optionally prefix singularity execution with mpirun/mpiexec #3082
tbugfinder
started this conversation in
Ideas
Replies: 0 comments
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Uh oh!
There was an error while loading. Please reload this page.
Uh oh!
There was an error while loading. Please reload this page.
-
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
Beta Was this translation helpful? Give feedback.
All reactions