David Laehnemann

Almost all of the suggested changes have been incorporated through the recent pull requests. For example: #61 The ones that weren't incorporated yet, I have added in PR #66 currently...

As this appears to have worked with `Ensembl` GTF files, [this commit introducing a standard Ensembl GTF download](https://github.com/snakemake-workflows/rna-seq-star-deseq2/commit/819d75b2ae0b99a8934c375ac4a27e6a8a2ecfc0) should have fixed this. If this reoccurs, please feel free to reopen.

I'm closing this after a long period of inactivity. But please feel free to open new issues whenever more problems arise.

I guess only the original poster or a maintainer can close this, so here I go. But in general, in such clear-cut cases, feel free to close such an issue...

A lot has changed in the workflow, also affecting the code changes suggested here. And we now test for both a workflow run with trimming and one without. So I...

Sorry, we somehow missed this issue. The part of the config that you posted looks OK. But as you mention that the docs are not that great: I have recently...

Closing as inactive (and out of date). If something similar comes up, please just open another issue and reference this one.

Is it intended that the script `touch.py` is not included in the changes?

Ah, and then `input.txt` should probably not be included, as it should be created by that rule, right?

Ah, I see. Thanks for the explanation. I just merged the latest main branch status into this branch, because this is required for merging anyways. So if you add further...