diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index fb8278fc8178566f9e1d93ae91f9ed2270f3c269..2e489916f7b4b004c172be8aee6ae3bf762cd6e5 100644 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -39,7 +39,7 @@ parseMetadata: - 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) - readLength=$(singularity run 'docker://bicf/python3:2.0.1_indev' python3 ./workflow/scripts/parseMeta.py -r Replicate_RID -m "./test_data/meta/metaTest.stageNew.csv" -p readLength) - echo -e "${endsMeta},${endsManual},${stranded},${spike},${species},${readLength},${exp},${study},${rep}" > design.csv + - echo -e "${endsMeta},${endsManual},${stranded},${spike},${species},${readLength},${exp},${study},${rep}" > design.csv - pytest -m parseMetadata inferMetadata: