Tim Booth comments

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                                            Tim Booth

Describe global and per-rule requirements

I'm addressing specifying resources in my add-on lesson, "Workflow Publishing", so I'm closing the issue here.

8.16.0: Cannot be installed because datrie no longer builds with GCC 14

FYI - if this bug is not closed by the start of the Snakemake Hackathon next month I will personally prod Johannes in the ribs with a fork until the...

[Proposal]: Sharing and publishing Snakemake workflows

Direct link to the GitHub repo - https://github.com/tbooth/snakemake-publishing (main branch)

[Proposal]: Sharing and publishing Snakemake workflows

Thanks for looking at this @tobyhodges. I think having a common maintainer team for both of these lessons makes sense, please.

error libmamba Non-conda folder exists at prefix error while running snakemake

Note that conda >24.7.1 uses the mamba solver by default, so the current recommendation is to stick with `--conda-frontend conda` and it should be just as fast/robust as mamba. So...

fix: Refactor of format_job_exec related to issue 2981, 3221

Hi @johanneskoester thanks for the comments and yes I'm happy to park this until June and then have a discussion on discord. Enjoy your vacation, assuming you get some actual...

Workflow should not fail on clock skew

A crude but effective workaround for this is to put a "sleep 1" in the jobscript, but I agree that the current Snakemake behaviour is very unhelpful. Clusters in the...

Knowing the source of every argument?

This isn't really do-able at the moment, but I have a suggestion of how this could be implemented if a new parser hook were to be added to the main...

Double dash positional argument separator breaks parsing

This is the same as bug #298. There is a fix waiting to be accepted.

Ability to support empty list with default parser?

I tested this and it seems to already work as expected: ```python def test_issue_287(self): """ Add this as a unit test to one of the test classes """ self.initParser() self.add_arg("--absent",...