adding bowtie2 version 2.5.4

[erinyoung]

There's a new version of bowtie2!

Release notes: https://github.com/BenLangmead/bowtie2/releases/tag/v2.5.4

Notably, this reverts some changes from 2.5.0.

I updated bowtie2 to 2.5.4 and samtools to 1.20

$ diff bowtie2/2.5.3/Dockerfile bowtie2/2.5.4/Dockerfile 
3c3
< FROM staphb/samtools:1.19 as samtools
---
> FROM staphb/samtools:1.20 as samtools
7c7
< ARG BOWTIE2VER=2.5.3
---
> ARG BOWTIE2VER=2.5.4

Pull Request (PR) checklist:

• [X] Include a description of what is in this pull request in this message.
• [X] 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 )
• [X] 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)
  • [X] (optional) All test files are located in same directory as the Dockerfile (i.e. shigatyper/2.0.1/test.sh)
• [X] Create a simple container-specific README.md in the same directory as the Dockerfile (i.e. spades/3.12.0/README.md)
  • [X] If this README is longer than 30 lines, there is an explanation as to why more detail was needed
• [X] Dockerfile includes the recommended LABELS
• [X] Main README.md has been updated to include the tool and/or version of the dockerfile(s) in this PR
• [X] Program_Licenses.md contains the tool(s) used in this PR and has been updated for any missing

[Kincekara]

Thank you for the update! Deploy link: https://github.com/StaPH-B/docker-builds/actions/runs/9767071885