Commit ef80fc4e authored by Spencer Barnes's avatar Spencer Barnes
Browse files

fix python version and add singularity for multiqc

parent beb2a623
Pipeline #7500 failed with stages
in 844 minutes and 26 seconds
......@@ -34,6 +34,11 @@ process {
//queue = 'super'
}
withName: multiqcReport{
module = ['python/3.6.1-2-anaconda', 'pandoc/2.7', 'singularity/3.0.2']
queue = 'super'
}
}
//params {
......
......@@ -301,14 +301,14 @@ process multiqcReport {
"""
module load python/3.6.1-2-anaconda
module load pandoc/2.7
module load multiqc/1.7
module load singularity/3.0.2
echo $workflow.nextflow.version > version_nextflow.txt
python3 --version > version_python.txt
multiqc --version > version_multiqc.txt
python --version &> version_python.txt
singularity exec /project/shared/bicf_workflow_ref/singularity_images/bicf-multiqc-2.0.0.img multiqc --version > version_multiqc.txt
python3 $baseDir/scripts/generate_references.py -r $references -o software_references
python3 $baseDir/scripts/generate_versions.py -o software_versions
multiqc .
singularity exec /project/shared/bicf_workflow_ref/singularity_images/bicf-multiqc-2.0.0.img multiqc -c $multiqc .
"""
}
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