Make test fails in DREME and MEME

[Lucas Kuijpers]

im trying to install MEME suite on my cluster account.
after configure and make i run make test and it crashes in DREME and MEME

when i look at the test-suite.log it says it cant covert xml to html.
im not the biggest computer buff and i dont know what to fix here.
i made sure i loaded the Python 2.7 module (instead of the Py3) and Perl.
thanks in advance

===============================================
   meme 4.11.1: tests/scripts/test-suite.log
===============================================

# TOTAL: 99
# PASS:  40
# SKIP:  21
# XFAIL: 0
# FAIL:  38
# XPASS: 0
# ERROR: 0

.. contents:: :depth: 2

RUN: ama
========

*******************************************************************************
Test ama1 ...
ama --verbosity 1 --scoring max-odds gomo/motif.meme gomo/seqs.fasta gomo/seqs.bg 1> results/ama1/ama_OY0W5_stdout 2> log
PASSED!
*******************************************************************************
Test ama2 ...
ama --pvalues --verbosity 1 --cs gomo/motif.meme gomo/seqs_red.fasta gomo/seqs.norc.bg 1> results/ama2/ama_6qQ4p_stdout 2> log
PASSED!

RUN: ame
========

*******************************************************************************
Test ame1 ...
ame --oc results/ame1 --silent --verbose 1 --bgformat 0 --control common/Klf1-200-100-shuffled.s common/Klf1-200-100.s common/Jaspar-subset.meme &> log
PASSED!

RUN: centrimo
=============

*******************************************************************************
Test centrimo1 ...
centrimo -verbosity 1 -oc results/centrimo -flip common/Klf1.s centrimo/dreme-Klf1.txt &> log
PASSED!

RUN: create_priors
==================

*******************************************************************************
Test create-priors1 ...
create-priors -oc results/create-priors1 create-priors/chrX.fa create-priors/DNaseHS_gm12878.wig &> log
Creating priors with alpha=1.0 and beta=10000
Sequence size is 3000000 bases.
Scores were observed for 4140 bases.
Minimum score is 1
Median score is 1
Maximum score is 3.97638
Sum of scores is 7156.07
Sum of un-normalized priors is 762695
Sum of normalized priors = 10000
Sum of prior distribution = 1
PASSED!
*******************************************************************************
Test create-priors2 ...
create-priors -oc results/create-priors2 create-priors/chrX.fa create-priors/DNaseHS_gm12878.wig &> log
Creating priors with alpha=1.0 and beta=10000
Sequence size is 3000000 bases.
Scores were observed for 4140 bases.
Minimum score is 1
Median score is 1
Maximum score is 3.97638
Sum of scores is 7156.07
Sum of un-normalized priors is 762695
Sum of normalized priors = 10000
Sum of prior distribution = 1
PASSED!

RUN: dreme
==========

*******************************************************************************
Test dreme1 ...
dreme -oc results/dreme1 -v 1 -p common/Klf1-200-100.s &> log
Traceback (most recent call last):
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1899, in <module>
    if __name__ == '__main__': main()
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1823, in main
    add_pthresh, description, given_only);
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1362, in write_xml_top
    fh.write(alph.asXML())
  File "/home/s2736799/meme_4.11.1/scripts/alphabet.py", line 982, in asXML
    out.append("{:s}<alphabet name={:s}".format(pad, quoteattr(self.getName())))
ValueError: zero length field name in format
-------------------------------------------------------------------------------
dreme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test dreme2 ...
dreme -norc -oc results/dreme2 -v 1 -p common/Klf1-200-100.s &> log
Traceback (most recent call last):
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1899, in <module>
    if __name__ == '__main__': main()
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1823, in main
    add_pthresh, description, given_only);
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1362, in write_xml_top
    fh.write(alph.asXML())
  File "/home/s2736799/meme_4.11.1/scripts/alphabet.py", line 982, in asXML
    out.append("{:s}<alphabet name={:s}".format(pad, quoteattr(self.getName())))
ValueError: zero length field name in format
-------------------------------------------------------------------------------
dreme exited with value 1 indicating failure.
FAILED!

RUN: fasta-center
=================

*******************************************************************************
Test fasta-center1 ...
fasta-center -len 100 -dna < common/Klf1-200.s 1> results/fasta-center1/fasta-center_n5Im7_stdout 2> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/fasta-center line 18.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/fasta-center line 18.
-------------------------------------------------------------------------------
fasta-center exited with value 255 indicating failure.
FAILED!

RUN: fasta-dinucleotide-shuffle
===============================

*******************************************************************************
Test fasta-dinucleotide-shuffle1 ...
fasta-dinucleotide-shuffle -f common/Klf1-200-100.s -t -dinuc 1> results/fasta-dinucleotide-shuffle1/fasta-dinucleotide-shuffle_UXCkt_stdout 2> log
PASSED!

RUN: fimo
=========

*******************************************************************************
Test fimo1 ...
fimo --oc results/fimo1 --motif-pseudo 0.01 fimo/MCM1.meme.html fimo/spiked.fasta &> log
Using motif +1 of width 13.
Using motif -1 of width 13.
Computing q-values.
Estimating pi_0 from a uniformly sampled set of 5308 p-values.
Estimating pi_0.
Estimated pi_0=0.843255
PASSED!
*******************************************************************************
Test fimo2 ...
fimo --oc results/fimo2 --motif 2 --motif 3 --thresh 0.01 common/crp0.meme.html motiph/spiked.fasta &> log
Skipping motif +1.
Skipping motif -1.
Using motif +2 of width 8.
Using motif -2 of width 8.
Computing q-values.
Estimating pi_0 from a uniformly sampled set of 5318 p-values.
Estimating pi_0.
Estimated pi_0=1
Using motif +3 of width 11.
Using motif -3 of width 11.
Computing q-values.
Estimating pi_0 from a uniformly sampled set of 5312 p-values.
Estimating pi_0.
Estimated pi_0=1
PASSED!
*******************************************************************************
Test fimo3 ...
fimo --oc results/fimo3 --psp fimo/GCN4_YPD.psp --prior-dist fimo/prior.dist.txt fimo/GCN4.meme fimo/GCN4_YPD.fasta &> log
Using motif +MA0303.1 of width 21.
Using motif -MA0303.1 of width 21.
Computing q-values.
Estimating pi_0 from a uniformly sampled set of 10000 p-values.
Estimating pi_0.
Estimated pi_0=1
PASSED!
*******************************************************************************
Test fimo4 ...
fimo --oc results/fimo4 --parse-genomic-coord --psp fimo/GCN4_YPD-genomic.psp --prior-dist fimo/prior.dist.txt fimo/GCN4.meme fimo/GCN4_YPD-genomic.fasta &> log
Using motif +MA0303.1 of width 21.
Using motif -MA0303.1 of width 21.
Computing q-values.
Estimating pi_0 from a uniformly sampled set of 10000 p-values.
Estimating pi_0.
Estimated pi_0=1
PASSED!

RUN: glam2
==========

*******************************************************************************
Test glam2_1 ...
glam2 -M -r 3 -n 100 -O results/glam2_1 p common/At.s &> log
The output directory 'results/glam2_1' already exists.
Its contents will be overwritten.
Run 1... 406 iterations
Run 2... 445 iterations
Run 3... 400 iterations

PASSED!

RUN: glam2scan
==============

*******************************************************************************
Test glam2scan1 ...
glam2scan -O results/glam2scan1 p glam2/glam2.txt common/At.s &> log
PASSED!

RUN: gomo
=========

*******************************************************************************
Test gomo1 ...
gomo --seed 1 --nostatus --verbosity 1 --oc results/gomo1 --motifs gomo/motif.meme gomo/GO2Gene.map.csv gomo/ama.nozscoring.xml &> log
PASSED!
*******************************************************************************
Test gomo2 ...
gomo --gs --seed 1 --nostatus --verbosity 1 --oc results/gomo2 --motifs gomo/motif.meme gomo/GO2Gene.map.csv gomo/ama.zscoring.xml gomo/ama.nozscoring.xml &> log
PASSED!

RUN: mast
=========

*******************************************************************************
Test mast1 ...
mast meme/meme.crp0.oops common/crp0.s -oc results/mast1 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast2 ...
mast meme/meme.crp0.zoops common/crp0.s -oc results/mast2 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast3 ...
mast meme/meme.crp0.tcm common/crp0.s -oc results/mast3 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast4 ...
mast meme/meme.INO_up800.oops common/INO_up800.s -oc results/mast4 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast5 ...
mast meme/meme.INO_up800.zoops common/INO_up800.s -oc results/mast5 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast6 ...
mast meme/meme.INO_up800.tcm common/INO_up800.s -oc results/mast6 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast7 ...
mast meme/meme.farntrans5.oops common/farntrans5.s -oc results/mast7 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast8 ...
mast meme/meme.farntrans5.zoops common/farntrans5.s -oc results/mast8 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast9 ...
mast meme/meme.farntrans5.tcm common/farntrans5.s -oc results/mast9 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast10 ...
mast meme/meme.lipocalin.oops common/lipocalin.s -oc results/mast10 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast11 ...
mast meme/meme.lipocalin.zoops common/lipocalin.s -oc results/mast11 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast12 ...
mast meme/meme.lipocalin.tcm common/lipocalin.s -oc results/mast12 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast13 ...
mast meme/meme.adh.oops common/adh.s -oc results/mast13 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast14 ...
mast meme/meme.adh.oops - -oc results/mast14 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast15 ...
mast meme/meme.adh.zoops common/adh.s -oc results/mast15 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast16 ...
mast meme/meme.adh.zoops - -oc results/mast16 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast17 ...
mast meme/meme.adh.tcm common/adh.s -oc results/mast17 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!
*******************************************************************************
Test mast18 ...
mast meme/meme.adh.tcm - -oc results/mast18 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_html line 50.
Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 13) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MastSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/mast_xml_to_txt line 67.
Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.
PASSED!

RUN: mcast
==========

*******************************************************************************
Test mcast1 ...
mcast -oc results/mcast1 meme/meme.lex0.zoops common/lex0.s &> log
Creating HMM from motif array.
Building HMM: (0) 1 2-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21 | (22)
Reading sequences in blocks of 434782 characters.
Warning: Cannot estimate pi_0 accurately from fewer than 100 p-values.         total p-values = 14. Using pi_zero = 1.0.
User time for computation: 0.004 seconds
System time for computation: 0.003 seconds
User time for output: 0.001999 seconds
System time for output: 0.007998 seconds
Total user time: 0.005999 seconds
Total system time: 0.010998 seconds
PASSED!

RUN: meme
=========

*******************************************************************************
Test meme1 ...
meme common/crp0.s -oc results/meme1 -mod oops -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme2 ...
meme common/crp0.s -oc results/meme2 -mod zoops -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme3 ...
meme common/crp0.s -oc results/meme3 -mod tcm -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme4 ...
meme common/adh.s -oc results/meme4 -mod oops -protein -nmotifs 2 -minw 8 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme5 ...
meme common/adh.s -oc results/meme5 -mod zoops -protein -nmotifs 2 -minw 8 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme6 ...
meme common/adh.s -oc results/meme6 -mod tcm -protein -nmotifs 2 -minw 8 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme7 ...
meme common/crp0.s -oc results/meme7 -mod oops -dna -revcomp -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log
w set, setting max and min widths to 18
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme8 ...
meme common/crp0.s -oc results/meme8 -mod zoops -dna -revcomp -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log
w set, setting max and min widths to 18
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme9 ...
meme common/crp0.s -oc results/meme9 -mod tcm -dna -revcomp -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log
w set, setting max and min widths to 18
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme10 ...
meme common/adh.s -oc results/meme10 -mod oops -protein -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log
w set, setting max and min widths to 18
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme11 ...
meme common/adh.s -oc results/meme11 -mod zoops -protein -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log
w set, setting max and min widths to 18
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme12 ...
meme common/adh.s -oc results/meme12 -mod tcm -protein -nmotifs 2 -objfun cv -w 18 -ctfrac 0.6 -maxwords 3000 -shuf 3 -nostatus &> log
w set, setting max and min widths to 18
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme13 ...
meme common/crp0.s -oc results/meme13 -mod oops -dna -revcomp -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme14 ...
meme common/crp0.s -oc results/meme14 -mod zoops -dna -revcomp -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme15 ...
meme common/crp0.s -oc results/meme15 -mod tcm -dna -revcomp -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme16 ...
meme common/adh.s -oc results/meme16 -mod oops -protein -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme17 ...
meme common/adh.s -oc results/meme17 -mod zoops -protein -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme18 ...
meme common/adh.s -oc results/meme18 -mod tcm -protein -nmotifs 2 -objfun nz -maxw 30 -ctfrac 0.8 -maxwords 2000 -shuf 3 -nostatus &> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
meme exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test meme_psp ...
meme common/psp_test.s -psp common/psp_test.psp -minsites 5 -dna -revcomp -minw 7 -maxw 12 -nostatus -text 1> results/meme19/meme_gvpfo_stdout 2> log
PASSED!

RUN: motif-in
=============

*******************************************************************************
Generating meme motifs...
meme -oc results/motif.meme.crp0 -nostatus -dna -nmotifs 3 common/crp0.s
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
*******************************************************************************
Test motif-in.meme.crp0.text ...
SKIPPED!
*******************************************************************************
Test motif-in.meme.crp0.xml ...
SKIPPED!
*******************************************************************************
Test motif-in.meme.crp0.html ...
SKIPPED!
*******************************************************************************
Generating meme motifs...
meme -oc results/motif.meme.lipocalin -nostatus -protein -nmotifs 3 common/lipocalin.s
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
*******************************************************************************
Test motif-in.meme.lipocalin.text ...
SKIPPED!
*******************************************************************************
Test motif-in.meme.lipocalin.xml ...
SKIPPED!
*******************************************************************************
Test motif-in.meme.lipocalin.html ...
SKIPPED!
*******************************************************************************
Generating meme motifs...
meme -oc results/motif.meme.puf3p -nostatus -rna -nmotifs 3 common/Puf3p-20.s
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
*******************************************************************************
Test motif-in.meme.puf3p.text ...
SKIPPED!
*******************************************************************************
Test motif-in.meme.puf3p.xml ...
SKIPPED!
*******************************************************************************
Test motif-in.meme.puf3p.html ...
SKIPPED!
*******************************************************************************
Generating meme motifs...
meme -oc results/motif.meme.crp0.extdna -nostatus -alph common/extended_dna.alph -nmotifs 3 common/crp0.s
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/MemeSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/meme_xml_to_html line 48.
Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.
*******************************************************************************
Test motif-in.meme.crp0.extdna.text ...
SKIPPED!
*******************************************************************************
Test motif-in.meme.crp0.extdna.xml ...
SKIPPED!
*******************************************************************************
Test motif-in.meme.crp0.extdna.html ...
SKIPPED!
*******************************************************************************
Generating dreme motifs...
dreme -oc results/motif.dreme.klf1 -dna -m 3 -p common/Klf1.s
Reading positive sequences common/Klf1.s ...
Shuffling positive sequences...
Traceback (most recent call last):
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1899, in <module>
    if __name__ == '__main__': main()
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1823, in main
    add_pthresh, description, given_only);
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1362, in write_xml_top
    fh.write(alph.asXML())
  File "/home/s2736799/meme_4.11.1/scripts/alphabet.py", line 982, in asXML
    out.append("{:s}<alphabet name={:s}".format(pad, quoteattr(self.getName())))
ValueError: zero length field name in format
*******************************************************************************
Test motif-in.dreme.klf1.text ...
SKIPPED!
*******************************************************************************
Test motif-in.dreme.klf1.xml ...
SKIPPED!
*******************************************************************************
Test motif-in.dreme.klf1.html ...
SKIPPED!
*******************************************************************************
Generating dreme motifs...
dreme -oc results/motif.dreme.klf1.extdna -alph common/extended_dna.alph -m 3 -p common/Klf1.s
Reading positive sequences common/Klf1.s ...
Shuffling positive sequences...
Traceback (most recent call last):
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1899, in <module>
    if __name__ == '__main__': main()
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1823, in main
    add_pthresh, description, given_only);
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1362, in write_xml_top
    fh.write(alph.asXML())
  File "/home/s2736799/meme_4.11.1/scripts/alphabet.py", line 982, in asXML
    out.append("{:s}<alphabet name={:s}".format(pad, quoteattr(self.getName())))
ValueError: zero length field name in format
*******************************************************************************
Test motif-in.dreme.klf1.extdna.text ...
SKIPPED!
*******************************************************************************
Test motif-in.dreme.klf1.extdna.xml ...
SKIPPED!
*******************************************************************************
Test motif-in.dreme.klf1.extdna.html ...
SKIPPED!
*******************************************************************************
Generating dreme motifs...
dreme -oc results/motif.dreme.puf3p -rna -m 3 -p common/Puf3p.s
Reading positive sequences common/Puf3p.s ...
Shuffling positive sequences...
Traceback (most recent call last):
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1899, in <module>
    if __name__ == '__main__': main()
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1823, in main
    add_pthresh, description, given_only);
  File "/home/s2736799/meme_4.11.1/scripts/dreme", line 1362, in write_xml_top
    fh.write(alph.asXML())
  File "/home/s2736799/meme_4.11.1/scripts/alphabet.py", line 982, in asXML
    out.append("{:s}<alphabet name={:s}".format(pad, quoteattr(self.getName())))
ValueError: zero length field name in format
*******************************************************************************
Test motif-in.dreme.puf3p.text ...
SKIPPED!
*******************************************************************************
Test motif-in.dreme.puf3p.xml ...
SKIPPED!
*******************************************************************************
Test motif-in.dreme.puf3p.html ...
SKIPPED!

RUN: motiph
===========

*******************************************************************************
Test motiph1 ...
motiph --seed 0 --bg 2 --pseudocount 0.01 --oc results/motiph1 motiph/spiked.aln motiph/yeast.tree motiph/MCM1.meme.html &> log
Using motif +1 of width 13.
Read alignment from motiph/spiked.aln.
Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600);
Computing q-values.
Estimating pi_0 from all 879 observed p-values.
Estimating pi_0.
Estimated pi_0=0.859743
Using motif -1 of width 13.
Read alignment from motiph/spiked.aln.
Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600);
Computing q-values.
Estimating pi_0 from all 879 observed p-values.
Estimating pi_0.
Estimated pi_0=0.813862
Total number of positions scored: 1758
PASSED!
*******************************************************************************
Test motiph2 ...
motiph --seed 0 --bg 2 --pseudocount 0.01 --oc results/motiph2 --output-pthresh 1 --motif 2 --motif 3 motiph/spiked.aln motiph/yeast.tree common/crp0.meme.html &> log
Using motif +2 of width 8.
Read alignment from motiph/spiked.aln.
Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600);
Computing q-values.
Estimating pi_0 from all 1243 observed p-values.
Estimating pi_0.
Estimated pi_0=1
Using motif -2 of width 8.
Read alignment from motiph/spiked.aln.
Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600);
Computing q-values.
Estimating pi_0 from all 1243 observed p-values.
Estimating pi_0.
Estimated pi_0=1
Using motif +3 of width 11.
Read alignment from motiph/spiked.aln.
Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600);
Computing q-values.
Estimating pi_0 from all 1014 observed p-values.
Estimating pi_0.
Estimated pi_0=1
Using motif -3 of width 11.
Read alignment from motiph/spiked.aln.
Trimmed tree: (Sbay:0.33300,(Smik:0.21600,(Spar:0.10500,Scer:0.14600):0.07700):0.08600);
Computing q-values.
Estimating pi_0 from all 1014 observed p-values.
Estimating pi_0.
Estimated pi_0=1
Total number of positions scored: 4514
PASSED!

RUN: pspgen
===========

*******************************************************************************
Test psp-gen1 ...
psp-gen -revcomp -pos psp-gen/one-peak-dna.fasta -neg psp-gen/all-A.fasta 1> results/pspgen1/psp-gen_DTMZC_stdout 2> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/psp-gen line 35.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/psp-gen line 35.
-------------------------------------------------------------------------------
psp-gen exited with value 255 indicating failure.
FAILED!
*******************************************************************************
Test psp-gen2 ...
psp-gen -protein -maxrange -triples -pos psp-gen/one-peak-protein.fasta -neg psp-gen/all-A.fasta 1> results/pspgen2/psp-gen_sL4xE_stdout 2> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/psp-gen line 35.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/psp-gen line 35.
-------------------------------------------------------------------------------
psp-gen exited with value 255 indicating failure.
FAILED!
*******************************************************************************
Test psp-gen3 ...
psp-gen -alph common/extended_dna.alph -revcomp -pos psp-gen/one-peak-dna.fasta -neg psp-gen/all-A.fasta 1> results/pspgen1/psp-gen_bR4A1_stdout 2> log
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/psp-gen line 35.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/psp-gen line 35.
-------------------------------------------------------------------------------
psp-gen exited with value 255 indicating failure.
FAILED!

RUN: qvalue
===========

*******************************************************************************
Test qvalue1 ...
qvalue --header 1 --append --column 2 --seed 7718 qvalue/uniform.txt 1> results/qvalue1/qvalue_iCOZg_stdout 2> log
Read 1000 values from qvalue/uniform.txt.
PASSED!

RUN: spamo
==========

*******************************************************************************
Test spamo1 ...
spamo -oc results/spamo1 -verbosity 1 -margin 20 -shared 1 spamo/limits.fasta spamo/primary.meme spamo/secondary.meme &> log
PASSED!
*******************************************************************************
Test spamo2 ...
spamo -oc results/spamo2 -verbosity 1 -margin 20 -shared 1 spamo/random.fasta spamo/primary.meme spamo/secondary.meme &> log
PASSED!

RUN: tomtom
===========

*******************************************************************************
Test tomtom_allr ...
tomtom -verbosity 1 -dist allr -oc results/tomtom1 -incomplete-scores common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_ed ...
tomtom -verbosity 1 -dist ed -oc results/tomtom2 -incomplete-scores common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_kullback ...
tomtom -verbosity 1 -dist kullback -oc results/tomtom3 -incomplete-scores common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_pearson ...
tomtom -verbosity 1 -dist pearson -oc results/tomtom4 -incomplete-scores common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_sandelin ...
tomtom -verbosity 1 -dist sandelin -oc results/tomtom5 -incomplete-scores common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_blic1 ...
tomtom -verbosity 1 -dist blic1 -oc results/tomtom6 -incomplete-scores common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_blic5 ...
tomtom -verbosity 1 -dist blic5 -oc results/tomtom7 -incomplete-scores common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_allr_cs ...
tomtom -verbosity 1 -dist allr -oc results/tomtom8 common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_ed_cs ...
tomtom -verbosity 1 -dist ed -oc results/tomtom9 common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_kullback_cs ...
tomtom -verbosity 1 -dist kullback -oc results/tomtom10 common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_pearson_cs ...
tomtom -verbosity 1 -dist pearson -oc results/tomtom11 common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_sandelin_cs ...
tomtom -verbosity 1 -dist sandelin -oc results/tomtom12 common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_blic1_cs ...
tomtom -verbosity 1 -dist blic1 -oc results/tomtom13 common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!
*******************************************************************************
Test tomtom_blic5_cs ...
tomtom -verbosity 1 -dist blic5 -oc results/tomtom14 common/sample.meme common/sample.meme &> log
Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation
Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/Alphabet.pm line 5.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/CheckingSAX.pm line 14.
Compilation failed in require at (eval 12) line 3.
    ...propagated at /usr/share/perl5/base.pm line 94.
BEGIN failed--compilation aborted at /home/s2736799/meme_4.11.1/scripts/TomtomSAX.pm line 3.
Compilation failed in require at /home/s2736799/meme_4.11.1/scripts/tomtom_xml_to_html line 49.
Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.
-------------------------------------------------------------------------------
tomtom exited with value 1 indicating failure.
FAILED!

[CharlesEGrant]

It looks like the problem with MAST and MEME is that your cluster is using an older version of Perl (5.10.1). This is the minimum version specified in our install guide, but it turns out the changes made to support arbitrary alphabets in MEME Suite 4.11.0 actually require a more recent version of Perl, at least Perl 5.12, but preferably 5.16 or later (The current version of Perl is 5.22). You'll need to install a newer version of Perl and then re-run the 'configure' script. It may be possible that your system already has multiple versions of Perl installed, and the MEME Suite 'configure' command just happens to find the old version. You can specify which version of Perl the MEME Suite should use with the '--with-perl" option to 'configure'. This option is described in the MEME Suite installation guide.

I can't tell for certain from the information you provided, but I suspect the problem with DREME is that the MEME Suite configure command found an older version of Python, probably version 2.6 or older. As with Perl, a system may have multiple versions of Python installed. MEME Suite will simply use the first one it finds. You may also need to specify the location of the version of Python you want to use with the ''--with-python" option for 'configure'.

See if you can find/install newer versions of Perl and Python. If you still run into problems after re-running 'configure', 'make', and 'make check' please forward us the file 'config.log' from the root MEME Suite directory.

[Fernando Carazo]

Hi Charles,

I'm having the same error as Lucas, but it seems that the configuration parameters are ok (perl version: perl-5.24.1)

Could you help me?

[root@storm meme_4.11.3]# rna2meme

Feature "unicode_strings" is not supported by Perl 5.10.1 at /root/meme/lib/perl/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /root/meme/lib/perl/Alphabet.pm line 5.

Compilation failed in require at /root/meme/bin/rna2meme line 12.

BEGIN failed--compilation aborted at /root/meme/bin/rna2meme line 12.

       ========================

        Configuration parameters

        ========================

  Install path:               /root/meme

  Install UID:

  Version:                    4.11.3

  C compiler:                 gcc

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

  Linker:                     /opt/rh/devtoolset-2/root/usr/libexec/gcc/x86_64-redhat-linux/4.8.2/ld -m elf_x86_64

  Special Libs:               -lz -lm

  MPICC                       gcc

  MPIRUN                      /usr/bin/mpirun

  MPI_CMD

  MPIINC

  MPILIBDIR

  MPIFLAGS

  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:                       /home/Software/perl-5.24.1/perl

  PYTHON:                     /home/Software/Python-2.7.13/python

  PYTHON3:

  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:

############################################################ make test ################################################################

PASS: ama1

PASS: ama2

PASS: ame1

PASS: centrimo1

PASS: create-priors1

PASS: create-priors2

ERROR: /home/Software/meme_4.11.3/tests/scripts/dreme.test (FAULT IN TEST!)

FAIL: fasta-center1 (CRASH!)

PASS: fasta-dinucleotide-shuffle1

PASS: fimo1

PASS: fimo2

PASS: fimo3

PASS: fimo4

PASS: glam2_1

PASS: glam2scan1

PASS: gomo1

PASS: gomo2

PASS: mast1

PASS: mast2

PASS: mast3

PASS: mast4

PASS: mast5

PASS: mast6

PASS: mast7

PASS: mast8

PASS: mast9

PASS: mast10

PASS: mast11

PASS: mast12

PASS: mast13

PASS: mast14

PASS: mast15

PASS: mast16

PASS: mast17

PASS: mast18

PASS: mcast1

FAIL: meme1 (CRASH!)

FAIL: meme2 (CRASH!)

FAIL: meme3 (CRASH!)

FAIL: meme4 (CRASH!)

FAIL: meme5 (CRASH!)

FAIL: meme6 (CRASH!)

PASS: meme_psp

SKIP: motif-in.meme.crp0.text (meme.txt missing)

SKIP: motif-in.meme.crp0.xml (meme.xml missing)

SKIP: motif-in.meme.crp0.html (meme.html missing)

SKIP: motif-in.meme.lipocalin.text (meme.txt missing)

SKIP: motif-in.meme.lipocalin.xml (meme.xml missing)

SKIP: motif-in.meme.lipocalin.html (meme.html missing)

SKIP: motif-in.meme.puf3p.text (meme.txt missing)

SKIP: motif-in.meme.puf3p.xml (meme.xml missing)

SKIP: motif-in.meme.puf3p.html (meme.html missing)

SKIP: motif-in.meme.crp0.extdna.text (meme.txt missing)

SKIP: motif-in.meme.crp0.extdna.xml (meme.xml missing)

SKIP: motif-in.meme.crp0.extdna.html (meme.html missing)

SKIP: motif-in.dreme.klf1.text (dreme.txt missing)

SKIP: motif-in.dreme.klf1.xml (dreme.xml missing)

SKIP: motif-in.dreme.klf1.html (dreme.html missing)

SKIP: motif-in.dreme.klf1.extdna.text (dreme.txt missing)

SKIP: motif-in.dreme.klf1.extdna.xml (dreme.xml missing)

SKIP: motif-in.dreme.klf1.extdna.html (dreme.html missing)

SKIP: motif-in.dreme.puf3p.text (dreme.txt missing)

SKIP: motif-in.dreme.puf3p.xml (dreme.xml missing)

SKIP: motif-in.dreme.puf3p.html (dreme.html missing)

PASS: motiph1

PASS: motiph2

FAIL: psp-gen1 (CRASH!)

FAIL: psp-gen2 (CRASH!)

FAIL: psp-gen3 (CRASH!)

PASS: qvalue1

PASS: spamo1

PASS: spamo2

FAIL: tomtom_allr (CRASH!)

FAIL: tomtom_ed (CRASH!)

FAIL: tomtom_kullback (CRASH!)

FAIL: tomtom_pearson (CRASH!)

FAIL: tomtom_sandelin (CRASH!)

FAIL: tomtom_blic1 (CRASH!)

FAIL: tomtom_blic5 (CRASH!)

FAIL: tomtom_allr_cs (CRASH!)

FAIL: tomtom_ed_cs (CRASH!)

FAIL: tomtom_kullback_cs (CRASH!)

FAIL: tomtom_pearson_cs (CRASH!)

FAIL: tomtom_sandelin_cs (CRASH!)

FAIL: tomtom_blic1_cs (CRASH!)

FAIL: tomtom_blic5_cs (CRASH!)

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

Testsuite summary for meme 4.11.3

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

# TOTAL: 86

# PASS:  40

# SKIP:  21

# XFAIL: 0

# FAIL:  24

# XPASS: 0

# ERROR: 1

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

See tests/scripts/test-suite.log

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

############################################################ test-suite.log ################################################################

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

   meme 4.11.3: tests/scripts/test-suite.log

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

# TOTAL: 86

# PASS:  40

# SKIP:  21

# XFAIL: 0

# FAIL:  24

# XPASS: 0

# ERROR: 1

.. contents:: :depth: 2

RUN: ama

========

*******************************************************************************

Test ama1 ...

ama --verbosity 1 --scoring max-odds gomo/motif.meme gomo/seqs.fasta gomo/seqs.bg 1> results/ama1/ama_e7cv0_stdout 2> log

PASSED!

*******************************************************************************

Test ama2 ...

ama --pvalues --verbosity 1 --cs gomo/motif.meme gomo/seqs_red.fasta gomo/seqs.norc.bg 1> results/ama2/ama_pXPWZ_stdout 2> log

PASSED!

RUN: ame

========

*******************************************************************************

Test ame1 ...

ame --oc results/ame1 --silent --verbose 1 --bgformat 0 --xalph common/alphabet_rna.txt --control common/Klf1-200-100-shuffled.s common/Klf1-200-100.s common/Jaspar-subset.meme &> log

PASSED!

RUN: centrimo

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

*******************************************************************************

Test centrimo1 ...

centrimo -verbosity 1 -oc results/centrimo -flip common/Klf1.s centrimo/dreme-Klf1.txt &> log

 0.255

 0.245

 0.243

 0.257

Error parsing test /home/Software/meme_4.11.3/tests/scripts/dreme.test: Can't locate File/Which.pm in @INC (you may need to install the File::Which module) (@INC contains: /home/Software/meme_4.11.3/scripts /usr/local/lib/perl5/site_perl/5.24.1/x86_64-linux-thread-multi /usr/local/lib/perl5/site_perl/5.24.1 /usr/local/lib/perl5/5.24.1/x86_64-linux-thread-multi /usr/local/lib/perl5/5.24.1 .) at /home/Software/meme_4.11.3/tests/scripts/dreme.test line 1.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/tests/scripts/dreme.test line 1.

RUN: fasta-center

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

*******************************************************************************

Test fasta-center1 ...

fasta-center -len 100 -dna < common/Klf1-200.s 1> results/fasta-center1/fasta-center_4BmI6_stdout 2> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /root/meme/lib/perl/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /root/meme/lib/perl/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/fasta-center line 18.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/fasta-center line 18.

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

fasta-center exited with value 255 indicating failure.

FAILED!

RUN: fasta-dinucleotide-shuffle

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

*******************************************************************************

Test fasta-dinucleotide-shuffle1 ...

fasta-dinucleotide-shuffle -f common/Klf1-200-100.s -t -dinuc 1> results/fasta-dinucleotide-shuffle1/fasta-dinucleotide-shuffle_C64YK_stdout 2> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast2 ...

mast meme/meme.crp0.zoops common/crp0.s -oc results/mast2 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast3 ...

mast meme/meme.crp0.tcm common/crp0.s -oc results/mast3 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast4 ...

mast meme/meme.INO_up800.oops common/INO_up800.s -oc results/mast4 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast5 ...

mast meme/meme.INO_up800.zoops common/INO_up800.s -oc results/mast5 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast6 ...

mast meme/meme.INO_up800.tcm common/INO_up800.s -oc results/mast6 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast7 ...

mast meme/meme.farntrans5.oops common/farntrans5.s -oc results/mast7 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast8 ...

mast meme/meme.farntrans5.zoops common/farntrans5.s -oc results/mast8 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast9 ...

mast meme/meme.farntrans5.tcm common/farntrans5.s -oc results/mast9 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast10 ...

mast meme/meme.lipocalin.oops common/lipocalin.s -oc results/mast10 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast11 ...

mast meme/meme.lipocalin.zoops common/lipocalin.s -oc results/mast11 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast12 ...

mast meme/meme.lipocalin.tcm common/lipocalin.s -oc results/mast12 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast13 ...

mast meme/meme.adh.oops common/adh.s -oc results/mast13 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast14 ...

mast meme/meme.adh.oops - -oc results/mast14 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast15 ...

mast meme/meme.adh.zoops common/adh.s -oc results/mast15 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast16 ...

mast meme/meme.adh.zoops - -oc results/mast16 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast17 ...

mast meme/meme.adh.tcm common/adh.s -oc results/mast17 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

*******************************************************************************

Test mast18 ...

mast meme/meme.adh.tcm - -oc results/mast18 -nostatus -df stdin -dna -seqp < common/mini-drosoph.s &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_html line 50.

Warning: mast_xml_to_html exited abnormally and may have failed to create HTML output.

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 14) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MastSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/mast_xml_to_txt line 67.

Warning: mast_xml_to_txt exited abnormally and may have failed to create text output.

PASSED!

RUN: mcast

==========

*******************************************************************************

Test mcast1 ...

mcast -oc results/mcast1 meme/meme.lex0.zoops common/lex0.s &> log

Creating HMM from motif array.

Building HMM: (0) 1 2-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21 | (22)

Reading sequences in blocks of 434782 characters.

Warning: Cannot estimate pi_0 accurately from fewer than 100 p-values.         total p-values = 14. Using pi_zero = 1.0.

User time for computation: 0.003999 seconds

System time for computation: 0 seconds

User time for output: 0.002 seconds

System time for output: 0.001 seconds

Total user time: 0.005999 seconds

Total system time: 0.001 seconds

PASSED!

RUN: meme

=========

*******************************************************************************

Test meme1 ...

meme common/crp0.s -oc results/meme1 -mod oops -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

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

meme exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test meme2 ...

meme common/crp0.s -oc results/meme2 -mod zoops -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

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

meme exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test meme3 ...

meme common/crp0.s -oc results/meme3 -mod tcm -dna -revcomp -nmotifs 2 -minw 8 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

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

meme exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test meme4 ...

meme common/adh.s -oc results/meme4 -mod oops -protein -nmotifs 2 -minw 8 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

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

meme exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test meme5 ...

meme common/adh.s -oc results/meme5 -mod zoops -protein -nmotifs 2 -minw 8 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

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

meme exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test meme6 ...

meme common/adh.s -oc results/meme6 -mod tcm -protein -nmotifs 2 -minw 8 -nostatus &> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

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

meme exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test meme_psp ...

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

PASSED!

RUN: motif-in

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

*******************************************************************************

Generating meme motifs...

meme -oc results/motif.meme.crp0 -nostatus -dna -nmotifs 3 common/crp0.s

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

*******************************************************************************

Test motif-in.meme.crp0.text ...

SKIPPED!

*******************************************************************************

Test motif-in.meme.crp0.xml ...

SKIPPED!

*******************************************************************************

Test motif-in.meme.crp0.html ...

SKIPPED!

*******************************************************************************

Generating meme motifs...

meme -oc results/motif.meme.lipocalin -nostatus -protein -nmotifs 3 common/lipocalin.s

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

*******************************************************************************

Test motif-in.meme.lipocalin.text ...

SKIPPED!

*******************************************************************************

Test motif-in.meme.lipocalin.xml ...

SKIPPED!

*******************************************************************************

Test motif-in.meme.lipocalin.html ...

SKIPPED!

*******************************************************************************

Generating meme motifs...

meme -oc results/motif.meme.puf3p -nostatus -rna -nmotifs 3 common/Puf3p-20.s

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

*******************************************************************************

Test motif-in.meme.puf3p.text ...

SKIPPED!

*******************************************************************************

Test motif-in.meme.puf3p.xml ...

SKIPPED!

*******************************************************************************

Test motif-in.meme.puf3p.html ...

SKIPPED!

*******************************************************************************

Generating meme motifs...

meme -oc results/motif.meme.crp0.extdna -nostatus -alph common/extended_dna.alph -nmotifs 3 common/crp0.s

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/MemeSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/meme_xml_to_html line 48.

Warning: meme_xml_to_html exited abnormally and may have failed to create HTML output.

*******************************************************************************

Test motif-in.meme.crp0.extdna.text ...

SKIPPED!

*******************************************************************************

Test motif-in.meme.crp0.extdna.xml ...

SKIPPED!

*******************************************************************************

Test motif-in.meme.crp0.extdna.html ...

SKIPPED!

*******************************************************************************

Generating dreme motifs...

dreme -oc results/motif.dreme.klf1 -dna -m 3 -p common/Klf1.s

Reading positive sequences common/Klf1.s ...

Shuffling positive sequences...

Traceback (most recent call last):

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1900, in <module>

    if __name__ == '__main__': main()

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1824, in main

    add_pthresh, description, given_only);

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1363, in write_xml_top

    fh.write(alph.asXML())

  File "/home/Software/meme_4.11.3/scripts/alphabet.py", line 991, in asXML

    out.append("{:s}<alphabet name={:s}".format(pad, quoteattr(self.getName())))

ValueError: zero length field name in format

*******************************************************************************

Test motif-in.dreme.klf1.text ...

SKIPPED!

*******************************************************************************

Test motif-in.dreme.klf1.xml ...

SKIPPED!

*******************************************************************************

Test motif-in.dreme.klf1.html ...

SKIPPED!

*******************************************************************************

Generating dreme motifs...

dreme -oc results/motif.dreme.klf1.extdna -alph common/extended_dna.alph -m 3 -p common/Klf1.s

Reading positive sequences common/Klf1.s ...

Shuffling positive sequences...

Traceback (most recent call last):

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1900, in <module>

    if __name__ == '__main__': main()

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1824, in main

    add_pthresh, description, given_only);

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1363, in write_xml_top

    fh.write(alph.asXML())

  File "/home/Software/meme_4.11.3/scripts/alphabet.py", line 991, in asXML

    out.append("{:s}<alphabet name={:s}".format(pad, quoteattr(self.getName())))

ValueError: zero length field name in format

*******************************************************************************

Test motif-in.dreme.klf1.extdna.text ...

SKIPPED!

*******************************************************************************

Test motif-in.dreme.klf1.extdna.xml ...

SKIPPED!

*******************************************************************************

Test motif-in.dreme.klf1.extdna.html ...

SKIPPED!

*******************************************************************************

Generating dreme motifs...

dreme -oc results/motif.dreme.puf3p -rna -m 3 -p common/Puf3p.s

Reading positive sequences common/Puf3p.s ...

Shuffling positive sequences...

Traceback (most recent call last):

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1900, in <module>

    if __name__ == '__main__': main()

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1824, in main

    add_pthresh, description, given_only);

  File "/home/Software/meme_4.11.3/scripts/dreme", line 1363, in write_xml_top

    fh.write(alph.asXML())

  File "/home/Software/meme_4.11.3/scripts/alphabet.py", line 991, in asXML

psp-gen -revcomp -pos psp-gen/one-peak-dna.fasta -neg psp-gen/all-A.fasta 1> results/pspgen1/psp-gen_Zfq4R_stdout 2> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /root/meme/lib/perl/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /root/meme/lib/perl/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/psp-gen line 35.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/psp-gen line 35.

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

psp-gen exited with value 255 indicating failure.

FAILED!

*******************************************************************************

Test psp-gen2 ...

psp-gen -protein -maxrange -triples -pos psp-gen/one-peak-protein.fasta -neg psp-gen/all-A.fasta 1> results/pspgen2/psp-gen_k1OVM_stdout 2> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /root/meme/lib/perl/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /root/meme/lib/perl/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/psp-gen line 35.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/psp-gen line 35.

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

psp-gen exited with value 255 indicating failure.

FAILED!

*******************************************************************************

Test psp-gen3 ...

psp-gen -alph common/extended_dna.alph -revcomp -pos psp-gen/one-peak-dna.fasta -neg psp-gen/all-A.fasta 1> results/pspgen1/psp-gen_XOMKB_stdout 2> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /root/meme/lib/perl/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /root/meme/lib/perl/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/psp-gen line 35.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/psp-gen line 35.

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

psp-gen exited with value 255 indicating failure.

FAILED!

RUN: qvalue

===========

*******************************************************************************

Test qvalue1 ...

qvalue --header 1 --append --column 2 --seed 7718 qvalue/uniform.txt 1> results/qvalue1/qvalue_HDJLc_stdout 2> log

Read 1000 values from qvalue/uniform.txt.

PASSED!

RUN: spamo

==========

*******************************************************************************

Test spamo1 ...

spamo -oc results/spamo1 -verbosity 1 -margin 20 -shared 1 spamo/limits.fasta spamo/primary.meme spamo/secondary.meme &> log

PASSED!

*******************************************************************************

Test spamo2 ...

spamo -oc results/spamo2 -verbosity 1 -margin 20 -shared 1 spamo/random.fasta spamo/primary.meme spamo/secondary.meme &> log

PASSED!

RUN: tomtom

===========

*******************************************************************************

Test tomtom_allr ...

tomtom -verbosity 1 -dist allr -oc results/tomtom1 -incomplete-scores common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_ed ...

tomtom -verbosity 1 -dist ed -oc results/tomtom2 -incomplete-scores common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_kullback ...

tomtom -verbosity 1 -dist kullback -oc results/tomtom3 -incomplete-scores common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_pearson ...

tomtom -verbosity 1 -dist pearson -oc results/tomtom4 -incomplete-scores common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_sandelin ...

tomtom -verbosity 1 -dist sandelin -oc results/tomtom5 -incomplete-scores common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_blic1 ...

tomtom -verbosity 1 -dist blic1 -oc results/tomtom6 -incomplete-scores common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_blic5 ...

tomtom -verbosity 1 -dist blic5 -oc results/tomtom7 -incomplete-scores common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_allr_cs ...

tomtom -verbosity 1 -dist allr -oc results/tomtom8 common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_ed_cs ...

tomtom -verbosity 1 -dist ed -oc results/tomtom9 common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_kullback_cs ...

tomtom -verbosity 1 -dist kullback -oc results/tomtom10 common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_pearson_cs ...

tomtom -verbosity 1 -dist pearson -oc results/tomtom11 common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_sandelin_cs ...

tomtom -verbosity 1 -dist sandelin -oc results/tomtom12 common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_blic1_cs ...

tomtom -verbosity 1 -dist blic1 -oc results/tomtom13 common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

Warning: tomtom_xml_to_html exited abnormally and may have failed to create HTML output.

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

tomtom exited with value 1 indicating failure.

FAILED!

*******************************************************************************

Test tomtom_blic5_cs ...

tomtom -verbosity 1 -dist blic5 -oc results/tomtom14 common/sample.meme common/sample.meme &> log

Warning: Target database size too small (5). Provide at least 50 motifs for accurate p-value computation

Feature "unicode_strings" is not supported by Perl 5.10.1 at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/Alphabet.pm line 5.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/CheckingSAX.pm line 14.

Compilation failed in require at (eval 13) line 3.

        ...propagated at /usr/share/perl5/base.pm line 94.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/scripts/TomtomSAX.pm line 3.

Compilation failed in require at /home/Software/meme_4.11.3/scripts/tomtom_xml_to_html line 49.

[CharlesEGrant]

The error messages indicate that have multiple issues with your Perl installation:

Test centrimo1 ...

Error parsing test /home/Software/meme_4.11.3/tests/scripts/dreme.test: Can't locate File/Which.pm in @INC (you may need to install the File::Which module) (@INC contains: /home/Software/meme_4.11.3/scripts /usr/local/lib/perl5/site_perl/5.24.1/x86_64-linux-thread-multi /usr/local/lib/perl5/site_perl/5.24.1 /usr/local/lib/perl5/5.24.1/x86_64-linux-thread-multi /usr/local/lib/perl5/5.24.1 .) at /home/Software/meme_4.11.3/tests/scripts/dreme.test line 1.

BEGIN failed--compilation aborted at /home/Software/meme_4.11.3/tests/scripts/dreme.test line 1.

 

This message indicates that your Perl 5.24 installation is missing the File::Which module.

fasta-center -len 100 -dna < common/Klf1-200.s 1> results/fasta-center1/fasta-center_4BmI6_stdout 2> log

Feature "unicode_strings" is not supported by Perl 5.10.1 at /root/meme/lib/perl/Alphabet.pm line 5.
BEGIN failed--compilation aborted at /root/meme/lib/perl/Alphabet.pm line 5.

This message indicates that you have multiple versions of Perl and the MEME Suite installed on your system. I suspect the older version of the MEME Suite is set up to use the older version of Perl. I also suspect that the older version of the MEME Suite is set in your PATH variable, so when the MEME Suite tests run, they are invoking the older version. Check you PATH and PERL5LB environment variables, and remove references to older installations.

[Fernando Carazo]

Thank you very much, it already works.