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Request a container with capabilities for running plot-bamstats (a tool included in samtools) #553

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gitanoqevaporelmundoentero opened this issue Jan 16, 2024 · 2 comments

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@gitanoqevaporelmundoentero

Current samtools docker images do not include working plot-bamstats (a samtools utility for generating plots from previously runs of samtools stats). It would be nice to have a docker image with capabilities for running plot-bamstats.

In order to be able to run plot-bamstats, installation of gnuplot is needed (which also requires perl installation).

@bgruening
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Can we instead create a plot-bamstats container instead? gnuplot is large on its own https://quay.io/repository/biocontainers/gnuplot .. I would like to avoid blowing up our tiny samtools container by 100MB

@mboudet
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mboudet commented Jan 22, 2024

Sorry, I seem to have missed this issue...
@bgruening Should this be done with a mulled containers, since both packages are in conda?

(I'm fine with having a dedicated container here if needed)

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3 participants