Hello,
I'm trying to install the command-line version of the meme suite but some of the tools get skipped and are not installed.
After entering:
./configure --prefix=$HOME/meme --with-url=
http://meme-suite.org --enable-build-libxml2 --enable-build-libxslt
I got some errors towards the end like this:
configure: WARNING: Neither Ghostscript or convert utilities were found. Png images won''t be generated from encapsulated postscript.
configure: WARNING:
Checking Required Perl Modules:
HTML::Template missing.
XML::Compile::SOAP11 missing. Used for downloading sequence databases from RSAT
XML::Compile::WSDL11 missing. Used for downloading sequence databases from RSAT
XML::Compile::Transport::SOAPHTTP missing. Used for downloading sequence databases from RSAT
Checking Optional Modules:
Log::Log4perl missing. Used for logging and debugging by developers.
Math::CDF missing. Only required for fasta-enriched-center script (which is not called by the web scripts).
========================
Configuration parameters
========================
Install path: /Users/sshell/meme
Install UID:
Version: 4.10.2
C compiler: gcc
C compiler flags: -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3
Linker: /usr/libexec/gcc/i686-apple-darwin10/4.2.1/ld
Special Libs: -lz -lm
MPICC /usr/bin/mpicc
MPIRUN
MPI_CMD -np
MPIINC -DMPI -I/usr/include
MPILIBDIR /usr/lib
MPIFLAGS -DPARALLEL
MEME URL:
http://meme-suite.org PREVIOUS VERSION URL:
SERVER CONTACT:
DEVELOPER CONTACT:
meme-...@uw.edu GO-SERVER URL:
http://amigo.geneontology.org/cgi-bin/amigo/term_details?term=GO_TERM_ID PERL: /usr/bin/perl
PYTHON: /Users/sshell/Library/Enthought/Canopy_64bit/User/bin/python
CONVERT:
GHOSTSCRIPT:
BUILD LIBXML2: yes
LIBXML2 compiler flags: -I${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 MEME DB: ${prefix}/db
MEME LOGS: ${prefix}/LOGS
MEME TEMP FILES:
OPAL URL: no
OPAL DEPLOY DIRECTORY:
Then after entering "make" and "make test" I get:
cd tests/scripts; make check
make test_driver
/usr/bin/sed -e 's%@WHICHPERL@%/usr/bin/perl%'
test_driver.pl.in > test_driver
chmod +x test_driver
make check-TESTS
PASS: ama1
PASS: ama2
PASS: ame1
PASS: centrimo1
PASS: create-priors1
PASS: create-priors2
SKIP: dreme1
SKIP: dreme2
SKIP: fasta-center1
SKIP: fasta-dinucleotide-shuffle1
PASS: fimo1
PASS: fimo2
PASS: fimo3
PASS: fimo4
FAIL: glam2_1 (CRASH!)
PASS: glam2scan1
PASS: gomo1
PASS: gomo2
PASS: mast1
PASS: mast2
PASS: mast3
PASS: mast4
PASS: mast5
PASS: mast6
PASS: mast7
PASS: mast8
PASS: mast9
PASS: mast10
PASS: mast11
PASS: mast12
PASS: mast13
PASS: mast14
PASS: mast15
PASS: mast16
PASS: mast17
PASS: mast18
PASS: mcast1
SKIP: meme1
SKIP: meme2
SKIP: meme3
SKIP: meme4
SKIP: meme5
SKIP: meme6
SKIP: meme_psp
PASS: motiph1
PASS: motiph2
SKIP: psp-gen1
SKIP: psp-gen2
PASS: qvalue1
PASS: spamo1
PASS: spamo2
PASS: tomtom_allr
PASS: tomtom_ed
PASS: tomtom_kullback
PASS: tomtom_sandelin
PASS: tomtom_blic1
PASS: tomtom_blic5
PASS: tomtom_allr_cs
PASS: tomtom_ed_cs
PASS: tomtom_kullback_cs
PASS: tomtom_sandelin_cs
PASS: tomtom_blic1_cs
PASS: tomtom_blic5_cs
============================================================================
Testsuite summary for meme 4.10.2
============================================================================
# TOTAL: 63
# PASS: 49
# SKIP: 13
# XFAIL: 0
# FAIL: 1
# XPASS: 0
# ERROR: 0
============================================================================
See tests/scripts/test-suite.log
============================================================================
make[3]: *** [test-suite.log] Error 1
make[2]: *** [check-TESTS] Error 2
make[1]: *** [check-am] Error 2
make: *** [test] Error 2
And sure enough, no executable for "meme" has been created.
Any ideas what's going wrong? I tried "make clean" and then doing it again, but the output was the same.
Thanks so much for any help!