AGR 8.1.0 Release
What's Changed
- Fail on missing file so that indexer doesn't produce a empty index by @oblodgett in #1228
- Updated ubuntu by @oblodgett in #1229
- SCRUM-4869 populate associated gene to transcript object by @cmpich in #1230
- Updated code for better caching and reruning the indexer in place by @oblodgett in #1226
- Bumped curation version and data modeling changes by @VarunReddy1111 in #1233
- SCRUM-4785 & SCRUM-4786 Index interactions from curation system by @markquintontulloch in #1232
- SCRUM 4067 Adding GeneToGene Paralogy Indexer by @VarunReddy1111 in #1231
- SCRUM-4785 & SCRUM-4786 update - Override customizeObjectMapper by @markquintontulloch in #1236
- Removed unused mapper by @oblodgett in #1234
- SCRUM-4776: index Gene Expression Annotations by @abecerra in #1237
- Bump curation library version by @markquintontulloch in #1238
- SCRUM-4785 & SCRUM-4786 Add null check for interaction subject/object genes by @markquintontulloch in #1239
- Bump curation library version to v0.36.5 by @markquintontulloch in #1241
- Fix for interaction download with reference filter by @VarunReddy1111 in #1244
- Revert "Fix for interaction download with reference filter" by @VarunReddy1111 in #1245
- Make sure that species exists by @oblodgett in #1242
- Scrum 4067 by @VarunReddy1111 in #1240
- SCRUM-4077 SCRUM-4078 SCRUM-4795 SCRUM-4825 Use curation system data for interactions by @markquintontulloch in #1243
- SCRUM-3995 phenotype annotations on gene and allele page by @cmpich in #1235
- SCRUM-3995 add initializer of object by @cmpich in #1248
- Replacing releaseInfo section with ES as datasource by @VarunReddy1111 in #1246
- Scrum 4906 by @oblodgett in #1249
- Updated pom to fix libraries by @oblodgett in #1250
- SCRUM-3998 add genetic entity info for allele and gene phenotype anno… by @cmpich in #1251
- update curation library by @adamgibs in #1252
- Bump library to latest version by @oblodgett in #1253
- SCRUM-3999 filter by source column by @cmpich in #1254
- SCRUM-4077 / SCRUM-4078 / SCRUM-4795 / SCRUM-4825 Various interaction fixes by @markquintontulloch in #1255
- Added dynamic views to the indexer by @oblodgett in #1247
- SCRUM-3999 make gene-page phenotype table filterable by data provider by @cmpich in #1256
- Added log4j depends to the ES util module by @oblodgett in #1257
- Fixed all interfaces by @oblodgett in #1258
- Added missing depends for ES Util by @oblodgett in #1259
- Fix depends by @oblodgett in #1261
- SCRUM-4066 by @adamgibs in #1262
- Fix depends again? by @oblodgett in #1263
- Hopefully the final fix for this by @oblodgett in #1264
- Cleanup log output and remove warnings by @oblodgett in #1265
- Fixed depends for variant indexer by @oblodgett in #1266
- trun off ortho indexer by @adamgibs in #1267
- update how gene DA and EA booleans are indexed by @adamgibs in #1268
- SCRUM-4795 & SCRUM-4825 Add mappings for interaction index fields by @markquintontulloch in #1269
- SCRUM-4795, SCRUM-4825 - Use sort indexes by @markquintontulloch in #1270
- SCRUM-4941 add sorting attribute on phenotypeStatement field by @cmpich in #1271
- Updated field to be keywork so that it can be agged on by @oblodgett in #1272
- SCRUM-4932: add dataProviderCrossReference to FMS expression loads by @abecerra in #1275
- SCRUM-4950 Add alpha smart sorting by @markquintontulloch in #1277
- Revert field change by @oblodgett in #1278
- Added column for allele category field by @oblodgett in #1273
- update to 0.37.3 by @adamgibs in #1280
- SCRUM-4078 Include interactionSource and aggregationDatabase in filter by @markquintontulloch in #1279
- SCRUM-4078 Fix perturbation filters and sort filter options by @markquintontulloch in #1281
- Added and refactored code by @oblodgett in #1276
- jFix depends on log4j by @oblodgett in #1282
- Updated log4j version by @oblodgett in #1283
- Fixed NPE by @oblodgett in #1284
- Reimplement interaction views by @markquintontulloch in #1285
- Turn off debug because of extra logging by @oblodgett in #1286
- Added code to have a searchable boolean on all the documents by @oblodgett in #1287
- SCRUM-4009 Adding Disease Interface and Disease Summary Indexing by @VarunReddy1111 in #1288
- SCRUM-4977 Add padded base to variant sequence by @markquintontulloch in #1290
- SCRUM-4950 & SCRUM-4795 Interaction filter & sorting fixes by @markquintontulloch in #1289
- Fix searchable SCRUM-4816 by @oblodgett in #1291
- Fixed logging with indexer by @oblodgett in #1292
- G2g ortho doc speed up by @oblodgett in #1293
- Fix natural sorting by @markquintontulloch in #1294
- bumped curation version to 0.37.16 by @adamgibs in #1295
- SCRUM-4795 & SCRUM-4925 Fix interaction table source filters by @markquintontulloch in #1296
- SCRUM-4795 & SCRUM-4825 Actually fix natural sorting by @markquintontulloch in #1297
- SCRUM-5005 point source filter to the correct ES field by @cmpich in #1299
- Adjust pattern to deal with all combinations by @markquintontulloch in #1298
- Stop escaping characters in OR search by @markquintontulloch in #1300
- Fix OR search pt 2 - prevent string escaping in helper method too by @markquintontulloch in #1301
- SCRUM-5005 add looping over the last page by @cmpich in #1302
- SCRUM-5005 correct dataProvider name field by @cmpich in #1303
- Upgrade library by @cmpich in #1304
- SCRUM-5038 update gene/expression annotations to take post methods with by @adamgibs in #1305
- Linting and Import cleanup by @oblodgett in #1306
- SCRUM-5034 by @cmpich in #1308
- SCRUM-5040 add neo gene check for orthology index by @adamgibs in #1309
- SCRUM-5080 upgrade curation library to 0.37.24 by @cmpich in #1310
Full Changelog: 8.0.0...8.1.0