Commit e425a3d6 authored by Spencer Barnes's avatar Spencer Barnes
Browse files

remove -q option and add NXF_OPTS to nextflow invocations

parent 50a35e49
Pipeline #7241 failed with stages
in 173 minutes and 34 seconds
......@@ -27,7 +27,7 @@ GRCh38-0.0.1:
except:
- tags
script:
- nextflow -q run ./workflow/main.nf --designFile "./test_data/test_design_se.txt" --reads "./test_data/*fastq.gz"
- NXF_OPTS="-Dleveldb.mmap=false" nextflow run ./workflow/main.nf --designFile "./test_data/test_design_se.txt" --reads "./test_data/*fastq.gz"
- pytest -m pairedend
- pytest -m methData_se
- pytest -m trimData_se
......@@ -48,7 +48,7 @@ mm10-0.0.1:
except:
- tags
script:
- nextflow -q run ./workflow/main.nf --pairedEnd --designFile "./test_data/test_design_pe.txt" --reads "./test_data/*fastq.gz"
- NXF_OPTS="-Dleveldb.mmap=false" nextflow run ./workflow/main.nf --pairedEnd --designFile "./test_data/test_design_pe.txt" --reads "./test_data/*fastq.gz"
- pytest -m methData_pe
- pytest -m singleend
- pytest -m trimData_pe
......
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