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, {DE_NOVO_START_IN_FRAME=1, MISSENSE=1, NONSTOP=0, IN_FRAME_INS=4096, FRAME_SHIFT_DEL=2, THREE_PRIME_UTR=4, START_CODON_DEL=3, THREE_PRIME_FLANK=16, FIVE_PRIME_UTR=2, FRAME_SHIFT_INS=2, START_CODON_SNP=3, FIVE_PRIME_FLANK=15, NONSENSE=0, INTRON=1, IN_FRAME_DEL=2048, IGR=8, RNA=1048576, COULD_NOT_DETERMINE=0, DE_NOVO_START_OUT_FRAME=0, LINCRNA=2097152, SPLICE_SITE=1024, START_CODON_INS=3, SILENT=5}) |
0.282s |
passed |
Standard error
15:36:42.770 INFO FuncotatorUtils - Setting custom variant classification severities from: gs://hellbender/test/resources/org/broadinstitute/hellbender/tools/funcotator/custom_variant_context_order_test_file.tsv
15:36:43.049 INFO FuncotatorUtils - Setting new Variant Classification severity: COULD_NOT_DETERMINE = 0
15:36:43.049 INFO FuncotatorUtils - Setting new Variant Classification severity: INTRON = 1
15:36:43.049 INFO FuncotatorUtils - Setting new Variant Classification severity: FIVE_PRIME_UTR = 2
15:36:43.049 INFO FuncotatorUtils - Setting new Variant Classification severity: THREE_PRIME_UTR = 4
15:36:43.049 INFO FuncotatorUtils - Setting new Variant Classification severity: IGR = 8
15:36:43.049 INFO FuncotatorUtils - Setting new Variant Classification severity: SPLICE_SITE = 1024
15:36:43.050 INFO FuncotatorUtils - Setting new Variant Classification severity: IN_FRAME_DEL = 2048
15:36:43.050 INFO FuncotatorUtils - Setting new Variant Classification severity: IN_FRAME_INS = 4096
15:36:43.050 INFO FuncotatorUtils - Setting new Variant Classification severity: RNA = 1048576
15:36:43.050 INFO FuncotatorUtils - Setting new Variant Classification severity: LINCRNA = 2097152