Remove ends manual from parse metadata unit ci

.gitlab-ci.yml

@@ -109,12 +109,11 @@ parseMetadata:
   - study=$(singularity run 'docker://gudmaprbk/python3:1.0.0' python3 ./workflow/scripts/parse_meta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p studyRID)
   - endsRaw=$(singularity run 'docker://gudmaprbk/python3:1.0.0' python3 ./workflow/scripts/parse_meta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p endsMeta)
   - endsMeta="uk"
-  - endsManual=$(singularity run 'docker://gudmaprbk/python3:1.0.0' python3 ./workflow/scripts/parse_meta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p endsManual)
   - stranded=$(singularity run 'docker://gudmaprbk/python3:1.0.0' python3 ./workflow/scripts/parse_meta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p stranded)
   - spike=$(singularity run 'docker://gudmaprbk/python3:1.0.0' python3 ./workflow/scripts/parse_meta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p spike)
   - species=$(singularity run 'docker://gudmaprbk/python3:1.0.0' python3 ./workflow/scripts/parse_meta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p species)
   - readLength=$(singularity run 'docker://gudmaprbk/python3:1.0.0' python3 ./workflow/scripts/parse_meta.py -r Replicate_RID -m "./test_data/meta/metaTest.csv" -p readLength)
-  - echo -e "${endsMeta},${endsRaw},${endsManual},${stranded},${spike},${species},${readLength},${exp},${study},${rep}" > design.csv
+  - echo -e "${endsMeta},${endsRaw},${stranded},${spike},${species},${readLength},${exp},${study},${rep}" > design.csv
   - pytest -m parseMetadata
   artifacts:
     name: "$CI_JOB_NAME"

workflow/tests/test_parseMetadata.py

@@ -19,7 +19,7 @@ def readLine(fileName):
     data = False
     file = open(fileName, "r")
     line = file.readline()
-    if line.strip() == "uk,uk,se,unstranded,no,Homo sapiens,75,Experiment_RID,Study_RID,Replicate_RID":
+    if line.strip() == "uk,uk,unstranded,no,Homo sapiens,75,Experiment_RID,Study_RID,Replicate_RID":
         data = True
 
     return data