adds verkko

[Kincekara]

Closes #820

Pull Request (PR) checklist:

• Include a description of what is in this pull request in this message.
• The dockerfile successfully builds to a test target for the user creating the PR. (i.e. docker build --tag samtools:1.15test --target test docker-builds/samtools/1.15 )
• Directory structure as name of the tool in lower case with special characters removed with a subdirectory of the version number (i.e. spades/3.12.0/Dockerfile)
  • (optional) All test files are located in same directory as the Dockerfile (i.e. shigatyper/2.0.1/test.sh)
• Create a simple container-specific README.md in the same directory as the Dockerfile (i.e. spades/3.12.0/README.md)
  • If this README is longer than 30 lines, there is an explanation as to why more detail was needed
• Dockerfile includes the recommended LABELS
• Main README.md has been updated to include the tool and/or version of the dockerfile(s) in this PR
• Program_Licenses.md contains the tool(s) used in this PR and has been updated for any missing

[erinyoung]

That's a lot of output for the test stage

#11 225.5 [output clipped, log limit 2MiB reached]

[erinyoung]

This prints a lot to the screen. I have a hunch that head asm/assembly.fasta might the culprit. Can we try something like wc -l asm/assembly.fasta?

#11 225.4     resources: tmpdir=/tmp
#11 225.4 
#11 225.4 Reading graph from stdin
#11 225.4 [Tue Feb 27 17:49:59 2024]
#11 225.4 Finished job 0.
#11 225.4 64 of 64 steps (100%) done
#11 225.4 Complete log: .snakemake/log/2024-02-27T174614.567918.snakemake.log
#11 225.5 node	coverage	length
#11 225.5 utig4-0	23.78	3421198
#11 225.5 utig4-1	7.67	4526
#11 225.5 utig4-2	8.00	4518
#11 225.5 >contig-0000001
#11 225.5 

[Kincekara]

I think contig sequences are written in one line, so head gives a lot of outbut. I limit output with 1000 bytes. That should work.

[erinyoung]

Thank you!

It's much easier to read now.

[erinyoung]

I think the image looks good, and I'd like to approve it. The test, however, is really hard to evaluate since there's a fasta that takes up the majority of the lines available. Do you think we can adjust it in someway?

[erinyoung]

Thank you for putting this together!

I'm going to

1. merge this PR
2. deploy to dockehub and quay with the 2.0 and latest tags.

[erinyoung]

Thank you for your contribution!

You can check the status of the deploy here : https://github.com/StaPH-B/docker-builds/actions/runs/8084711814