v2024.1.0

What's Changed

• Bugfix: Possible to Create Score Sets with No Targets by @bencap in #185
• Ensure Response for Experiment Deletion is NoneType by @bencap in #189
• Use Poetry for Dependency Management by @ashsny in #180
• Better ORCID authorization by @ashsny in #179
• Improvements to Admin User Features (and User Roles more generally) by @bencap in #184
• Fixed: Published Data Can Be Deleted by @bencap in #195
• Expand Target Label Allowed Characters by @bencap in #194
• Public data set export by @jstone-uw in #173
• Request User Emails for Certain Site Features by @bencap in #186
• Merge patch release into main release. Patch release will not be released separately. by @ashsny in #196
• Revert ENV-ifying of ORCID public key and app ID. by @ashsny in #199
• Release 2024.1.0 by @ashsny in #200
• Revert client id to pulling from ENV. by @jstone-uw in #204
• Ashsny/api logging by @ashsny in #201
• Add missing indices; fix score set deletion failure. by @ashsny in #178
• Only Sanitize Target Labels if they are a String by @bencap in #208

Full Changelog: v2024.0.0...v2024.1.0

v2024.0.0

What's Changed

• Add an apt-get clean step to the Dockerfile to slow Docker builder cache by @ashsny in #143
• Bugfix: Fix Invalid Sequence Type Error on Multi Target Sequence Based Uploads of Mixed Target Types by @bencap in #144
• Add more info to exception handler by @nickzoic in #137
• Nick/138 mock requests by @nickzoic in #148
• Nick/125 experiment & score set search error tests by @nickzoic in #136
• Rescue logger change from the depths of history (#84). by @ashsny in #150
• Update instructions for running docker container for development. by @ashsny in #152
• Score and count preview by @EstelleDa in #108
• Nick/126 code checks with mypy by @nickzoic in #156
• Aggregate Statistics for Score Sets, Experiments, and Targets by @bencap in #157
• CDOT as Exclusive Transcript Resolver by @bencap in #158
• Async Worker and Variant Creation Job by @bencap in #165
• Show A Users' Unpublished Score Sets on an Experiment Page by @bencap in #168
• Debug creating and editing score set without target sequence or accession problem by @EstelleDa in #166
• Taxonomy by @EstelleDa in #141

Full Changelog: v2023.5.0...v2024.0.0

Release v2023.5.0

• Run Github CI on Branch Pushes (#122, #130)
• Optimize SQL in Scoreset Searches (#121)
• Upgrades Various Packages for Python v3.11 Compatibility and/or to Resolve Vulnerabilities (#131)
• Adds CDOT as a Transcript Data Source to Expand Pool of Available Transcripts (#128)
• New Tests! (#135)

v2023.4.2

What's Changed

• Update README.md to add reference to MaveDB paper by @ashsny in #103
• Release 2023.4.2. by @ashsny in #115

Full Changelog: v2023.4.1...v2023.4.2

v2023.4.1

What's Changed

• Fix experiment URN generation logic to find max suffix among existing experiments. by @ashsny in #99
• Ensure accession/sequence Target Models Match DB by @bencap in #101
• Enforce unique URNs at schema level for URN-having entities. by @ashsny in #102

Full Changelog: v2023.4.0...v2023.4.1

v2023.4.0

Release notes

• Support for score sets with genomic reference coordinates
• Bug fix for searching by target organism

v2023.3.0

Release notes

• Support for preprints
• Ability to search experiments and score sets by publication identifier
• Replaced metapub library with utils. (Technical change)

v2023.2.1

Release notes

• New, more extensive router unit tests
• Child URN lists. Experiment responses now include a list of score set URNS, and meta-analysis score sets include meta-analyzed score set URNs.
• Fixed a bug in detecting meta-analyses during score set creation.
• Various score set fixes
• More uniform permission handling
• Revised logic for assigning meta-analyses to experiments
• Other minor changes

v2023.2.0

Release notes

• Mapped variants. A data model has been added that holds VRS representations of variants, and API endpoints have been added to return these for one variant or for all variants in a score set.

v2023.1.3

Release notes

• Meta-analysis score sets must now be created outside a user-created experiment. If there are existing meta-analyses for the same collection of underlying score sets, the new meta-analysis is added to their experiment; otherwise, a new experiment is created.