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HPC - JGU - Life Sciences
seq-analysis
Commits
40443c28
Commit
40443c28
authored
Sep 02, 2019
by
Christian Meesters
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by using the biopython module version conflicts show be avoided
parent
fb3a1032
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blast/parallel_BLAST/LA_Wrapper
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blast/parallel_BLAST/LA_Wrapper
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40443c28
...
...
@@ -43,8 +43,7 @@ module purge
# load the most current version of GNU parallel
module load tools/parallel/20190822
#module load lang/Python/3.6.4-foss-2018a
module load lang/Python/3.7.4-GCCcore-8.3.0
module load bio/Biopython/1.74-foss-2019a
#TODO: find a solution for the bug in BLAST+ AND to select the version by hand
module load bio/BLAST+/2.9.0-gompi-2019a
#module load bio/BLAST+/2.7.1-foss-2018a
...
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@@ -714,7 +713,6 @@ if [ ! -d "$WORKDIR/$SPLITFILEDIR" ]; then
mkdir
-p
"
$WORKDIR
/
$SPLITFILEDIR
"
||
exit
1
;
mkdir
-p
"
$WORKDIR
/output"
||
exit
1
;
cd
"
$WORKDIR
"
pip
install
biopython
echo
"executing scratch generator on
$FASTA
(
$_arg_splitup_per_queryfile
entries per file)"
eval
"
${
SCRIPT_PATH
}
/splitter.py
$FASTA
$_arg_splitup_per_queryfile
"
&
# splitup queryfile
queue
$!
...
...
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