adds pangolin with pdata v1.29

[kapsakcj]

Will mark ready for review shortly, setting as draft for now. Ready for review, I added a test for KP.3.3.2 & upgraded to pangolin-data v1.29. All else is the same as the last dockerfile

Pretty simple upgrade, only one code change in the Dockerfile so far. May add a test for a new lineage if I can find a test genome on NCBI

$ diff pangolin/4.3.1-pdata-1.28.1/Dockerfile pangolin/4.3.1-pdata-1.29/Dockerfile 
12c12
< ARG PANGOLIN_DATA_VER="v1.28.1"
---
> ARG PANGOLIN_DATA_VER="v1.29"
199a200,208
> 
> # new lineage KP.3.3.2 that was introduced in pango-designation v1.29: https://github.com/cov-lineages/pango-designation/commit/7125e606818312b78f0756d7fcab6dba92dd0a9e
> # genome on NCBI: https://www.ncbi.nlm.nih.gov/nuccore/PQ073669
> RUN datasets download virus genome accession PQ073669.1 --filename PQ073669.1.zip && \
> unzip PQ073669.1.zip && rm PQ073669.1.zip && \
> mv -v ncbi_dataset/data/genomic.fna PQ073669.1.genomic.fna && \
> rm -vr ncbi_dataset/ README.md && \
> pangolin PQ073669.1.genomic.fna -o PQ073669.1-usher && \
> column -t -s, PQ073669.1-usher/lineage_report.csv
\ No newline at end of file

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

[kapsakcj]

I propose to use the same syntax for docker image tag: staphb/pangolin:4.3.1-pdata-1.29 and overwrite the :latest tag

[Kincekara]

It looks like KP.3.3.2 can be detected successfully. Previous tests are cached, but I assume they are good. I will merge and deploy this...

[Kincekara]

Thank you for the update!
Deploy link: https://github.com/StaPH-B/docker-builds/actions/runs/10169350031

[kapsakcj]

thank you for the speedy review & deployment!