optionally prefix singularity execution with mpirun/mpiexec #3082
tbugfinder
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Proposal:
Add an option to singularity configuration settings like
singularity.prefixcmd
which is empty by default and could be configured to e.g. a string containingmpirun
ormpiexec
.It might also be possible to use a bash alias singularity="mpirun singularity", though.
Ref:
https://github.com/nextflow-io/nextflow/blob/master/modules/nextflow/src/main/groovy/nextflow/container/SingularityBuilder.groovy
Discussed in #3064
Originally posted by tbugfinder July 25, 2022
Hello,
in some cases in might be beneficial to execute a singularity container within a mpirun command.
I couldn't find the option to do with with the current implementation.
Any hint would be appreciated.
Thanks & Best
Josef
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