MEME make test error

[Ira Shchukina]

Hi!

I'm trying to install MEME and have an issue with psp-test: 

FAIL: meme_psp (differences in stdout).

Lines from log corresponding to this test:

Test meme_psp ...

meme common/psp_test.s -psp common/psp_test.psp -minsites 5 -dna -revcomp -minw 7 -maxw 12 -nostatus -text 1> results/meme7/meme_MyYdR_stdout 2> log

-------------------------------------------------------------------------------

0a1,10

> --------------------------------------------------------------------------

> [[31575,1],0]: A high-performance Open MPI point-to-point messaging module

> was unable to find any relevant network interfaces:

> 

> Module: OpenFabrics (openib)

>   Host: ace

> 

> Another transport will be used instead, although this may result in

> lower performance.

> --------------------------------------------------------------------------

FAILED!

RUN: motif-in

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

There is no other problems:

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

Testsuite summary for meme 4.11.2

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

# TOTAL: 87

# PASS:  86

# SKIP:  0

# XFAIL: 0

# FAIL:  1

# XPASS: 0

# ERROR: 0

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

See tests/scripts/test-suite.log

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

Makefile:571: recipe for target 'test-suite.log' failed

make[3]: *** [test-suite.log] Error 1

make[3]: Leaving directory '/Molly/shchukinai/soft/meme/meme_4.11.2/tests/scripts'

Makefile:677: recipe for target 'check-TESTS' failed

make[2]: *** [check-TESTS] Error 2

make[2]: Leaving directory '/Molly/shchukinai/soft/meme/meme_4.11.2/tests/scripts'

Makefile:743: recipe for target 'check-am' failed

make[1]: *** [check-am] Error 2

make[1]: Leaving directory '/Molly/shchukinai/soft/meme/meme_4.11.2/tests/scripts'

Makefile:1179: recipe for target 'test' failed

make: *** [test] Error 2

Is it crucial for a simple analysis? How can I fix it?

My configuration parameters are:

configure: WARNING:     

Checking Required Perl Modules:

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:

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

        ========================

        Configuration parameters

        ========================

  Install path:               /home/schukinai/meme

  Install UID:                

  Version:                    4.11.2

  C compiler:                 gcc

  C compiler flags:           -std=gnu89 -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 

  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:                     /usr/local/bin/python

  CONVERT:                    /usr/bin/convert

  GHOSTSCRIPT:                /usr/bin/gs

  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:      

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

        make

        make test

        make install

Thank you for your help!

-Ira 

[CharlesEGrant]

Hi Ira,

> --------------------------------------------------------------------------
> [[31575,1],0]: A high-performance Open MPI point-to-point messaging module
> was unable to find any relevant network interfaces:
>
> Module: OpenFabrics (openib)
>   Host: ace
>
> Another transport will be used instead, although this may result in
> lower performance.
> --------------------------------------------------------------------------

This message seems to indicate that there is some sort of issue with your MPI setup. That MPI warning message is getting included in the MEME output, which then doesn't match the expected output for that test. In this case the difference is probably innocuous, but the test fails because the output is different than expected. Given that all the other tests passed I think you can safely ignore this failure.