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genomic-medicine-sweden / gms-artic

A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics).
GNU Affero General Public License v3.0
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Add pycoQC docker to GMS-Artic and Dockerhub #82

Open talnor opened 10 months ago

talnor commented 10 months ago

What needs to be done: pycoQC docker is used for nanopore analysis. The docker image is not available from gms dockerhub and we are lacking a build recipe for it.

The nanopore workflow currently fails on pycoQC.

Suggestions on how to get it done: Add a dockerfile for pycoCQ and push to GMS dockerhub

What are the arguments for getting it done:

Task is considered finished when: We have a pycoQC docker image that we can collaborate on and bug fix.

JD2112 commented 10 months ago

pycoqc has conda build: conda install -c bioconda pycoqc will it do the job?