|
| 1 | +# NameRes v1.5.1 Release |
| 2 | +- Babel: [2025sep1](https://stars.renci.org/var/babel_outputs/2025sep1/) |
| 3 | + ([Babel 2025sep1](https://github.com/TranslatorSRI/Babel/blob/master/releases/2025sep1.md)) |
| 4 | +- NameRes: [v1.5.1](https://github.com/TranslatorSRI/NameResolution/releases/tag/v1.5.1) |
| 5 | + |
| 6 | +Next release: _None as yet_ |
| 7 | +Previous release: [NameRes v1.4.7](./v1.4.7.md) |
| 8 | + |
| 9 | +## Bugfixes |
| 10 | +- [MAJOR] Entries with clique_identifier_count=1 were being filtered out of search results because we were boosting |
| 11 | + with the log of clique_identifier_count, and log(1) = 0. This has now been fixed by using the log of |
| 12 | + (clique_identifier_count + 1). ([PR #179](https://github.com/TranslatorSRI/NameResolution/pull/179)) |
| 13 | +- Fixed bug in NameRes Loading Docker image generation (d3f607af95e3fb254298d7f0a637a63ccb63fd6b). |
| 14 | + |
| 15 | +## New Features |
| 16 | +- [MAJOR] This NameRes has GeneProtein conflation turned on. If you need to know the protein and gene identifiers for |
| 17 | + a particular NameRes result, you can normalize the identifier with the corresponding NodeNorm instance with |
| 18 | + `individual_types` set to true ([example](https://nodenormalization-sri.renci.org/1.5/get_normalized_nodes?curie=NCBIGene%3A1756&conflate=true&drug_chemical_conflate=false&description=false&individual_types=true)). |
| 19 | +- Added Babel version and version URL to the `/status` endpoint ([PR #180](https://github.com/TranslatorSRI/NameResolution/pull/180)). |
| 20 | +- Added instructions and script for running NameRes locally ([PR #186](https://github.com/TranslatorSRI/NameResolution/pull/186)). |
| 21 | + |
| 22 | +## Improvements |
| 23 | +- [MAJOR] Update exact boosts ([PR #183](https://github.com/TranslatorSRI/NameResolution/pull/183)). |
| 24 | + - Exactish (case-insensitive exact) matches are now boosted by ~100x non-exactish matches. |
| 25 | + - Increased the basic boost by ~10x so that they override low clique_identifier_count matches. |
| 26 | +- Updated curl to use -T instead of -d to upload file in data-loading ([PR #183](https://github.com/TranslatorSRI/NameResolution/pull/197)). |
| 27 | +- Fix start-end quotes bug (i.e. "smart" quotes) ([PR #179](https://github.com/TranslatorSRI/NameResolution/pull/179)). |
| 28 | + |
| 29 | +## Babel updates (from [Babel 2025sep1](https://github.com/TranslatorSRI/Babel/blob/master/releases/2025sep1.md)) |
| 30 | +- [MAJOR] Information content values were incorrectly calculated as `100` for some cliques when they were in fact lower. |
| 31 | +- [MAJOR] UMLS proteins have now been removed from chemicals so that they only appear in proteins. |
| 32 | +- [MAJOR] Improved DrugChemical conflation order. |
| 33 | +- [MAJOR] Added secondary identifiers for ChEBI. |
| 34 | + |
| 35 | +## Releases since [NameRes v1.4.7](./v1.4.7.md) |
| 36 | +- [NameRes v1.4.8](https://github.com/TranslatorSRI/NameResolution/releases/tag/v1.4.8) |
| 37 | + - Added NameRes release information for November 2024 and January 2025 by @gaurav in #177 |
| 38 | +- [NameRes v1.4.9](https://github.com/TranslatorSRI/NameResolution/releases/tag/v1.4.9) |
| 39 | + - Incremented version number (forgot to do that in NameRes v1.4.8). |
| 40 | +- [NameRes v1.4.10](https://github.com/TranslatorSRI/NameResolution/releases/tag/v1.4.10) |
| 41 | + - Added Babel version and Babel version URL by @gaurav in #180 |
| 42 | +- [NameRes v1.4.11](https://github.com/TranslatorSRI/NameResolution/releases/tag/v1.4.11) |
| 43 | + - Add instructions and script for running NameRes locally by @gaurav in #186 |
| 44 | +- [NameRes v1.4.12](https://github.com/TranslatorSRI/NameResolution/releases/tag/v1.4.12) |
| 45 | + - Replace renci-python-image with GitHub Packages (d3f607a). |
| 46 | +- [NameRes v1.5.0](https://github.com/TranslatorSRI/NameResolution/releases/tag/v1.5.0) |
| 47 | + - [MAJOR] Entries with clique_identifier_count=1 were being filtered out of search results because we were boosting with the log of clique_identifier_count, and log(1) = 0. This has now been fixed by using the log of (clique_identifier_count + 1) in #179. |
| 48 | + - [MAJOR] Tweaked exact boosts by @gaurav in #183 |
| 49 | + - Updated curl to use -T instead of -d to upload file in data-loading by @gaurav in #197 |
| 50 | + - Fix start-end quotes bug and stopped filtering out clique_identifier_count=1 records by @gaurav in #179 |
| 51 | +- [NameRes v1.5.1](https://github.com/TranslatorSRI/NameResolution/releases/tag/v1.5.1) |
| 52 | + - Split GeneProteinConflated.txt instead of Gene.txt and Protein.txt by @gaurav in #203 |
0 commit comments