TASK-7097 - Port Patch 3.3.0 -> 4.0.0 Xetabase 2.3.0 -> 3.0.0 #2519
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…StackTrace, #TASK-5902, #TASK-5318
Changes to be committed:
modified: opencga-storage/opencga-storage-core/src/main/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/cosmic/CosmicExtensionTaskCallback.java
…MIC annotator extension, #TASK-5902, #TASK-5318 On branch TASK-5318 Changes to be committed: modified: opencga-storage/opencga-storage-core/src/main/java/org/opencb/opencga/storage/core/variant/VariantStorageOptions.java modified: opencga-storage/opencga-storage-core/src/main/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/VariantAnnotatorExtensionsFactory.java modified: opencga-storage/opencga-storage-core/src/main/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/cosmic/CosmicVariantAnnotatorExtensionTask.java
…K-5318 On branch TASK-5318 Changes to be committed: modified: opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/CosmicVariantAnnotatorExtensionTaskTest.java
…SK-5902, #TASK-5318 On branch TASK-5318 Changes to be committed: modified: opencga-storage/opencga-storage-core/src/main/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/cosmic/CosmicVariantAnnotatorExtensionTask.java
…notator extension, #TASK-5902, #TASK-5318 On branch TASK-5318 Changes to be committed: modified: opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/VariantStorageBaseTest.java modified: opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/annotation/VariantAnnotationManagerTest.java modified: opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/CosmicVariantAnnotatorExtensionTaskTest.java new file: opencga-storage/opencga-storage-core/src/test/resources/variant-test-file-annotator-extension.vcf.gz
…e, version and assembly; and assembly match, #TASK-5902, #TASK-5318 On branch TASK-5318 Changes to be committed: modified: opencga-storage/opencga-storage-core/src/main/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/cosmic/CosmicVariantAnnotatorExtensionTask.java modified: opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/annotation/VariantAnnotationManagerTest.java modified: opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/CosmicVariantAnnotatorExtensionTaskTest.java
On branch TASK-5318 Changes to be committed: modified: opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/annotation/VariantAnnotationManagerTest.java
…K-5318 On branch TASK-5318 Changes to be committed: modified: opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/CosmicVariantAnnotatorExtensionTaskTest.java
On branch TASK-5318 Changes to be committed: modified: opencga-storage/opencga-storage-core/src/main/java/org/opencb/opencga/storage/core/variant/annotation/annotators/extensions/cosmic/CosmicVariantAnnotatorExtensionTask.java
TASK-6879 - Adapt GitHub Actions, CICD workflows and release scripts to new SDLC
TASK-6871 - The default passwordExpirationDate is set to 0 instead of 90 days
New release 3.2.1
TASK-5318 - Implement custom annotator to allow clients private files
TASK-4073 - avoid NPE when body of POST WS is null
TASK-6992 - Error with token in the CLI
TASK-6998 - Fix cohort-sample reference migration
TASK-6983 - NPE at DetectIllegalConcurrentFileLoadingsMigration
TASK-7038 - Port Patch 3.2.2 -> 3.3.0 - Xetabase 2.2.2 -> 2.3.0
pfurio
approved these changes
Oct 17, 2024
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TASK-7097 - Port Patch 3.3.0 -> 4.0.0 Xetabase 2.3.0 -> 3.0.0