cc @pranathivemuri and @phoenixAja -- this might help with getting SortMeRNA to run faster on the IBM machines. Currently the resource requirements are set to the lowest possible setting, and this increases to the mid_memory_long (32.GB memory, and 96h) mid_cpu (8 CPUs) settings.
If you're able to rebase your changes with this branch, then it shouldn't restart the pipeline from scratch because it only changes the resource requirements, not the pipeline script itself.
nf-core/kmermaid pull request
Many thanks for contributing to nf-core/kmermaid!
Please fill in the appropriate checklist below (delete whatever is not relevant).
These are the most common things requested on pull requests (PRs).
PR checklist
[ ] This comment contains a description of changes (with reason)
[ ] If you've fixed a bug or added code that should be tested, add tests!
cc @pranathivemuri and @phoenixAja -- this might help with getting SortMeRNA to run faster on the IBM machines. Currently the resource requirements are set to the lowest possible setting, and this increases to the
mid_memory_long(32.GB memory, and 96h)mid_cpu(8 CPUs) settings.This code was originally stolen from nf-core/rnaseq and there it gets the
process_highlabel for higher requirements: https://github.com/nf-core/rnaseq/blob/a3222ce3010caf25c92f0c981de501a57cd583f6/modules/nf-core/software/sortmerna/main.nf#L6If you're able to rebase your changes with this branch, then it shouldn't restart the pipeline from scratch because it only changes the resource requirements, not the pipeline script itself.
nf-core/kmermaid pull request
Many thanks for contributing to nf-core/kmermaid!
Please fill in the appropriate checklist below (delete whatever is not relevant). These are the most common things requested on pull requests (PRs).
PR checklist
nextflow run . -profile test,docker).nf-core lint .).docsis updatedCHANGELOG.mdis updatedREADME.mdis updatedLearn more about contributing: CONTRIBUTING.md