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isovic / graphmap

GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.html Note: This was the original repository which will no longer be officially maintained. Please use the new official repository here:
https://github.com/lbcb-sci/graphmap2
MIT License
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Added docker build files #89

Closed nmiculinic closed 3 years ago

nmiculinic commented 6 years ago

This PR Adds required files for docker building a small image containing only graphmap and basic ubuntu runtime (( since I wasn't able to build graphmap statically )).

It adds a description in the readme how to use it.

I recommend to the project owner building up-to-date graphmap docker image and publishing it to dockerhub.

After doing so, docker quickstart would be:

docker run --rm -it -v <data_dir>:/data -w /data -it --rm isovic/graphmap align -C -r reference.fa -d reads.fasta -o output.sam

without any need for any extra dependencies.