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We should make a docker image specific to cellprofiler-nf. At the moment we are using the NemaScan docker file which is bloated with software not required for this workflow. See, nextflow.config for call to NemaScan docker:
process {
container = 'andersenlab/nemascan:20220407173056db3227' // still need to make cp docker img
withLabel: cellpro {
container = 'cellprofiler/cellprofiler:4.2.1'
memory = { 8.GB * task.attempt } // 8.GB working for all dauerProtocol3
time = { 30.min * task.attempt }
errorStrategy = { task.exitStatus in 137..140 ? 'retry' : 'terminate' }
maxRetries = 3
}
}
The text was updated successfully, but these errors were encountered:
We should make a docker image specific to cellprofiler-nf. At the moment we are using the NemaScan docker file which is bloated with software not required for this workflow. See,
nextflow.config
for call to NemaScan docker:The text was updated successfully, but these errors were encountered: