Comments (2)
fmaguire
commented on August 28, 2024
To install just the parsers in this repo you can now just run docker pull finlaymaguire/hamronization:latest and it will just install a minimal container with the python3.9 base image and hamronize as the entrypoint.
Let me know if you have any issues with the container.
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iaconogi
commented on August 28, 2024
Yes I already did a minimal container with pyhton and pip install hamronization and it works great so far.
Best
Giovanni
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Related Issues (20)
- help understanding resfinder run HOT 1
- ORF_ID missing once RGI report hAMRonized HOT 1
- RgiIO.py: Typo in line 79 HOT 1
- Fix issue of very similar runs falsely combining results in summary
- Genetic_variation_type HOT 1
- hamronize summarize - local variable 'parsed_report' reference before assignment HOT 3
- Flag overlapping ranges in hAMRonization
- AMR Variant detection - Parsers to be updated HOT 1
- Obtain specification field data information from JSON schema HOT 1
- Update README
- Add xlsx output HOT 1
- Add CONTRIBUTING.md
- Add fARGene
- PyPi not updated, 1.0.4 tarball reports version 1.0.3 HOT 2
- [BUG] `KeyError: 'reference_database_name'` when running summarize HOT 9
- [BUG] Generated output does not follow CSP rules HOT 1
- Request for Zenodo archive
- [BUG] - RGI bwt gene_mapping HOT 3
- Updating version support for starmar, amrfinderplus, kmerresistance - summarize output breaks HOT 4
- nucleotide specific fileds are empty while importing AmrFinderPlus results based on nucleotide sequences HOT 2
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