metaspades container has something that doesn't play well with seqera's fusion FS
centrifuge and gtdb database unpacking modules also break for some reason on Aws
Former we need to try different container possibly, latter we apparently need to minimise the amount of file moving operations (or something along those lines... Both Jordi and Adam have looked into these at various points)
So deactivating all of the above for now
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!
[ ] If you've added a new tool - have you followed the pipeline conventions in the contribution docs
[ ] If necessary, also make a PR on the nf-core/mag branch on the nf-core/test-datasets repository.
[ ] Make sure your code lints (nf-core lint).
[ ] Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
[ ] Check for unexpected warnings in debug mode (nextflow run . -profile debug,test,docker --outdir <OUTDIR>).
[ ] Usage Documentation in docs/usage.md is updated.
[ ] Output Documentation in docs/output.md is updated.
[ ] CHANGELOG.md is updated.
[ ] README.md is updated (including new tool citations and authors/contributors).
Context:
Former we need to try different container possibly, latter we apparently need to minimise the amount of file moving operations (or something along those lines... Both Jordi and Adam have looked into these at various points)
So deactivating all of the above for now
PR checklist
nf-core lint
).nextflow run . -profile test,docker --outdir <OUTDIR>
).nextflow run . -profile debug,test,docker --outdir <OUTDIR>
).docs/usage.md
is updated.docs/output.md
is updated.CHANGELOG.md
is updated.README.md
is updated (including new tool citations and authors/contributors).