Skip to content
Snippets Groups Projects
Commit 6f728d3f authored by Thamer Alsulaiman's avatar Thamer Alsulaiman
Browse files

all processes run on 128GB or higher machines

parent 212a45f8
Branches
Tags
2 merge requests!3Containerized version of chip-seq analysis,!2Added new Docker file for motif search (named meme-5.5.4) installed from...
Pipeline #14491 failed with stages
......@@ -25,6 +25,7 @@ process {
}
withName: trimReads {
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/chipseq:1.0.0'
queue = '256GB,256GBv1'
cpus = 32
}
withName: alignReads{
......@@ -34,15 +35,15 @@ process {
}
withName: filterReads{
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/chipseq:1.0.0'
queue = '128GB,256GB,256GBv1'
queue = '256GB,256GBv1'
}
withName: experimentQC {
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/chipseq:1.0.0'
queue = '128GB,256GB,256GBv1'
queue = '256GB,256GBv1'
}
withName: convertReads {
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/chipseq:1.0.0'
queue = '128GB,256GB,256GBv1'
queue = '256GB,256GBv1'
}
withName: crossReads {
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/chipseq:1.0.0'
......@@ -67,19 +68,21 @@ process {
}
withName: consensusPeaks {
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/chipseq:1.0.0'
executor = 'local'
queue = '128GB,256GB,256GBv1'
}
withName: peakAnnotation {
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/r:3.3.2'
executor = 'local'
queue = '128GB,256GB,256GBv1'
}
withName: diffPeaks {
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/r:3.3.2'
queue = '128GB,256GB,256GBv1'
cpus = 32
}
withName: motifSearch {
executor = 'local'
container = 'docker://git.biohpc.swmed.edu:5050/astrocyte/workflows/bicf/chipseq_analysis/motif-search:meme-5.5.4'
queue = '128GB,256GB,256GBv1'
//cpus = 32
}
withName: multiqcReport {
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment