Since Conda is currently not supported for this pipeline and the param.enable_conda was removed, I am not sure how to check at beginning that the workflow is not run with conda. Since anyway the plan is to change the pipeline such that conda is also supported, I would just leave it like this for now.
The downloading part doesn't work currently (but corresponding CI tests are anyway not required), will be addressed outside of this PR.
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/metapep 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>).
[ ] 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).
Template update 2.7.2
params.enable_conda
from local modulesparams.igenomes_base
prettier
andblack
Since Conda is currently not supported for this pipeline and the
param.enable_conda
was removed, I am not sure how to check at beginning that the workflow is not run with conda. Since anyway the plan is to change the pipeline such that conda is also supported, I would just leave it like this for now.The downloading part doesn't work currently (but corresponding CI tests are anyway not required), will be addressed outside of this PR.
PR checklist
nf-core lint
).nextflow run . -profile 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).