Ci

Add and improve CI

PR checklist

• This comment contains a description of changes (with reason)
• If you've fixed a bug or added code that should be tested, add tests!
• Documentation in docs is updated
• Replace dag.png with the most recent CI pipleine integrated_pe artifact
• CHANGELOG.md is updated
• README.md is updated
• LICENSE.md is updated with new contributors
• Docker images moved to production release and changed in pipeline
• Docker images used in the CI unit tests match those used in pipleine

• Close issue
  Closes #27 (closed) Closes #48 (closed) Closes #54 (closed)

/cc @ghenry @venkat.malladi

.gitlab-ci.yml

@@ -37,6 +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
   - pytest -m pareseMetadata
 
 inferMetadata: