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adamewing / bamsurgeon

tools for adding mutations to existing .bam files, used for testing mutation callers
MIT License
231 stars 86 forks source link

Publish docker image on Github Container Registry #209

Open holtgrewe opened 2 years ago

holtgrewe commented 2 years ago

Hi, what about publishing the bamsurgeon Docker image on GitHub Container Registry:

https://docs.github.com/en/packages/working-with-a-github-packages-registry/working-with-the-container-registry

kubranarci commented 2 weeks ago

hey, i realised quay.io/biocontainers/bamsurgeon registry here- https://bioconda.github.io/recipes/bamsurgeon/README.html

But when I run evaluator.py it couldn't import module vcf. Do you know if that docker image is proper and in use?

adamewing commented 2 weeks ago

Thanks for the container/bioconda recipe!

Regarding evaluator.py, it probably should be updated to use cyvcf2 and/or investigate using other vcf comparison tools.