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Commit 92ed4283 authored by Jeremy Mathews's avatar Jeremy Mathews
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Make Multiqc using singularity

parent ef9a113d
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1 merge request!58Resolve "xcor.py, --random-source fails if file is too small"
Pipeline #4699 failed with stages
in 8 hours, 57 minutes, and 20 seconds
......@@ -65,7 +65,7 @@ process {
cpus = 32
}
withName: multiqcReport {
module = ['python/3.6.1-2-anaconda', 'pandoc/2.7', 'multiqc/1.7']
module = ['python/3.6.1-2-anaconda', 'pandoc/2.7', 'singularity/3.0.2']
executor = 'local'
}
}
......
......@@ -653,14 +653,11 @@ process multiqcReport {
script:
"""
module load python/3.6.1-2-anaconda
module load pandoc/2.7
module load multiqc/1.7
echo $workflow.nextflow.version > version_nextflow.txt
multiqc --version > version_multiqc.txt
singularity exec /project/shared/bicf_workflow_ref/singularity_images/multiqc.sif multiqc --version > version_multiqc.txt
python --version &> version_python.txt
python3 $baseDir/scripts/generate_references.py -r $references -o software_references
python3 $baseDir/scripts/generate_versions.py -o software_versions
multiqc -c $multiqc .
singularity exec /project/shared/bicf_workflow_ref/singularity_images/multiqc.sif multiqc -c $multiqc .
"""
}
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