adds genoflu 1.06

[kapsakcj]

Closes #1193

• updated base image to a more recent micromamba base image
• genoflu version increased to 1.06-0 (bioconda tag)
• added mention of important dependencies to genoflu readme
• updated/fixed relative links in main /README.md

Here's the diff of the dockerfile and genoflu readme.

$ diff build-files/genoflu/1.05/ build-files/genoflu/1.06/
diff build-files/genoflu/1.05/Dockerfile build-files/genoflu/1.06/Dockerfile
1c1
< FROM mambaorg/micromamba:1.5.8 AS app
---
> FROM mambaorg/micromamba:2.0.5-ubuntu22.04 AS app
6c6
< ARG GENOFLU_VER="1.05-0"
---
> ARG GENOFLU_VER="1.06-0"
9c9
< LABEL base.image="micromamba:1.5.8"
---
> LABEL base.image="micromamba:2.0.5-ubuntu22.04"
32d31
< 
52c51
<   genoflu.py -f test-genome-A1.fasta 
\ No newline at end of file
---
>   genoflu.py -f test-genome-A1.fasta
diff build-files/genoflu/1.05/README.md build-files/genoflu/1.06/README.md
8a9,14
> - biopython 1.85
> - ncbi-blast 2.16.0
> - numpy 2.0.2
> - pandas 2.2.3
> - python 3.9.21
> 

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

[erinyoung]

The tests worked

#10 [test 2/2] RUN wget -q https://raw.githubusercontent.com/USDA-VS/GenoFLU/main/test/test-genome-A1.fasta &&   genoflu.py -f test-genome-A1.fasta
#10 1.034 
#10 1.034 genoflu.py set arguements:
#10 1.034 
#10 1.034 	FASTA:  test-genome-A1.fasta
#10 1.034 	FASTA_dir:  None
#10 1.034 	pident_threshold:  98.0
#10 1.034 	cross_reference:  None
#10 1.034 	sample_name:  None
#10 1.034 	debug:  False
#10 1.034 
#10 1.034 
#10 1.034 
#10 1.034 test-genome-A1 Genotype --> A1: PB2:ea1, PB1:ea1, PA:ea1, HA:ea1, NP:ea1, NA:ea1, MP:ea1, NS:ea1 at percent identity at 98.0
#10 1.034 
#10 DONE 1.1s

[erinyoung]

I have no changes to recommend. I'm going to merge and deploy this.

[erinyoung]

You can check the status of the deploy here : https://github.com/StaPH-B/docker-builds/actions/runs/13297342918

Thank you for putting this together!!!