v2.4.0

What's Changed

• Maintenance mode by @johrstrom in #83

Full Changelog: v2.3.5...v2.4.0

v2.3.5

What's Changed

• add figures for pipeline documentation by @johrstrom in #70
• change directory to a real working directory by @johrstrom in #79
• -D option needs to be a string by @johrstrom in #80
• add initer to log slurm commands by @johrstrom in #81

Full Changelog: v2.3.3...v2.3.5

Version 2.3.4

No change since 2.3.3

Version 2.3.3

What's Changed

• UI updates by @johrstrom in #67
• configure lograge to ignore ping by @johrstrom in #68

Full Changelog: v2.3.2...v2.3.3

version 2.3.2

What's Changed

• add a ping controller by @johrstrom in #64
• Fix filtering gbif data among other updates by @johrstrom in #65

Full Changelog: v2.3.1...v2.3.2

Version 2.3.1

Hopefully this just fixes automatically uploading to zenodo.

What's Changed

• fix zenodo release by @johrstrom in #62

Full Changelog: v2.3.0...v2.3.1

v2.3.0

Version 2.3.0

Summary

Lots of changes here, let's hit the high points

• upgrade rails versions to 2.7
• lot's of work on the pipeline to get it to be a bit more stable
• some work in containerizing the app to run in kubernetes.

What's Changed

• update pipeline dl scripts and their docs by @johrstrom in #22
• additions so that the pipeline has some flexibility by @johrstrom in #23
• use wget instead of rsync in downloading genbank data by @johrstrom in #24
• Genbank dl updates by @johrstrom in #26
• Link gbif by @johrstrom in #30
• add rubocop by @johrstrom in #32
• ensure relative file paths by @johrstrom in #33
• Update pipeline by @johrstrom in #34
• use sbatch files in submit script by @johrstrom in #35
• Update pipeline by @johrstrom in #36
• need gdbm gem and quotes on db strings by @johrstrom in #37
• updates for alignment and metric collection by @johrstrom in #38
• rm rspec bits from rubocop by @johrstrom in #39
• Update pipeline by @johrstrom in #41
• some alignment updates by @johrstrom in #42
• start metric collection by @johrstrom in #44
• save metrics for link_gbif_with_genbank by @johrstrom in #45
• add bold records and commits the metrics:save_record task by @johrstrom in #48
• upgrade to ruby 2.7 and bundler 2 by @johrstrom in #49
• update image by @johrstrom in #51
• adding bold records records metrics by @johrstrom in #52
• add ps to dockerfile by @johrstrom in #54
• Add mariadb client package by @treydock in #56
• Changes to support K8 DB by @treydock in #57
• rework alignments by @johrstrom in #55
• dont mkdir and fix gems for latest version by @johrstrom in #59
• add a zenodo release action by @johrstrom in #60
• job to use real db url by @johrstrom in #61

New Contributors

• @treydock made their first contribution in #56

Full Changelog: v2.2.3...v2.3.0

Version 2.2.3

Changelog

[2.2.3] - 10-18-2021

• Fixed mistype of phylogatr_id in 11.

Version 2.2.2

Changelog

[2.2.2] - 10-18-2021

Added

• Added phylogatr_id in occurrences.txt files in 9.

version 2.2.1

• Adds Gitlab CI to build images on tags
• 5 fixed an issue with downloading tar files that were actually zips.