@SITE_URL\@%https://meme-suite.org/meme%g' -e
's%\@DEV_CONTACT\@%meme-...@uw.edu%g' -e
's%\@AMIGO_URL\@%http://amigo.geneontology.org/amigo/term/GO_TERM_ID%'
tomtom_template.html.in > tomtom_template.html
/bin/sed 's%tname%utilities.js%' ./xsl-wrapper.in | /bin/sed '5r
utilities.js' > utilities.js.xsl
make[2]: Leaving directory '/home/yifeng/bin/meme-5.3.2/etc'
Making all in website
make[2]: Entering directory '/home/yifeng/bin/meme-5.3.2/website'
Making all in templates
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/website/templates'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/website/templates'
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/website'
make[3]: Nothing to be done for 'all-am'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/website'
make[2]: Leaving directory '/home/yifeng/bin/meme-5.3.2/website'
make[2]: Entering directory '/home/yifeng/bin/meme-5.3.2'
make[2]: Leaving directory '/home/yifeng/bin/meme-5.3.2'
make[1]: Leaving directory '/home/yifeng/bin/meme-5.3.2'

################# test.log
make check
make[1]: Entering directory '/home/yifeng/bin/meme-5.3.2'
make check-recursive
make[2]: Entering directory '/home/yifeng/bin/meme-5.3.2'
Making check in src
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/src'
make check-recursive
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/src'
Making check in filters
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/filters'
Making check in purge
make[6]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/filters/purge'
make[6]: Nothing to be done for 'check'.
make[6]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/filters/purge'
Making check in dust
make[6]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/filters/dust'
make[6]: Nothing to be done for 'check'.
make[6]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/filters/dust'
make[6]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/filters'
make[6]: Nothing to be done for 'check-am'.
make[6]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/filters'
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/filters'
Making check in libxml2
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/libxml2'
Making check in include
make[6]: Entering directory
'/home/yifeng/bin/meme-5.3.2/src/libxml2/include'
Making check in .
make[7]: Entering directory
'/home/yifeng/bin/meme-5.3.2/src/libxml2/include'
make[7]: Nothing to be done for 'check-am'.
make[7]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/libxml2/include'
Making check in libxml
make[7]: Entering directory
'/home/yifeng/bin/meme-5.3.2/src/libxml2/include/libxml'
make[7]: Nothing to be done for 'check'.
make[7]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/src/libxml2/include/libxml'
make[6]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/libxml2/include'
Making check in .
make[6]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/libxml2'
make[6]: Nothing to be done for 'check-am'.
make[6]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/libxml2'
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/libxml2'
Making check in libxslt
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/libxslt'
make[5]: Nothing to be done for 'check'.
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/libxslt'
Making check in .
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src'
make[5]: Nothing to be done for 'check-am'.
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src'
Making check in parallel
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/src/parallel'
cp -f meme ../meme;
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src/parallel'
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src'
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/src'
Making check in scripts
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/scripts'
make[3]: Nothing to be done for 'check'.
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/scripts'
Making check in tests
make[3]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests'
Making check in ame
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/ame'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/ame'
Making check in clustalw2fasta
make[4]: Entering directory
'/home/yifeng/bin/meme-5.3.2/tests/clustalw2fasta'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/tests/clustalw2fasta'
Making check in centrimo
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/centrimo'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/centrimo'
Making check in common
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/common'
Making check in motif.crp0
make[5]: Entering directory
'/home/yifeng/bin/meme-5.3.2/tests/common/motif.crp0'
make[5]: Nothing to be done for 'check'.
make[5]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/tests/common/motif.crp0'
Making check in motif.Puf3p
make[5]: Entering directory
'/home/yifeng/bin/meme-5.3.2/tests/common/motif.Puf3p'
make[5]: Nothing to be done for 'check'.
make[5]: Leaving directory
'/home/yifeng/bin/meme-5.3.2/tests/common/motif.Puf3p'
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/common'
make Klf1-200-100-shuffled.fa
make[6]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/common'
cp Klf1-200-100-shuffled.py3.fa ../../tests/common/Klf1-200-100-shuffled.fa
make[6]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/common'
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/common'
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/common'
Making check in create-priors
make[4]: Entering directory
'/home/yifeng/bin/meme-5.3.2/tests/create-priors'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/create-priors'
Making check in draw-mhmm
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/draw-mhmm'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/draw-mhmm'
Making check in dreme
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/dreme'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/dreme'
Making check in fasta-center
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/fasta-center'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/fasta-center'
Making check in fimo
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/fimo'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/fimo'
Making check in glam2
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/glam2'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/glam2'
Making check in glam2scan
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/glam2scan'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/glam2scan'
Making check in gomo
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/gomo'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/gomo'
Making check in mast
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mast'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mast'
Making check in mcast
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mcast'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mcast'
Making check in meme
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/meme'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/meme'
Making check in meme-chip
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/meme-chip'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/meme-chip'
Making check in mhmm
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mhmm'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mhmm'
Making check in mhmms
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mhmms'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mhmms'
Making check in momo
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/momo'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/momo'
Making check in mhmmscan
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/mhmmscan'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/mhmmscan'
Making check in motiph
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/motiph'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/motiph'
Making check in psp-gen
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/psp-gen'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/psp-gen'
Making check in qvalue
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/qvalue'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/qvalue'
Making check in scaffold
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/scaffold'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/scaffold'
Making check in spamo
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/spamo'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/spamo'
Making check in streme
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/streme'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/streme'
Making check in tgene
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/tgene'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/tgene'
Making check in tomtom
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/tomtom'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/tomtom'
Making check in web
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/web'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/web'
Making check in scripts
make[4]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
make test_driver
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
/bin/sed -e 's%@WHICHPERL@%/usr/bin/perl%' \
-e 's%@MYDISTDIR@%/home/yifeng/bin/meme-5.3.2%' \
-e 's%@BUILDDIR@%/home/yifeng/bin/meme-5.3.2%' \
-e 's%@TESTDIR@%/home/yifeng/bin/meme-5.3.2%' test_driver.pl.in >
test_driver
chmod +x test_driver
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
make check-TESTS
make[5]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
make[6]: Entering directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
PASS: motif-in.streme.klf1.text
PASS: motif-in.streme.klf1.xml
PASS: motif-in.streme.klf1.html
PASS: motif-in.streme.klf1.extdna.text
PASS: motif-in.streme.klf1.extdna.xml
PASS: motif-in.streme.klf1.extdna.html
PASS: motif-in.streme.puf3p.text
PASS: motif-in.streme.puf3p.xml
PASS: motif-in.streme.puf3p.html
PASS: motif-in.streme.lipocalin.text
PASS: motif-in.streme.lipocalin.xml
PASS: motif-in.streme.lipocalin.html
PASS: motif-in.meme.crp0.text
PASS: motif-in.meme.crp0.xml
PASS: motif-in.meme.crp0.html
PASS: motif-in.meme.lipocalin.text
PASS: motif-in.meme.lipocalin.xml
PASS: motif-in.meme.lipocalin.html
PASS: motif-in.meme.puf3p.text
PASS: motif-in.meme.puf3p.xml
PASS: motif-in.meme.puf3p.html
PASS: motif-in.meme.crp0.extdna.text
PASS: motif-in.meme.crp0.extdna.xml
PASS: motif-in.meme.crp0.extdna.html
PASS: motif-in.dreme.klf1.text
PASS: motif-in.dreme.klf1.xml
PASS: motif-in.dreme.klf1.html
PASS: motif-in.dreme.klf1.extdna.text
PASS: motif-in.dreme.klf1.extdna.xml
PASS: motif-in.dreme.klf1.extdna.html
PASS: motif-in.dreme.puf3p.text
PASS: motif-in.dreme.puf3p.xml
PASS: motif-in.dreme.puf3p.html
PASS: ama1
PASS: ama2
PASS: ame1
PASS: ame2
PASS: ame3
PASS: ame4
PASS: ame5
PASS: ame6
PASS: ame7
PASS: ame8
PASS: ame9
PASS: ame10
PASS: ame11
PASS: ame12
PASS: ame13
PASS: centrimo1
PASS: centrimo2
PASS: centrimo3
PASS: centrimo4
PASS: centrimo5
PASS: centrimo6
PASS: centrimo7
PASS: centrimo8
PASS: centrimo9
PASS: tgene1
PASS: tgene2
PASS: tgene3
PASS: tgene4
PASS: create-priors1
PASS: create-priors2
PASS: dreme1
PASS: dreme2
PASS: dreme3
PASS: dreme4
PASS: fasta-center1
FAIL: fasta-dinucleotide-shuffle1 (differences in stdout)
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: mast19
PASS: mast20
PASS: mast21
PASS: mcast1
PASS: mcast2
PASS: meme1
PASS: meme2
PASS: meme3
PASS: meme4
PASS: meme5
PASS: meme6
PASS: meme7
PASS: meme8
PASS: meme9
PASS: meme10
PASS: meme11
PASS: meme12
PASS: meme13
PASS: meme14
PASS: meme15
PASS: meme16
PASS: meme17
PASS: meme18
PASS: meme_psp
PASS: meme-chip1
PASS: momo1
PASS: momo2
PASS: momo3
PASS: momo4
PASS: momo5
PASS: momo6
PASS: momo7
PASS: momo8
PASS: momo9
PASS: momo10
PASS: momo11
PASS: momo12
PASS: momo13
PASS: momo14
PASS: momo15
PASS: momo16
PASS: momo17
PASS: momo18
PASS: motiph1
PASS: motiph2
PASS: psp-gen1
PASS: psp-gen2
PASS: psp-gen3
PASS: qvalue1
PASS: qvalue2
PASS: spamo1
PASS: spamo2
PASS: spamo3
PASS: spamo4
PASS: streme1
PASS: streme2
PASS: streme3
PASS: streme4
PASS: tomtom1
PASS: tomtom_allr
PASS: tomtom_ed
PASS: tomtom_kullback
PASS: tomtom_pearson
PASS: tomtom_sandelin
PASS: tomtom_blic1
PASS: tomtom_blic5
PASS: tomtom_allr_cs
PASS: tomtom_ed_cs
PASS: tomtom_kullback_cs
PASS: tomtom_pearson_cs
PASS: tomtom_sandelin_cs
PASS: tomtom_blic1_cs
PASS: tomtom_blic5_cs
============================================================================
Testsuite summary for meme 5.3.2
============================================================================
# TOTAL: 168
# PASS: 167
# SKIP: 0
# XFAIL: 0
# FAIL: 1
# XPASS: 0
# ERROR: 0
============================================================================
See tests/scripts/test-suite.log
============================================================================
Makefile:595: recipe for target 'test-suite.log' failed
make[6]: *** [test-suite.log] Error 1
make[6]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
Makefile:701: recipe for target 'check-TESTS' failed
make[5]: *** [check-TESTS] Error 2
make[5]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
Makefile:770: recipe for target 'check-am' failed
make[4]: *** [check-am] Error 2
make[4]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests/scripts'
Makefile:418: recipe for target 'check-recursive' failed
make[3]: *** [check-recursive] Error 1
make[3]: Leaving directory '/home/yifeng/bin/meme-5.3.2/tests'
Makefile:778: recipe for target 'check-recursive' failed
make[2]: *** [check-recursive] Error 1
make[2]: Leaving directory '/home/yifeng/bin/meme-5.3.2'
Makefile:1070: recipe for target 'check' failed
make[1]: *** [check] Error 2
make[1]: Leaving directory '/home/yifeng/bin/meme-5.3.2'
Makefile:1238: recipe for target 'test' failed
make: *** [test] Error 2

[cegrant]

The fork.h error is not an issue. The configure script runs many tests on
the capabilities of the local C compiler, some of which are not actually
relevant to the MEME Suite, but are just part of the standard baggage for
installs using autoconf.

If you look in tests/scripts/fasta-dinucleotide-shuffle.log you should find
a detailed error message on the fasta-dinucleotide-shuffle failure. My
suspicion is that you are using Python 3 which made some changes to the
random number generator, so the shuffled sequences generated for the test
case by Python 3 don't match the shuffled sequences generated by Python 2.
We working on updating the test to eliminate this error.

[yifeng yuan]

Thank you very much. I think you are right. Here is part of the log file
below.

Thank you again.
Yifeng


Test fasta-dinucleotide-shuffle1 ...
fasta-dinucleotide-shuffle -f common/Klf1-200-100.fa -t -dinuc 1>
results/fasta-dinucleotide-shuffle1/fasta-dinucleotide-shuffle_1W2jr_stdout
2> log
reference common/Klf1-200-100-shuffled.py2.fa output
results/fasta-dinucleotide-shuffle1/fasta-dinucleotide-shuffle_1W2jr_stdout

[cegrant]

We have a fix for this that we will include in the next release.

[Maciej Jończyk]

I have the same problem for version 5.3.3 with all dependencies installed.

Does it affect functioning of the scripts or I can neglect it?

[Maciej Jończyk]

OK, now I know it won't install.
Which of the latest versions doesn't have this bug?

[cegrant]

Hi Maciej, this bug shouldn't cause installation to fail. It only causes a
test of fasta-dinucleotide-shuffle to fail, and only because the shuffle no
longer exactly matches the previous Python 2 shuffle. The script should
otherwise work. I

If you are having problems with installation please capture the
installation log with the command

make install &2> install.log

and forward us a coy of install.log. That will help us troubleshoot the
problem.

[cegrant]

Sorry, that should be be

make &> install.log

!

[Maciej Jończyk]

Ok, the last time instalation failed, but now it runs on other system. The
error remains but meme works.

Thank you