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feat(ENGKNOW-3046): Enable multiple cram reference files. #478

feat(ENGKNOW-3046): Enable multiple cram reference files.

feat(ENGKNOW-3046): Enable multiple cram reference files. #478

Status Failure
Total duration 8m 26s
Artifacts 3

build.yml

on: push
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8 errors and 7 warnings
gorsat.UTestCram ► readCramFromBamLinkWithFastaReference: model/src/main/java/org/gorpipe/gor/driver/providers/stream/datatypes/cram/reference/FolderReferenceSource.java#L102
Failed test found in: gortools/build/test-results/test/TEST-gorsat.UTestCram.xml Error: org.gorpipe.exceptions.GorResourceException: Fasta file ../tests/data/external/samtools/cram_query_sorted.fasta is invalid cram reference as it is missing dict file
gorsat.UTestCram ► readCramWithFastaReferenceInRefFile: model/src/main/java/org/gorpipe/gor/driver/providers/stream/datatypes/cram/reference/FolderReferenceSource.java#L102
Failed test found in: gortools/build/test-results/test/TEST-gorsat.UTestCram.xml Error: org.gorpipe.exceptions.GorResourceException: Fasta file ../tests/data/external/samtools/cram_query_sorted.fasta is invalid cram reference as it is missing dict file
gorsat.UTestCram ► readCramWithFastaReferenceFromProperty: model/src/main/java/org/gorpipe/gor/driver/providers/stream/datatypes/cram/reference/FolderReferenceSource.java#L102
Failed test found in: gortools/build/test-results/test/TEST-gorsat.UTestCram.xml Error: org.gorpipe.exceptions.GorResourceException: Fasta file ../tests/data/external/samtools/cram_query_sorted.fasta is invalid cram reference as it is missing dict file
gorsat.UTestCram ► readCramWithFastaReferenceFromConfig: model/src/main/java/org/gorpipe/gor/driver/providers/stream/datatypes/cram/reference/FolderReferenceSource.java#L102
Failed test found in: gortools/build/test-results/test/TEST-gorsat.UTestCram.xml Error: org.gorpipe.exceptions.GorResourceException: Fasta file /home/runner/work/gor/gor/tests/data/external/samtools/cram_query_sorted.fasta is invalid cram reference as it is missing dict file
gorsat.UTestCram ► readCramWithFastaReference: model/src/main/java/org/gorpipe/gor/driver/providers/stream/datatypes/cram/reference/FolderReferenceSource.java#L102
Failed test found in: gortools/build/test-results/test/TEST-gorsat.UTestCram.xml Error: org.gorpipe.exceptions.GorResourceException: Fasta file ../tests/data/external/samtools/cram_query_sorted.fasta is invalid cram reference as it is missing dict file
gorsat.UTestCram ► readCramWithIncompatibleFastaReference: model/src/main/java/org/gorpipe/gor/driver/providers/stream/datatypes/cram/reference/FolderReferenceSource.java#L102
Failed test found in: gortools/build/test-results/test/TEST-gorsat.UTestCram.xml Error: java.lang.Exception: Unexpected exception, expected<org.gorpipe.exceptions.GorSystemException> but was<org.gorpipe.exceptions.GorResourceException>
test
Failed test were found and 'fail-on-error' option is set to true
test
Process completed with exit code 1.
test
Test report summary exceeded limit of 65535 bytes and will be trimmed
readCramFromBamLinkWithFastaReference (gorsat.UTestCram) failed: gorsat.UTestCram#L0
test-reports/gortools/build/test-results/test/TEST-gorsat.UTestCram.xml [took 0s]
readCramWithFastaReferenceInRefFile (gorsat.UTestCram) failed: gorsat.UTestCram#L0
test-reports/gortools/build/test-results/test/TEST-gorsat.UTestCram.xml [took 0s]
readCramWithFastaReferenceFromProperty (gorsat.UTestCram) failed: gorsat.UTestCram#L0
test-reports/gortools/build/test-results/test/TEST-gorsat.UTestCram.xml [took 0s]
readCramWithFastaReferenceFromConfig (gorsat.UTestCram) failed: gorsat.UTestCram#L0
test-reports/gortools/build/test-results/test/TEST-gorsat.UTestCram.xml [took 0s]
readCramWithFastaReference (gorsat.UTestCram) failed: gorsat.UTestCram#L0
test-reports/gortools/build/test-results/test/TEST-gorsat.UTestCram.xml [took 0s]
readCramWithIncompatibleFastaReference (gorsat.UTestCram) failed: gorsat.UTestCram#L0
test-reports/gortools/build/test-results/test/TEST-gorsat.UTestCram.xml [took 0s]

Artifacts

Produced during runtime
Name Size Digest
integrationTest-reports Expired
17 KB
sha256:1092b7e1da780fc5075ea20022f83cf9376c9603de02d4fb5eb5fab51778847b
slowTest-reports Expired
9.32 KB
sha256:d929114ff4508c8dd605db9b61174a060adbb032565809175cdaf20fad4be926
test-reports Expired
292 KB
sha256:45a80d64ac3696513bcb2e810be52607f367bbdd8cf5a6127020118bf0de2fc3