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amojarro / carrierseq

a sequence analysis workflow for low-input nanopore sequencing
MIT License
6 stars 1 forks source link

question about software sources #2

Closed 0xaf1f closed 7 years ago

0xaf1f commented 7 years ago

In your Dockerfile, I see you used apt-get to install most of the packages, but others could also have been had that way: biopython, bwa, and seqtk. fqtrim is the only one not in the repos. I'm asking because the Debian Med group does a lot of work to make these available, and a container is a pretty good use case for them.

amojarro commented 7 years ago

The Dockerfile has been updated.

0xaf1f commented 7 years ago

Thanks. I've seen lots of container definitions not using apt-get for the available bioinformatics software, so was wondering if there was a particular reason for that trend. I guess Debian Med needs to do more promotion.