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**Snakemake version** : 7.8.5
Consider the following rule:
```
rule all:
output: touch(f"ran_model")
singularity: "/scratch/ag/singularity_images/cuda11.3.0-cudnn8-devel-ubuntu20.04…
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**Snakemake version**
Latest version
**Describe the bug**
The workflow deployed on Azure Kubernetes Services do not execute. The pod gets created but the status is shown as Error.
**Lo…
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### Description:
I'm encountering an issue when trying to run a Snakemake workflow that involves creating a Conda environment using Mamba. The workflow attempts to create a Conda environment from a…
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I keep getting an error message that says, "`Error: Snakefile "Snakefile" not found.`" My Snakefile is in `workflow/` and I have an `environment.yml` file in `workflow/envs/`. `workflow/` is in the ro…
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When a Jupyter notebook is created by snakemake using a rule similar to the one described in the docs (https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#jupyter-notebook-integration), t…
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I have deployed the latest version of this workflow (v2.1.2) and only adjusted the config files. I use the ENSEMBL GRCm38 mouse reference genome (release 102).
Unfortunately, the mapping step fails…
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Congrats on the recent 1.0 release! May I ask if there are any plans to release popvcf as a conda package, maybe via conda-forge or bioconda?
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I got this error running in reference mode and I'm not sure how to diagnose.
```
rule run_centrifuge:
input: 03_CONTIGS/G01-gene-calls.fa
output: 03_CONTIGS/G01-centrifuge_hits.tsv, 03_C…
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**Current behavior**
Apart from shell commands, Snakemake also permits [running python code directly via `run:`](https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#snakefiles-and-rule…
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**Describe the bug**
Hi,
When i tried to reuse code from previous workflows via module imports i realized that overwriting input and output sometimes leads to unexpected behavior where output of r…