add hifiasm-meta 0.3.5

[Kincekara]

This is a fork of hifiasm for the metagenomic hifi reads.
The test fails on GitHub because of low RAM, but it works on my computer.

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/build-files/samtools/1.15 )
• Directory structure as name of the tool in lower case with special characters removed with a subdirectory of the version number in build-files (i.e. docker-builds/build-files/spades/3.12.0/Dockerfile)
  • (optional) All test files are located in same directory as the Dockerfile (i.e. build-files/shigatyper/2.0.1/test.sh)
• Create a simple container-specific README.md in the same directory as the Dockerfile (i.e. docker-builds/build-files/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

[Kincekara]

I have commented out the real data test. This is ready for review.

[erinyoung]

I don't see any changes to recommend. I should have time to build this locally sometime by the end of the week to ensure it passes.

[erinyoung]

I've started building it to test now.

[erinyoung]

These are the result files:

# ls -alh
total 463M
drwxr-xr-x 1 root root 4.0K Mar  9 16:15 .
drwxr-xr-x 1 root root 4.0K Mar  9 16:15 ..
-rw-r--r-- 1 root root 4.6M Mar  9 16:15 asm.a_ctg.gfa
-rw-r--r-- 1 root root  81K Mar  9 16:15 asm.a_ctg.noseq.gfa
-rw-r--r-- 1 root root    0 Mar  9 16:15 asm.bins.tsv
-rw-r--r-- 1 root root  185 Mar  9 16:15 asm.cmd
-rw-r--r-- 1 root root  82M Mar  9 16:15 asm.ec.bin
-rw-r--r-- 1 root root 764K Mar  9 16:15 asm.ec.mt.bin
-rw-r--r-- 1 root root  64K Mar  9 16:15 asm.log
-rw-r--r-- 1 root root 5.5M Mar  9 16:15 asm.ovecinfo.bin
-rw-r--r-- 1 root root  49M Mar  9 16:15 asm.ovlp.reverse.bin
-rw-r--r-- 1 root root  30M Mar  9 16:15 asm.ovlp.source.bin
-rw-r--r-- 1 root root  14M Mar  9 16:15 asm.p_ctg.gfa
-rw-r--r-- 1 root root 263K Mar  9 16:15 asm.p_ctg.noseq.gfa
-rw-r--r-- 1 root root  19M Mar  9 16:15 asm.p_utg.gfa
-rw-r--r-- 1 root root 349K Mar  9 16:15 asm.p_utg.noseq.gfa
-rw-r--r-- 1 root root  19M Mar  9 16:15 asm.r_utg.gfa
-rw-r--r-- 1 root root 346K Mar  9 16:15 asm.r_utg.noseq.gfa
-rw-r--r-- 1 root root    0 Mar  9 16:15 asm.rescue.all.fa
-rw-r--r-- 1 root root    0 Mar  9 16:15 asm.rescue.fa
-rw-r--r-- 1 root root 242M Mar  9 16:09 test.fq.gz

It looks like everything ran. I'll merge this, get it deployed, and set the quay repo to public.

[erinyoung]

Thank you for putting this together.

You can check on the status of the deployment here : https://github.com/StaPH-B/docker-builds/actions/runs/22863120173

[erinyoung]

And I've made the quay.io repo public: https://quay.io/repository/staphb/hifiasm-meta