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GUDMAP_RBK
data_hub_scripts
Commits
e1073c63
Commit
e1073c63
authored
Mar 12, 2021
by
Gervaise Henry
🤠
Browse files
change location of .nf to match repo change
parent
e1cdf7c6
Changes
1
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Inline
Side-by-side
scripts/split_study.sh
View file @
e1073c63
...
...
@@ -82,7 +82,7 @@ main(){
cd
rna-seq
# run pipeline on replicate RIDs in parallel
while
read
repRID
;
do
echo
${
repRID
}
;
sleep
30
;
done
<
"../
${
rid
}
_studyRID.csv"
| xargs
-P
5
-I
{}
nextflow
-q
run
workflow/
rna-seq.nf
--repRID
{}
--source
dev
--deriva
/project/BICF/BICF_Core/shared/gudmap/test_data/auth/credential.json
--bdbag
/project/BICF/BICF_Core/shared/gudmap/test_data/auth/cookies.txt
--dev
false
--upload
true
--track
true
--email
${
email
}
-with-report
./output/
{}
_report.html
-with-timeline
./output/
{}
_timeline.html
while
read
repRID
;
do
echo
${
repRID
}
;
sleep
30
;
done
<
"../
${
rid
}
_studyRID.csv"
| xargs
-P
5
-I
{}
nextflow
-q
run rna-seq.nf
--repRID
{}
--source
dev
--deriva
/project/BICF/BICF_Core/shared/gudmap/test_data/auth/credential.json
--bdbag
/project/BICF/BICF_Core/shared/gudmap/test_data/auth/cookies.txt
--dev
false
--upload
true
--track
true
--email
${
email
}
-with-report
./output/
{}
_report.html
-with-timeline
./output/
{}
_timeline.html
}
...
...
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