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**Snakemake version**
8.4.11
**Describe the bug**
I'm running a snakemake workflow on a SLURM cluster (using `snakemake-executor-plugin-cluster-generic`), using cluster nodes with 48 core…
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I'm trying to write a profile to run [this workflow](https://github.com/legend-exp/legend-simflow) on [NERSC's supercomputer](https://docs.nersc.gov/jobs). Batch computing nodes have 128 CPU cores (x2…
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**Is your feature request related to a problem? Please describe.**
no problem per se, just a tool that *could* know all the variables needed for calculation
**Describe the solution you'd like**
…
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I was just noticing that the config instructions dont update automatically on the catalog website after making changes to the `config/README.md` file in [my repo](https://github.com/franciscozorrilla/…
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**Snakemake version**
7.7.0
**Describe the bug**
Running `snakemake --export-cwl example.cwl` prints `AttributeError: 'Job' object has no attribute 'conda_env_file'`
**Logs**
```
…
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### Command description
The Snakemake workflow management system is a tool to create reproducible and scalable data analyses. Workflows are described via a human readable, Python based language.
##…
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When a rule given in a ``ruleorder`` statement is missing, the exception (raised in https://github.com/snakemake/snakemake/blob/74db8e59f584c3ddbb7acb974e57865f4b819d04/snakemake/workflow.py#L553) cur…
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**Snakemake version**
8.16
**Describe the bug**
There are many cluster environments where you are not allowed to run snakemake from login nodes, and you have run snakemake in a SLURM …
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We currently use the packages specified in [requirements.txt](https://github.com/cheeseman-lab/OpticalPooledScreens/blob/main/requirements.txt) to create the virtual environment for running all OPS co…
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Aim to follow Best Practice recommendations
- [ ] Restructure repo layout as per https://snakemake.readthedocs.io/en/stable/snakefiles/deployment.html#distribution-and-reproducibility
- [ ] Utilis…