v5.28.0

What's Changed

• add password reset token expiration by @alexskr in #133

Full Changelog: v5.27.0...v5.28.0

ontologies_linked_data

• Refactor: notifications by @syphax-bouazzouni in ncbo/ontologies_linked_data#148
• use max_depth calculated by owlapi_wrapper for UMLS ontologies by @alexskr in ncbo/ontologies_linked_data#182
• follow up on refactor notification by @alexskr in ncbo/ontologies_linked_data#184
• add attribute for storing reset token expire time by @alexskr in ncbo/ontologies_linked_data#186

Full Changelog: ncbo/ontologies_linked_data@v5.27.0...v5.28.0

v5.27.0

What's Changed

• Feature: New API call to trigger ontology pull from remote location by @mdorf #127
• fix downloads of non-existing ontologies by @alexskr in #130
• Feature: enforce user creation security by @syphax-bouazzouni in #131
• Pin bundler and rubygem to the version compatible with ruby 2.7 in Dockerfile
• Annotator compatibility fix for AllegroGraph ncbo/ncbo_ontology_recommender#21

Full Changelog: v5.26.2...v5.27.0

v5.26.2

What's Changed

• Feature: Add the slices CRUD endpoints by @syphax-bouazzouni in #87

Full Changelog: v5.26.1...v5.26.2

owlapi_wrapper

• version update to 1.4.2

v5.26.1

What's Changed

• Fix: Security issue - Access control of a list submission by @syphax-bouazzouni in #126

Full Changelog: v5.26.0...v5.26.1

v5.26.0

What's Changed

• reduce request limit for resource intensive api calls by @alexskr in #121
• Announce deployments in NewRelic by @alexskr in #124
• Fix get a submission metrics by @syphax-bouazzouni in #78
• Remove redis activesupport by @alexskr in #120

Full Changelog: v5.25.0...v5.26.0

ontologies_linked_data

• Remove dependency on minitest wrapper for Test::Unit by @alexskr in ncbo/ontologies_linked_data#168
• Fix: bug in the get_rest_mapping method by @syphax-bouazzouni in ncbo/ontologies_linked_data#156
• Refactor: extract replace rest_url_prefix to id_url_prefix and and vice versa methods by @syphax-bouazzouni in ncbo/ontologies_linked_data#155
• Feature: enhance zipped submissions support by @syphax-bouazzouni in ncbo/ontologies_linked_data#144,
  ncbo/ontologies_linked_data#174 and ncbo/ontologies_linked_data#172

Full Changelog: ncbo/ontologies_linked_data@v5.25.0...v5.26.0

goo

• Refactor: Queries module code refactor by @syphax-bouazzouni in ncbo/goo#117
• Refactor: resources validators by @syphax-bouazzouni in ncbo/goo#138
• Feature: implement new validators by @syphax-bouazzouni in ncbo/goo#139

Full Changelog: ncbo/goo@v5.25.0...v5.26.0

ncbo_cron

https://github.com/ncbo/ncbo_cron/releases/tag/v5.26.0

v5.25.0

Full Changelog: v5.24.0...v5.25.0

v5.24.0

What's Changed

ontologies_api

• Add client-side caching for analytics endpoint by @alexskr in #96
• Fix: Documentation rendering by @syphax-bouazzouni in #107
• Fix: Deprecation notice of Rack::Attack.throttled_response
• docker images are published to https://hub.docker.com/?namespace=bioportal automatically on each new release

New Contributors

• @syphax-bouazzouni made their first contribution in #107

Full Changelog: v5.23.1...v5.24.0

ontologies_linked_data

• Fix: remove submission directory and files on submission delete by @syphax-bouazzouni in ncbo/ontologies_linked_data#136
• owlapi-wrapper version 1.4.1 includes refactoring and java based max depth calculation

Full Changelog: ncbo/ontologies_linked_data@v5.23.0...v5.24.0

ncbo_cron

https://github.com/ncbo/ncbo_cron/releases/tag/v5.24.0

New Contributors

• @syphax-bouazzouni made their first contribution in #107

Full Changelog: v5.23.1...v5.24.0

goo

• Add code coverage report uploads to codecove.io by @alexskr in ncbo/goo#126
• Feature: Add regex filter by @syphax-bouazzouni in ncbo/goo#116
• AllegroGraph compatibility updates

Full Changelog: ncbo/goo@v5.23.0...v5.24.0

5.23.1

Bump up version of rack-attack to v6.6.1 to address redis pipeline deprecation warning

Full Changelog: v5.23.0...v5.23.1

5.23.0

What's Changed

ontologies_api

• Added Docker-based unit testing / GitHub Actions (#79)
• Upgraded to Ruby 2.7
• Added a DIP (Docker Interaction Program) configuration file (2b229fa)
• Removed dependency on the obsolete NCBO Resource Index (#80)
• Removed deprecated crossdomain.xml (#82)

Full changelog: v5.22.3...v5.23.0

ontologies_linked_data

• Fixed an issue that caused exceptions when deleting ontologies with provisional classes (contributed by @syphax-bouazzouni in ncbo/ontologies_linked_data#128)
• Java heap size is now configurable instead of hardcoded (contributed by @syphax-bouazzouni in ncbo/ontologies_linked_data#130)
• Fixed an issue that caused failures in the nightly pull process for ontologies with pull URLs that resolve to GitHub releases (contributed by @syphax-bouazzouni in ncbo/ontologies_linked_data#134)
• Upgraded to Ruby 2.7
• Added a GitHub Action for running unit tests against AllegroGraph
• Added Codecov code coverage reporting (ncbo/ontologies_linked_data#150)
• Removed dependency on the obsolete NCBO Resource Index
• Upgraded addressable gem to 2.8 (ncbo/ontologies_linked_data#142)

Full changelog: ncbo/ontologies_linked_data@v5.22.3...v5.23.0

ncbo_annotator

• Added Docker-based unit testing
• Upgraded to Ruby 2.7
• Fixed "Pipelining commands on a Redis instance is deprecated..." warning output (ncbo/ncbo_annotator#24)
• Removed dependency on the obsolete NCBO Resource Index

Full changelog: ncbo/ncbo_annotator@v5.22.3...v5.23.0

ncbo_ontology_recommender

• Added Docker-based unit testing
• Upgraded to Ruby 2.7
• Removed dependency on the obsolete NCBO Resource Index

Full changelog: ncbo/ncbo_ontology_recommender@v5.22.3...v5.23.0

ncbo_cron

• Added Docker-based unit testing
• Implemented a temporary workaround for stalls during ontology processing caused by annotator dictionary file regeneration (ncbo/ncbo_cron@15a52ed)
• Fixed an issue with random failures while generating Google analytics (ncbo/ncbo_cron#54)
• Removed dependency on the obsolete NCBO Resource Index

Full changelog: ncbo/ncbo_cron@v5.22.3...v5.23.0

goo

• Added Docker-based unit testing
• Upgraded addressable gem to 2.8 (ncbo/goo#120)
• Fixed several failing unit tests
• Fixed several deprecation warnings
• Corrected test file names in Rakefile

Full changelog: ncbo/goo@v5.22.3...v5.23.0

5.22.3

Bundled a new version of the owlapi_wrapper to explicitly ban the TriX parser, which eases debugging of some RDF ontologies.

Full Changelog: v5.22.2...v5.22.3