diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index f35caee3a7ce07870b96d60475903727a785d2f6..742e62087c0ff70e4147975e2ee359d2af9df2c2 100644 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -26,6 +26,14 @@ getData: - singularity run 'docker://bicf/gudmaprbkfilexfer:1.3' sh ./workflow/scripts/bdbagFetch.sh Replicate_16-1ZX4 16-1ZX4 - pytest -m getData +parseMetadata: + stage: unit + script: + - singularity run 'docker://bicf/python3:1.3' python3 ./workflow/scripts/parseMeta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p repRID + - singularity run 'docker://bicf/python3:1.3' python3 ./workflow/scripts/parseMeta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p ends + - singularity run 'docker://bicf/python3:1.3' python3 ./workflow/scripts/parseMeta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p stranded + - singularity run 'docker://bicf/python3:1.3' python3 ./workflow/scripts/parseMeta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p specie + trimData: stage: unit script: