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LBMC / nextflow
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Laurent Modolo authoredLaurent Modolo authored
htseq.config 1.08 KiB
profiles {
docker {
docker.temp = 'auto'
docker.enabled = true
process {
withName: sort_bam {
container = "samtools:1.7"
cpus = 1
}
withName: counting {
container = "htseq:0.8.0"
cpus = 1
}
}
}
singularity {
singularity.enabled = true
process {
withName: sort_bam {
container = "file://bin/htseq:0.8.0.sif"
cpus = 1
}
}
}
psmn {
process{
withName: sort_bam {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "samtools/1.7"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
queue = 'monointeldeb128'
}
withName: trimming {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
module = "htseq/0.8.0"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
queue = 'monointeldeb128'
}
}
}
}