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**Is your feature request related to a problem? Please describe.**
We at my company are all accustomed to using our cluster to collect stdout and stderr from submitted jobs. I think a small change i…
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**Is your feature request related to a problem? Please describe.**
The current documentation states that the --cluster-config is deprecated and it refers to the --profile section, which in turn refer…
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**Is your feature request related to a problem? Please describe.**
Hello. I am a developer of Bitextor (https://github.com/bitextor/bitextor), which is based on Snakemake, and we are having issues ru…
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Hey,
I first want to say that I really appreciate that you put these actions together - it makes things so much easier to have workflows continuously linted and tested. I was just wondering if you …
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**Describe the bug**
When a user manually kills (CTRL+C) a pipeline the process in panoptes stays forever as `running`
**Expected behavior**
There are two solutions
- The server periodically che…
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## Short description of the problem
I'm trying to include Eggnog mapper in an Anvio workflow, but it stops with a non descriptive error. No clue if it's an issue with my workflow of with my install…
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## Versions
`snakemake` version 8.10.7
`snakemake-executor-plugin-slurm` version 0.4.4
`snakemake-executor-plugin-slurm-jobstep` version 0.2.1
## The problem
I am working on getting `snakemake`…
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**Snakemake version**
6.15.5
**Describe the bug**
Subworkflows may overwrite the behavior of `shell.prefix`, causing (sub)workflows to fail. Ideally, each workflow could specify its own `shel…
goi42 updated
2 years ago
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Hi all the people involved in this project, thanks for sharing it.
I a have a small feature request, maybe it's easy to implement, but you'll tell me.
I would like `salmon` to accept two consecut…
matrs updated
5 years ago
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It would be nice if we could automate everything!
## Some things that our github actions could do
on every pull request, we should...
- [x] check that we follow [the conventional commits spec](…