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NGS CLIA Lab
process_scripts
Commits
f65dccb0
Commit
f65dccb0
authored
Sep 22, 2020
by
Brandi Cantarel
Browse files
correct isdocker norm_annot.sh used by pindel
parent
07dfaba5
Changes
1
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variants/norm_annot.sh
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f65dccb0
...
...
@@ -25,9 +25,11 @@ shift $(($OPTIND -1))
baseDir
=
"
`
dirname
\"
$0
\"
`
"
if
[[
-z
$isdocker
]]
source
/etc/profile.d/modules.sh
module load bedtools/2.26.0 samtools/gcc/1.8 bcftools/gcc/1.8 snpeff/4.3q
then
source
/etc/profile.d/modules.sh
module load bedtools/2.26.0 samtools/gcc/1.8 bcftools/gcc/1.8 snpeff/4.3q
fi
if
[[
-a
"
${
index_path
}
/genome.fa"
]]
then
reffa
=
"
${
index_path
}
/genome.fa"
...
...
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