diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index 923f14517ea2ab48ab88e8db8861b152b6686fd5..3491d360a870c1a31511d6d856c3a8e7684e8cb3 100644 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -37,7 +37,7 @@ parseMetadata: - stranded=$(singularity run 'docker://bicf/python3:2.0.1_indev' python3 ./workflow/scripts/parseMeta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p stranded) - spike=$(singularity run 'docker://bicf/python3:2.0.1_indev' python3 ./workflow/scripts/parseMeta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p spike) - species=$(singularity run 'docker://bicf/python3:2.0.1_indev' python3 ./workflow/scripts/parseMeta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p species) - - echo -e "${endsMeta},${endsManual},${stranded},${spike},${species},${exp},${study},${repRID}" > design.csv + - echo -e "${endsMeta},${endsManual},${stranded},${spike},${species},${exp},${study},${rep}" > design.csv - pytest -m parseMetadata inferMetadata: