snakemake-wrappers
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snakemake
This is the development home of the Snakemake wrapper repository, see
**Snakemake version** Snakemake = 7.16.0 Snakemake-wrapper = v1.17.3 **Describe the bug** Using the example wrapper attribute for DADA2_QUALITY_PROFILES ("v1.17.3/bio/dada2/quality-profile") causes a 404 error when Conda tries to pull the wrapper...
Hello guys, I stumbled over an unexpected behaviour for the wrapper [BWA MEM](https://snakemake-wrappers.readthedocs.io/en/stable/wrappers/bwa/mem.html) - `v1.17.3/bio/bwa/mem`: **Snakemake version** 7.12.1 **Describe the bug** Including the command line argument `-O` with any INT...
**Is your feature request related to a problem? Please describe.** Knowing the open issue on GATK github: [Mutect2: drop in SNV specificity/precision between v.4.1.8.1 and 4.1.9.0)](https://github.com/broadinstitute/gatk/issues/7921) Knowing the final answer...
**Snakemake version** Note the Snakemake **and** snakemake-wrappers version for which you experience the bug. Always make sure to try out the latest version of both before creating a new bug...
### Description Add wrapper for `metaDMG`. ### QC * [x] I confirm that: For all wrappers added by this PR, * there is a test case which covers any introduced...
### Description After running into a few instances of the refgenie wrapper downloading individual assets concurrently, I was met with a lock-timeout error when attempting to pull two large assets...
Automatic bump of bio/gdc-client/download. ## Summary by CodeRabbit - **New Features** - Introduced a new `environment.linux-64.pin.txt` file for streamlined conda environment setup on Linux 64-bit systems, ensuring consistency in package...
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I'm working on the batch executor, and there are common snippets (that in retrospect were non-trivial to figure out) for setting up MPI and similar that (I think) would work...
The `autobump` workflow usually does not go all the way to the end, mainly because of "bad credentials" (e.g. autobump#63, autobump#62, autobump#59) but sometimes due to lack of disk space...
### Description Add wrapper for `ngsngs`. ### QC * [x] I confirm that: For all wrappers added by this PR, * there is a test case which covers any introduced...