Commit 42954333 authored by Jeremy Mathews's avatar Jeremy Mathews

install pip

parent f761cc15
Pipeline #4456 failed with stages
in 5 minutes and 2 seconds
before_script:
- module load astrocyte
- module load python/3.6.1-2-anaconda
- pip install --user pytest-pythonpath==0.7.1 pytest-cov==2.5.1
- module load nextflow/0.31.1_Ignite
- mkdir -p test_data/simple1
- mkdir -p test_data/simple2
......@@ -28,7 +29,7 @@ simple_1FC:
- tags
script:
- nextflow run workflow/main.nf --bcl "test_data/simple1/*.tar.gz" --designFile "test_data/simple1/cellranger-tiny-bcl-simple-1_2_0.csv"
# - pytest -m design
- pytest -m design
- pytest -m untarBCL
- pytest -m mkfastq
- pytest -m fastqc
......@@ -49,7 +50,7 @@ simple_2FC:
stage: simple
script:
- nextflow run workflow/main.nf --bcl "test_data/simple2/*.tar.gz" --designFile "test_data/simple2/cellranger-tiny-bcl-simple-1_2_0.csv"
# - pytest -m design
- pytest -m design
- pytest -m untarBCL
- pytest -m mkfastq
- pytest -m fastqc
......
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