Class org.broadinstitute.hellbender.tools.funcotator.FuncotatorUtilsUnitTest
Tests
| Test |
Duration |
Result |
| testSetVariantClassificationCustomSeverityOnTheCloud[0](gs://hellbender/test/resources/org/broadinstitute/hellbender/tools/funcotator/custom_variant_context_order_test_file.tsv, {SILENT=5, MISSENSE=1, FIVE_PRIME_FLANK=15, START_CODON_SNP=3, THREE_PRIME_UTR=4, RNA=1048576, THREE_PRIME_FLANK=16, IGR=8, FIVE_PRIME_UTR=2, START_CODON_INS=3, LINCRNA=2097152, FRAME_SHIFT_INS=2, START_CODON_DEL=3, IN_FRAME_DEL=2048, FRAME_SHIFT_DEL=2, NONSTOP=0, DE_NOVO_START_IN_FRAME=1, IN_FRAME_INS=4096, DE_NOVO_START_OUT_FRAME=0, INTRON=1, SPLICE_SITE=1024, COULD_NOT_DETERMINE=0, NONSENSE=0}) |
0.332s |
passed |
Standard error
22:38:02.642 INFO FuncotatorUtils - Setting custom variant classification severities from: gs://hellbender/test/resources/org/broadinstitute/hellbender/tools/funcotator/custom_variant_context_order_test_file.tsv
22:38:02.971 INFO FuncotatorUtils - Setting new Variant Classification severity: COULD_NOT_DETERMINE = 0
22:38:02.971 INFO FuncotatorUtils - Setting new Variant Classification severity: INTRON = 1
22:38:02.971 INFO FuncotatorUtils - Setting new Variant Classification severity: FIVE_PRIME_UTR = 2
22:38:02.971 INFO FuncotatorUtils - Setting new Variant Classification severity: THREE_PRIME_UTR = 4
22:38:02.971 INFO FuncotatorUtils - Setting new Variant Classification severity: IGR = 8
22:38:02.971 INFO FuncotatorUtils - Setting new Variant Classification severity: SPLICE_SITE = 1024
22:38:02.971 INFO FuncotatorUtils - Setting new Variant Classification severity: IN_FRAME_DEL = 2048
22:38:02.971 INFO FuncotatorUtils - Setting new Variant Classification severity: IN_FRAME_INS = 4096
22:38:02.972 INFO FuncotatorUtils - Setting new Variant Classification severity: RNA = 1048576
22:38:02.972 INFO FuncotatorUtils - Setting new Variant Classification severity: LINCRNA = 2097152