1.4.1

Use new chopmicrobiome DockerHub account

What's Changed

• Add CLI and API usage documentation to README by @Ulthran in #66
• Add GET API routes for run/sample/annotation lookup by @Ulthran in #67

Full Changelog: 1.4.0...1.4.1

1.4.0

Add CLI API and keep standards as TSVs

What's Changed

• Move standard references to TSV-backed package data and remove DB models by @Ulthran in #62
• Add Flask API routes for registry CLI commands by @Ulthran in #65

Full Changelog: 1.3.1...1.4.0

1.3.1

Add archive stats page for viewing storage usage over time (and maybe more to come) (but being careful not to allow this page to perform too many file ops and become a nuisance).

What's Changed

• Add getter for runs by data URI substring by @Ulthran in #55
• Update pytest requirement from ~=8.4 to ~=9.0 by @dependabot[bot] in #56
• Bump actions/checkout from 5 to 6 by @dependabot[bot] in #58
• Update black requirement from ~=25.1 to ~=26.1 by @dependabot[bot] in #61
• Add archive stats page and improve run listings by @Ulthran in #60

Full Changelog: 1.3.0...1.3.1

1.3.0

Refactored to have everything live in a top level Python library! Exposing some getter methods from the SampleRegistry object for programmatic access.

What's Changed

• Add get_run method to SampleRegistry by @Ulthran in #49
• Refactor: integrate Flask app into top-level package by @Ulthran in #50
• Bump docker/build-push-action from 5 to 6 by @dependabot[bot] in #51
• Bump codecov/codecov-action from 4 to 5 by @dependabot[bot] in #53
• Bump actions/checkout from 4 to 5 by @dependabot[bot] in #52
• Bump actions/setup-python from 5 to 6 by @dependabot[bot] in #54

New Contributors

• @dependabot[bot] made their first contribution in #51

Full Changelog: 1.2.3...1.3.0

1.2.3

What's Changed

• Use imported machine type list by @Ulthran in #48

Full Changelog: 1.2.2...1.2.3

1.2.2

Full Changelog: 1.2.1...1.2.2

1.2.1

What's Changed

• Switch to seqBackup logic by @Ulthran in #46

Full Changelog: 1.2.0...1.2.1

1.2.0

Important bug fix for exporting large data sets

What's Changed

• Fix export bug by @Ulthran in #44

Full Changelog: 1.1.0...1.2.0

1.1.0

Adapt app configuration to work easily with any backend database.

What's Changed

• Require db be empty to create test db by @Ulthran in #41
• Switch to single spec for db URI by @Ulthran in #42

Full Changelog: 1.0.5...1.1.0

1.0.5

Add NextSeq as an option

What's Changed

• Update favicon by @Ulthran in #35
• Add NextSeq to registry machine types by @naomiwilson in #36

New Contributors

• @naomiwilson made their first contribution in #36

Full Changelog: 1.0.4...1.0.5