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lib: improve PGS builder, #TASK-5407, #TASK-5387 #530

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lib: improve PGS builder, #TASK-5407, #TASK-5387

lib: improve PGS builder, #TASK-5407, #TASK-5387 #530

Triggered via push October 1, 2024 07:52
@jtarragajtarraga
pushed 8c8a4ea
TASK-5387
Status Failure
Total duration 6m 42s
Artifacts 1

task.yml

on: push
build  /  Build Java app
1m 58s
build / Build Java app
test  /  Test and push Sonar analysis
4m 26s
test / Test and push Sonar analysis
deploy-docker  /  Push Docker image
deploy-docker / Push Docker image
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12 errors
MongoDBAdaptorFactoryTest.testGetDatabaseName: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/MongoDBAdaptorFactoryTest.java#L58
expected: <true> but was: <false>
VariantAnnotationCalculatorTest.testLicensedDataHgmdCosmicApiKeyAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L2069
org.opentest4j.AssertionFailedError: at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedDataHgmdCosmicApiKeyAnnotation(VariantAnnotationCalculatorTest.java:2069)
VariantAnnotationCalculatorTest.testLicensedDataHgmdSpliceAiApiKeyAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L2096
org.opentest4j.AssertionFailedError: at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedDataHgmdSpliceAiApiKeyAnnotation(VariantAnnotationCalculatorTest.java:2096)
VariantAnnotationCalculatorTest.testLicensedDataCosmicSpliceApiKeyAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L2123
org.opentest4j.AssertionFailedError: at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedDataCosmicSpliceApiKeyAnnotation(VariantAnnotationCalculatorTest.java:2123)
VariantAnnotationCalculatorTest.testLicensedDataSpliceApiKeyAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L2042
org.opentest4j.AssertionFailedError: at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedDataSpliceApiKeyAnnotation(VariantAnnotationCalculatorTest.java:2042)
VariantAnnotationCalculatorTest.testLicensedClinicalHGMDandCOSMICAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L1078
java.lang.NullPointerException at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedClinicalHGMDandCOSMICAnnotation(VariantAnnotationCalculatorTest.java:1078)
VariantAnnotationCalculatorTest.testNoLicensedClinicalAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L1099
java.lang.NullPointerException at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testNoLicensedClinicalAnnotation(VariantAnnotationCalculatorTest.java:1099)
VariantAnnotationCalculatorTest.testLicensedClinicalHGMDAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L1058
java.lang.NullPointerException at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedClinicalHGMDAnnotation(VariantAnnotationCalculatorTest.java:1058)
VariantAnnotationCalculatorTest.testLicensedDataCosmicApiKeyAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L2015
org.opentest4j.AssertionFailedError: at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedDataCosmicApiKeyAnnotation(VariantAnnotationCalculatorTest.java:2015)
VariantAnnotationCalculatorTest.testLicensedDataUnisersalApiKeyAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L1961
org.opentest4j.AssertionFailedError: at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedDataUnisersalApiKeyAnnotation(VariantAnnotationCalculatorTest.java:1961)
VariantAnnotationCalculatorTest.testLicensedDataHgmdApiKeyAnnotation: cellbase-lib/src/test/java/org/opencb/cellbase/lib/impl/core/VariantAnnotationCalculatorTest.java#L1988
org.opentest4j.AssertionFailedError: at org.opencb.cellbase.lib.impl.core.VariantAnnotationCalculatorTest.testLicensedDataHgmdApiKeyAnnotation(VariantAnnotationCalculatorTest.java:1988)
test / Test and push Sonar analysis
There were 11 failed tests

Artifacts

Produced during runtime
Name Size
build-folder
208 MB