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StaPH-B
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
There's a new version of datasets! There are some bug fixes according to https://github.com/ncbi/datasets/releases I just copied the files from 16.15.0 and updated the version ARG ``` $ diff ncbi-datasets/16.15.0/Dockerfile...
There's a new version of multiqc! According to the release notes, https://github.com/MultiQC/MultiQC/releases, this version is mostly minor bug fixes. All I did was copy the files from 1.22.2 and update...
There's a new version of metaphlan! According to the release notes, there are some new features https://github.com/biobakery/MetaPhlAn/releases/tag/4.1.1 There are new, updated databases, but these are not intended to be included...
There's a new version of ivar! It looks like this is mainly minor changes according to the release notes https://github.com/andersen-lab/ivar/releases/tag/v1.4.3 I, however, have made some major changes from the Dockerfile...
### What container needs an update? There are some new versions of Auspice, but I can't test the docker image. Someone other than me would need to create the new...
### What container needs an update? There are some new versions of Kaptive.
There's a new version of bowtie2! Release notes: https://github.com/BenLangmead/bowtie2/releases/tag/v2.5.4 Notably, this reverts some changes from 2.5.0. I updated bowtie2 to 2.5.4 and samtools to 1.20 ``` $ diff bowtie2/2.5.3/Dockerfile bowtie2/2.5.4/Dockerfile...
There's a new version of augur! Release notes: https://github.com/nextstrain/augur/releases/tag/24.4.0 All I did was copy the files from 24.3.0 and change the version ARG. The full diff ``` $ diff augur/24.{3,4}.0/Dockerfile...
There's a new version of freebayes! I will update this to a PR when a version with the pre-built binary becomes available. I ran into this error : ``` 3.519...
### What tool are you looking for and why? I'm going to be adding Viridian to Cecret, and it'd be awesome if there was a container in StaPH-B https://github.com/iqbal-lab-org/viridian