Commit 5ec91353 authored by Venkat Malladi's avatar Venkat Malladi
Browse files

Changed to dev server.

parent 7e8242c8
......@@ -42,7 +42,7 @@ main(){
fi
# query GUDMAP/RBK for study RID
echo "curl --location --request GET 'https://www.gudmap.org/ermrest/catalog/2/entity/RNASeq:Replicate/Study_RID="${rid}"'" | bash > $rid\_studyRID.json
echo "curl --location --request GET 'https://dev.gudmap.org/ermrest/catalog/2/entity/RNASeq:Replicate/Study_RID="${rid}"'" | bash > $rid\_studyRID.json
# extract replicate RIDs
......@@ -68,7 +68,7 @@ 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 production --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 --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 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 --email ${email} -with-report ./output/{}_report.html -with-timeline ./output/{}_timeline.html
}
......
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