diff --git a/workflow/conf/biohpc.config b/workflow/conf/biohpc.config index fef1a3fb90b02e6b28591c2b8ab445931e46f520..7d54c2fcbbaad320d24fad383e7c124df5419bcc 100644 --- a/workflow/conf/biohpc.config +++ b/workflow/conf/biohpc.config @@ -4,59 +4,59 @@ process { clusterOptions = '--hold' // Process specific configuration - $checkDesignFile { + withName: checkDesignFile { module = ['python/3.6.1-2-anaconda'] executor = 'local' } - $trimReads { + withName: trimReads { module = ['python/3.6.1-2-anaconda', 'trimgalore/0.4.1'] cpus = 32 } - $alignReads{ + withName: alignReads{ module = ['python/3.6.1-2-anaconda', 'bwa/intel/0.7.12', 'samtools/1.6'] cpus = 32 } - $filterReads{ + withName: filterReads{ module = ['python/3.6.1-2-anaconda', 'samtools/1.6', 'sambamba/0.6.6', 'bedtools/2.26.0'] cpus = 32 } - $experimentQC { + withName: experimentQC { module = ['python/3.6.1-2-anaconda', 'deeptools/2.5.0.1'] cpus = 32 } - $convertReads { + withName: convertReads { module = ['python/3.6.1-2-anaconda', 'samtools/1.6', 'bedtools/2.26.0'] cpus = 32 } - $crossReads { + withName: crossReads { module = ['python/3.6.1-2-anaconda', 'phantompeakqualtools/1.2'] cpus = 32 } - $defineExpDesignFiles { + withName: defineExpDesignFiles { module = ['python/3.6.1-2-anaconda'] executor = 'local' } - $poolAndPsuedoReads { + withName: poolAndPsuedoReads { module = ['python/3.6.1-2-anaconda'] executor = 'local' } - $callPeaksMACS { + withName: callPeaksMACS { module = ['python/3.6.1-2-anaconda', 'macs/2.1.0-20151222', 'phantompeakqualtools/1.2', 'UCSC_userApps/v317', 'bedtools/2.26.0'] cpus = 32 } - $consensusPeaks { + withName: consensusPeaks { module = ['python/3.6.1-2-anaconda', 'bedtools/2.26.0'] executor = 'local' } - $peakAnnotation { + withName: peakAnnotation { module = ['R/3.4.1-gccmkl'] executor = 'local' } - $diffPeaks { + withName: diffPeaks { module = ['R/3.4.1-gccmkl'] cpus = 32 } - $motifSearch { + withName: motifSearch { module = ['python/2.7.x-anaconda', 'meme/4.11.1-gcc-openmpi', 'bedtools/2.26.0'] cpus = 32 }