Curtis Kapsak
Curtis Kapsak
Docker image does not build yet, need to wait for pangolin-assignment to be an official release instead of pre-release. Setting as a draft PR for now Just prepping for when...
### What container needs an update? https://github.com/ncbi/amr/releases small bugfix included in this release. Dockerfile will likely be nearly identical to the next most recent version already in this repo Happy...
A bunch of extra tools/dependencies for this standalone script, but would be useful to have handy https://github.com/rrwick/Unicycler/blob/main/docs/unicycler-polish.md Could start with the existing dockerfile for 0.4.8 and add other dependencies. DEFINITELY...
### What tool are you looking for and why? latest version of ARIBA, available on ubuntu:jammy via `apt` https://packages.ubuntu.com/jammy/ariba Should be super simple with an ubuntu:jammy base
https://github.com/rrwick/Trycycler/releases/tag/v0.5.2 need to upgrade the muscle version, since this new release supports muscle v5. Might need to install manually instead of via `apt`
https://github.com/lskatz/fasten Never put a Rust tool in a container. Might be a little challenging, but definitely possible!
Started a dockerfile on a separate branch, medaka-dev. https://github.com/StaPH-B/docker-builds/commit/641a2aeb089f86d063974d73f599b10530a87102 Docker image builds ok locally. Haven't run any data through to verify functionality. Not ready to merge & build on dockerhub...
Need testing and potentially fixing before merging into master & building on dockerhub. These 3 images built successfully, but need to run data through. I'm testing the 1.4.3 version and...
`LABEL container.version` is super vague. It should be `LABEL dockerfile.version`. Intended for tracking multiple versions of a dockerfile for a single program (and it's single version). For example if I...
This: ```Dockerfile # set PATH and perl local settings ENV PATH="${PATH}:/mlst-2.19.0/bin:\ /ncbi-blast-2.9.0+/bin" \ LC_ALL=C ``` uses one layer to set env variables, where as the below examples adds an unnecessary...