Version 4.2.7, fixes issue #180 PD-5549

AMRFinderPlus 4.2.7 fixes issue #180 which caused AMRFinderPlus to crash when an HMM hit to a protein is not detected by any blast alignments. This appears to be a rare situation at least in Pathogen Detection data. We saw one incident in ~200,000 annotated assemblies, but possibly it is more common in other datasets.

Also improvements in curl code and refactoring and improvements in GitHub action tests.

Co-authored-by: Vyacheslav Brover <vyacheslav.brover@nih.gov>
Co-authored-by: Vyacheslav Brover <vbrover@gmail.com>

Bug fix release 4.2.5

Addresses issue #174

Merge for release 4.2.4

The AMRFinderPlus 4.2.4 software release includes:
- New POINT_DISRUPT feature to identify lesions in genes that cause resistance when they are disrupted.
- Small in the point mutation nomenclature for nonsense mutations, frame shifts, and deletions.
- Refactored BLAST interpretation code and small changes that will slightly improve some alignments.
- StxTyper 1.0.45, See https://github.com/ncbi/stxtyper/releases/tag/v1.0.45 for the differences.
- AMRFinderPlus database update now respects CURL_CA_BUNDLE environment variable for CA file. #170

See https://github.com/ncbi/amr/wiki/New-in-AMRFinderPlus for more information.

Merge pull request #165 from ncbi/dev handle new PGAP output format

Merge branch dev for version 4.0.22

github action bug for linux artifact uploads

Changed the artifact name.

Merge pull request #160 from evolarjun/master

Citation and README updates

Merge pull request #154 from ncbi/stxtype

Release 4.0.3

Merge pull request #132 from kbipinkumar/patch-1

Makefile: add linker flags for binaries

Merge branch 'dev'