Commit 496e6480 authored by fduveau's avatar fduveau
Browse files

Update src/RNAseq.config

parent a834526a
profiles {
docker {
docker.temp = 'auto'
docker.enabled = true
process {
withName: adaptor_removal {
container = "lbmc/cutadapt:2.1"
cpus = 1
}
}
}
singularity {
singularity.enabled = true
singularity.cacheDir = "./bin/"
process {
withName: adaptor_removal {
container = "lbmc/cutadapt:2.1"
cpus = 1
}
}
}
psmn{
process{
withName: adaptor_removal {
beforeScript = "source $baseDir/.conda_psmn.sh"
conda = "$baseDir/.conda_envs/cutadapt_2.1"
executor = "sge"
clusterOptions = "-cwd -V"
cpus = 1
memory = "20GB"
time = "12h"
queue = 'monointeldeb128,monointeldeb48,h48-E5-2670deb128,h6-E5-2667v4deb128'
}
}
}
ccin2p3 {
singularity.enabled = true
singularity.cacheDir = "$baseDir/.singularity_in2p3/"
singularity.runOptions = "--bind /pbs,/sps,/scratch"
process{
withName: adaptor_removal {
container = "lbmc/cutadapt:2.1"
scratch = true
stageInMode = "copy"
stageOutMode = "rsync"
executor = "sge"
clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n"
cpus = 1
queue = 'huge'
}
}
}
}
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