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multiqc_single.config
Laurent Modolo authored
multiqc_single.config 2.23 KiB
profiles {
docker {
docker.temp = 'auto'
docker.enabled = true
process {
withName: fastqc_fastq {
container = "fastqc:0.11.5"
cpus = 1
}
withName: multiqc {
container = "multiqc:1.7"
cpus = 1
}
}
}
singularity {
singularity.enabled = true
process {
withName: fastqc_fastq {
container = "file://bin/fastqc:0.11.5.img"
cpus = 1
}
withName: multiqc {
container = "file://bin/multiqc:1.7.img"
cpus = 1
}
}
}
psmn {
process{
withName: fastqc_fastq {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "fastqc/0.11.5"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
queueSize = 1.70
pollInterval = '60sec'
queue = 'monointeldeb128,monointeldeb48,h48-E5-2670deb128,h6-E5-2667v4deb128'
}
withName: multiqc {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "multiqc/1.7"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
memory = "5GB"
time = "6h"
queueSize = 1.70
pollInterval = '60sec'
queue = 'monointeldeb128,monointeldeb48,h48-E5-2670deb128,h6-E5-2667v4deb128'
}
}
}
ccin2p3 {
process{
withName: fastqc_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
conda = "/sps/lbmc/common/miniconda3/envs/fastqc_0.11.5"
scratch = true
stageInMode = "copy"
stageOutMode = "rsync"
executor = "sge"
clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n \
-o ~/logs/ -e ~/logs/"
cpus = 1
queue = 'huge'
}
withName: multiqc {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
conda = "/sps/lbmc/common/miniconda3/envs/multiqc_1.7"
scratch = true
stageInMode = "copy"
stageOutMode = "rsync"
executor = "sge"
clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n \
-o ~/logs/ -e ~/logs/"
cpus = 1
queue = 'huge'
}
}
}
}