Class org.broadinstitute.hellbender.tools.funcotator.mafOutput.MafOutputRendererUnitTest

all > org.broadinstitute.hellbender.tools.funcotator.mafOutput > MafOutputRendererUnitTest

120

tests

failures

ignored

17.580s

duration

100%

successful

Tests
Standard error

Tests

Test	Duration	Result
testAdjustIndelAlleleInformationForMafOutput[0]({}, {})	1.000s	passed
testAdjustIndelAlleleInformationForMafOutput[1]({Unreplaceable_Key=Unreplaceable_Value}, {Unreplaceable_Key=Unreplaceable_Value})	1.085s	passed
testAdjustIndelAlleleInformationForMafOutput[2]({Variant_Type=SNP}, {Variant_Type=SNP})	1.068s	passed
testAdjustIndelAlleleInformationForMafOutput[3]({Unreplaceable_Key1=Unreplaceable_Value1, Variant_Type=SNP}, {Unreplaceable_Key1=Unreplaceable_Value1, Variant_Type=SNP})	1.206s	passed
testAdjustIndelAlleleInformationForMafOutput[4]({Variant_Type=INS, Reference_Allele=A, Tumor_Seq_Allele1=A, Tumor_Seq_Allele2=AT, Start_Position=100, End_Position=100}, {Variant_Type=INS, Reference_Allele=-, Tumor_Seq_Allele1=-, Tumor_Seq_Allele2=T, Start_Position=100, End_Position=101})	0.893s	passed
testAdjustIndelAlleleInformationForMafOutput[5]({Variant_Type=DEL, Reference_Allele=AA, Tumor_Seq_Allele1=AA, Tumor_Seq_Allele2=A, Start_Position=100, End_Position=100}, {Variant_Type=DEL, Reference_Allele=A, Tumor_Seq_Allele1=A, Tumor_Seq_Allele2=-, Start_Position=101, End_Position=101})	1.123s	passed
testAdjustIndelAlleleInformationForMafOutput[6]({Variant_Type=INS, Reference_Allele=AAAAA, Tumor_Seq_Allele1=AAAAA, Tumor_Seq_Allele2=AAAAATTTTT, Start_Position=100, End_Position=104}, {Variant_Type=INS, Reference_Allele=-, Tumor_Seq_Allele1=-, Tumor_Seq_Allele2=TTTTT, Start_Position=100, End_Position=101})	0.942s	passed
testAdjustIndelAlleleInformationForMafOutput[7]({Variant_Type=DEL, Reference_Allele=ATTTTT, Tumor_Seq_Allele1=ATTTTT, Tumor_Seq_Allele2=A, Start_Position=100, End_Position=100}, {Variant_Type=DEL, Reference_Allele=TTTTT, Tumor_Seq_Allele1=TTTTT, Tumor_Seq_Allele2=-, Start_Position=101, End_Position=105})	0.887s	passed
testAdjustIndelAlleleInformationForMafOutput[8]({Variant_Type=DEL, Reference_Allele=CAGG, Tumor_Seq_Allele1=CAGG, Tumor_Seq_Allele2=C, Start_Position=2222103, End_Position=2222103}, {Variant_Type=DEL, Reference_Allele=AGG, Tumor_Seq_Allele1=AGG, Tumor_Seq_Allele2=-, Start_Position=2222104, End_Position=2222106})	0.872s	passed
testCreateMafCompliantOutputMapExclusion	1.007s	passed
testCreateMafCompliantOutputMapSanitized	0.862s	passed
testMafTransformInvert[0](, , hg19, )	0s	passed
testMafTransformInvert[10](Variant_Classification, Splice_Site, hg19, SPLICE_SITE)	0s	passed
testMafTransformInvert[11](Variant_Classification, Translation_Start_Site, hg19, START_CODON_DEL)	0s	passed
testMafTransformInvert[12](Variant_Classification, Nonstop_Mutation, hg19, NONSTOP)	0s	passed
testMafTransformInvert[13](Variant_Classification, 5'UTR, hg19, FIVE_PRIME_UTR)	0s	passed
testMafTransformInvert[14](Variant_Classification, 3'UTR, hg19, THREE_PRIME_UTR)	0s	passed
testMafTransformInvert[15](Variant_Classification, 5'Flank, hg19, FIVE_PRIME_FLANK)	0s	passed
testMafTransformInvert[16](Variant_Classification, Intron, hg19, INTRON)	0s	passed
testMafTransformInvert[17](Variant_Classification, RNA, hg19, LINCRNA)	0s	passed
testMafTransformInvert[18](Chromosome, MT, hg19, chrM)	0s	passed
testMafTransformInvert[19](Chromosome, 7, hg19, chr7)	0s	passed
testMafTransformInvert[1](SPECIAL_NO_REPLACEY_FIELD, GARBAGE, hg19, GARBAGE)	0s	passed
testMafTransformInvert[20](Chromosome, acteristic, Hg19, acteristic)	0s	passed
testMafTransformInvert[21](Chromosome, 7, b37, chr7)	0s	passed
testMafTransformInvert[22](Chromosome, chr7, hg38, chr7)	0s	passed
testMafTransformInvert[23](Chromosome, ChR7, hG38, ChR7)	0s	passed
testMafTransformInvert[24](Chromosome, chracteristic, Hg38, chracteristic)	0s	passed
testMafTransformInvert[25](Chromosome, chrZ, HG38, chrZ)	0s	passed
testMafTransformInvert[26](Chromosome, chrQ, Xenomorph A1, chrQ)	0s	passed
testMafTransformInvert[27](Other_Transcripts, In_Frame_Del, hg19, IN_FRAME_DEL)	0s	passed
testMafTransformInvert[28](Other_Transcripts, In_Frame_Del, hg19, IN_FRAME_DEL)	0s	passed
testMafTransformInvert[29](Other_Transcripts, In_Frame_Ins, hg19, IN_FRAME_INS)	0s	passed
testMafTransformInvert[2](Variant_Classification, chrM, hg19, chrM)	0s	passed
testMafTransformInvert[30](Other_Transcripts, Frame_Shift_Ins, hg19, FRAME_SHIFT_INS)	0s	passed
testMafTransformInvert[31](Other_Transcripts, Frame_Shift_Del, hg19, FRAME_SHIFT_DEL)	0.001s	passed
testMafTransformInvert[32](Other_Transcripts, Missense_Mutation, hg19, MISSENSE)	0s	passed
testMafTransformInvert[33](Other_Transcripts, Nonsense_Mutation, hg19, NONSENSE)	0s	passed
testMafTransformInvert[34](Other_Transcripts, Silent, hg19, SILENT)	0s	passed
testMafTransformInvert[35](Other_Transcripts, Splice_Site, hg19, SPLICE_SITE)	0s	passed
testMafTransformInvert[36](Other_Transcripts, Translation_Start_Site, hg19, START_CODON_DEL)	0s	passed
testMafTransformInvert[37](Other_Transcripts, Nonstop_Mutation, hg19, NONSTOP)	0s	passed
testMafTransformInvert[38](Other_Transcripts, 5'UTR, hg19, FIVE_PRIME_UTR)	0s	passed
testMafTransformInvert[39](Other_Transcripts, 3'UTR, hg19, THREE_PRIME_UTR)	0s	passed
testMafTransformInvert[3](Variant_Classification, In_Frame_Del, hg19, IN_FRAME_DEL)	0s	passed
testMafTransformInvert[40](Other_Transcripts, 5'Flank, hg19, FIVE_PRIME_FLANK)	0s	passed
testMafTransformInvert[41](Other_Transcripts, Intron, hg19, INTRON)	0s	passed
testMafTransformInvert[42](Other_Transcripts, RNA, hg19, LINCRNA)	0s	passed
testMafTransformInvert[43](Other_Transcripts, LINCRNA, hg19, LINCRNA)	0s	passed
testMafTransformInvert[44](Other_Transcripts, LINCRNA\|RNA, hg19, LINCRNA\|LINCRNA)	0s	passed
testMafTransformInvert[45](Other_Transcripts, DE_NOVO_START_IN_FRAME, hg19, DE_NOVO_START_IN_FRAME)	0s	passed
testMafTransformInvert[46](Other_Transcripts, DE_NOVO_START_OUT_FRAME, hg19, DE_NOVO_START_OUT_FRAME)	0s	passed
testMafTransformInvert[47](Other_Transcripts, START_CODON_SNP, hg19, START_CODON_SNP)	0s	passed
testMafTransformInvert[48](Other_Transcripts, START_CODON_INS, hg19, START_CODON_INS)	0s	passed
testMafTransformInvert[49](Other_Transcripts, MITD1_ENST00000466880.1_In_Frame_Del/MITD1_ENST00000466880.1_In_Frame_Del/MITD1_ENST00000466880.1_In_Frame_Ins/MITD1_ENST00000466880.1_Frame_Shift_Ins/MITD1_ENST00000466880.1_Frame_Shift_Del/MITD1_ENST00000466880.1_Missense_Mutation/MITD1_ENST00000466880.1_Nonsense_Mutation/MITD1_ENST00000466880.1_Silent/MITD1_ENST00000466880.1_Splice_Site/MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME/MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME/MITD1_ENST00000466880.1_START_CODON_SNP/MITD1_ENST00000466880.1_START_CODON_INS/MITD1_ENST00000466880.1_Translation_Start_Site/MITD1_ENST00000466880.1_Nonstop_Mutation/MITD1_ENST00000466880.1_5'UTR/MITD1_ENST00000466880.1_3'UTR/MITD1_ENST00000466880.1_5'Flank/MITD1_ENST00000466880.1_Intron/MITD1_ENST00000466880.1_RNA, hg19, MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_DEL/MITD1_ENST00000466880.1_MISSENSE/MITD1_ENST00000466880.1_NONSENSE/MITD1_ENST00000466880.1_SILENT/MITD1_ENST00000466880.1_SPLICE_SITE/MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME/MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME/MITD1_ENST00000466880.1_START_CODON_SNP/MITD1_ENST00000466880.1_START_CODON_INS/MITD1_ENST00000466880.1_START_CODON_DEL/MITD1_ENST00000466880.1_NONSTOP/MITD1_ENST00000466880.1_FIVE_PRIME_UTR/MITD1_ENST00000466880.1_THREE_PRIME_UTR/MITD1_ENST00000466880.1_FIVE_PRIME_FLANK/MITD1_ENST00000466880.1_INTRON/MITD1_ENST00000466880.1_LINCRNA)	0s	passed
testMafTransformInvert[4](Variant_Classification, In_Frame_Ins, hg19, IN_FRAME_INS)	0s	passed
testMafTransformInvert[5](Variant_Classification, Frame_Shift_Ins, hg19, FRAME_SHIFT_INS)	0s	passed
testMafTransformInvert[6](Variant_Classification, Frame_Shift_Del, hg19, FRAME_SHIFT_DEL)	0s	passed
testMafTransformInvert[7](Variant_Classification, Missense_Mutation, hg19, MISSENSE)	0s	passed
testMafTransformInvert[8](Variant_Classification, Nonsense_Mutation, hg19, NONSENSE)	0s	passed
testMafTransformInvert[9](Variant_Classification, Silent, hg19, SILENT)	0s	passed
testMafTransform[0](, , hg19, )	0s	passed
testMafTransform[10](Variant_Classification, SPLICE_SITE, hg19, Splice_Site)	0s	passed
testMafTransform[11](Variant_Classification, START_CODON_DEL, hg19, Translation_Start_Site)	0s	passed
testMafTransform[12](Variant_Classification, NONSTOP, hg19, Nonstop_Mutation)	0s	passed
testMafTransform[13](Variant_Classification, FIVE_PRIME_UTR, hg19, 5'UTR)	0s	passed
testMafTransform[14](Variant_Classification, THREE_PRIME_UTR, hg19, 3'UTR)	0s	passed
testMafTransform[15](Variant_Classification, FIVE_PRIME_FLANK, hg19, 5'Flank)	0s	passed
testMafTransform[16](Variant_Classification, INTRON, hg19, Intron)	0s	passed
testMafTransform[17](Variant_Classification, LINCRNA, hg19, RNA)	0s	passed
testMafTransform[18](Chromosome, chrM, hg19, MT)	0s	passed
testMafTransform[19](Chromosome, chr7, hg19, 7)	0s	passed
testMafTransform[1](SPECIAL_NO_REPLACEY_FIELD, GARBAGE, hg19, GARBAGE)	0s	passed
testMafTransform[20](Chromosome, ChR7, hG19, 7)	0s	passed
testMafTransform[21](Chromosome, chracteristic, Hg19, chracteristic)	0s	passed
testMafTransform[22](Chromosome, chrZ, HG19, chrZ)	0s	passed
testMafTransform[23](Chromosome, chr7, b37, 7)	0s	passed
testMafTransform[24](Chromosome, ChR7, B37, 7)	0s	passed
testMafTransform[25](Chromosome, chr7, hg38, chr7)	0s	passed
testMafTransform[26](Chromosome, ChR7, hG38, ChR7)	0s	passed
testMafTransform[27](Chromosome, chracteristic, Hg38, chracteristic)	0s	passed
testMafTransform[28](Chromosome, chrZ, HG38, chrZ)	0s	passed
testMafTransform[29](Chromosome, chrQ, Xenomorph A1, chrQ)	0s	passed
testMafTransform[2](Variant_Classification, chrM, hg19, chrM)	0s	passed
testMafTransform[30](Other_Transcripts, IN_FRAME_DEL, hg19, In_Frame_Del)	0s	passed
testMafTransform[31](Other_Transcripts, IN_FRAME_DEL, hg19, In_Frame_Del)	0s	passed
testMafTransform[32](Other_Transcripts, IN_FRAME_INS, hg19, In_Frame_Ins)	0s	passed
testMafTransform[33](Other_Transcripts, FRAME_SHIFT_INS, hg19, Frame_Shift_Ins)	0s	passed
testMafTransform[34](Other_Transcripts, FRAME_SHIFT_DEL, hg19, Frame_Shift_Del)	0s	passed
testMafTransform[35](Other_Transcripts, MISSENSE, hg19, Missense_Mutation)	0s	passed
testMafTransform[36](Other_Transcripts, NONSENSE, hg19, Nonsense_Mutation)	0s	passed
testMafTransform[37](Other_Transcripts, SILENT, hg19, Silent)	0s	passed
testMafTransform[38](Other_Transcripts, SPLICE_SITE, hg19, Splice_Site)	0s	passed
testMafTransform[39](Other_Transcripts, START_CODON_DEL, hg19, Translation_Start_Site)	0s	passed
testMafTransform[3](Variant_Classification, IN_FRAME_DEL, hg19, In_Frame_Del)	0.001s	passed
testMafTransform[40](Other_Transcripts, NONSTOP, hg19, Nonstop_Mutation)	0s	passed
testMafTransform[41](Other_Transcripts, FIVE_PRIME_UTR, hg19, 5'UTR)	0s	passed
testMafTransform[42](Other_Transcripts, THREE_PRIME_UTR, hg19, 3'UTR)	0s	passed
testMafTransform[43](Other_Transcripts, FIVE_PRIME_FLANK, hg19, 5'Flank)	0s	passed
testMafTransform[44](Other_Transcripts, INTRON, hg19, Intron)	0.001s	passed
testMafTransform[45](Other_Transcripts, LINCRNA, hg19, RNA)	0s	passed
testMafTransform[46](Other_Transcripts, DE_NOVO_START_IN_FRAME, hg19, DE_NOVO_START_IN_FRAME)	0s	passed
testMafTransform[47](Other_Transcripts, DE_NOVO_START_OUT_FRAME, hg19, DE_NOVO_START_OUT_FRAME)	0s	passed
testMafTransform[48](Other_Transcripts, START_CODON_SNP, hg19, START_CODON_SNP)	0s	passed
testMafTransform[49](Other_Transcripts, START_CODON_INS, hg19, START_CODON_INS)	0s	passed
testMafTransform[4](Variant_Classification, IN_FRAME_INS, hg19, In_Frame_Ins)	0s	passed
testMafTransform[50](Other_Transcripts, MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_DEL/MITD1_ENST00000466880.1_MISSENSE/MITD1_ENST00000466880.1_NONSENSE/MITD1_ENST00000466880.1_SILENT/MITD1_ENST00000466880.1_SPLICE_SITE/MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME/MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME/MITD1_ENST00000466880.1_START_CODON_SNP/MITD1_ENST00000466880.1_START_CODON_INS/MITD1_ENST00000466880.1_START_CODON_DEL/MITD1_ENST00000466880.1_NONSTOP/MITD1_ENST00000466880.1_FIVE_PRIME_UTR/MITD1_ENST00000466880.1_THREE_PRIME_UTR/MITD1_ENST00000466880.1_FIVE_PRIME_FLANK/MITD1_ENST00000466880.1_INTRON/MITD1_ENST00000466880.1_LINCRNA, hg19, MITD1_ENST00000466880.1_In_Frame_Del/MITD1_ENST00000466880.1_In_Frame_Del/MITD1_ENST00000466880.1_In_Frame_Ins/MITD1_ENST00000466880.1_Frame_Shift_Ins/MITD1_ENST00000466880.1_Frame_Shift_Del/MITD1_ENST00000466880.1_Missense_Mutation/MITD1_ENST00000466880.1_Nonsense_Mutation/MITD1_ENST00000466880.1_Silent/MITD1_ENST00000466880.1_Splice_Site/MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME/MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME/MITD1_ENST00000466880.1_START_CODON_SNP/MITD1_ENST00000466880.1_START_CODON_INS/MITD1_ENST00000466880.1_Translation_Start_Site/MITD1_ENST00000466880.1_Nonstop_Mutation/MITD1_ENST00000466880.1_5'UTR/MITD1_ENST00000466880.1_3'UTR/MITD1_ENST00000466880.1_5'Flank/MITD1_ENST00000466880.1_Intron/MITD1_ENST00000466880.1_RNA)	0s	passed
testMafTransform[5](Variant_Classification, FRAME_SHIFT_INS, hg19, Frame_Shift_Ins)	0s	passed
testMafTransform[6](Variant_Classification, FRAME_SHIFT_DEL, hg19, Frame_Shift_Del)	0s	passed
testMafTransform[7](Variant_Classification, MISSENSE, hg19, Missense_Mutation)	0s	passed
testMafTransform[8](Variant_Classification, NONSENSE, hg19, Nonsense_Mutation)	0s	passed
testMafTransform[9](Variant_Classification, SILENT, hg19, Silent)	0s	passed
testReplaceFuncotationValuesWithMafCompliantValues[0]({}, {})	0.823s	passed
testReplaceFuncotationValuesWithMafCompliantValues[1]({Unreplaceable_Key=Unreplaceable_Value}, {Unreplaceable_Key=Unreplaceable_Value})	0.812s	passed
testReplaceFuncotationValuesWithMafCompliantValues[2]({Unreplaceable_Key1=Unreplaceable_Value1, Unreplaceable_Key2=Unreplaceable_Value2}, {Unreplaceable_Key1=Unreplaceable_Value1, Unreplaceable_Key2=Unreplaceable_Value2})	0.836s	passed
testReplaceFuncotationValuesWithMafCompliantValues[3]({Other_Transcripts=MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_DEL/MITD1_ENST00000466880.1_MISSENSE/MITD1_ENST00000466880.1_NONSENSE/MITD1_ENST00000466880.1_SILENT/MITD1_ENST00000466880.1_SPLICE_SITE/MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME/MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME/MITD1_ENST00000466880.1_START_CODON_SNP/MITD1_ENST00000466880.1_START_CODON_INS/MITD1_ENST00000466880.1_START_CODON_DEL/MITD1_ENST00000466880.1_NONSTOP/MITD1_ENST00000466880.1_FIVE_PRIME_UTR/MITD1_ENST00000466880.1_THREE_PRIME_UTR/MITD1_ENST00000466880.1_FIVE_PRIME_FLANK/MITD1_ENST00000466880.1_INTRON/MITD1_ENST00000466880.1_LINCRNA}, {Other_Transcripts=MITD1_ENST00000466880.1_In_Frame_Del\|MITD1_ENST00000466880.1_In_Frame_Del\|MITD1_ENST00000466880.1_In_Frame_Ins\|MITD1_ENST00000466880.1_Frame_Shift_Ins\|MITD1_ENST00000466880.1_Frame_Shift_Del\|MITD1_ENST00000466880.1_Missense_Mutation\|MITD1_ENST00000466880.1_Nonsense_Mutation\|MITD1_ENST00000466880.1_Silent\|MITD1_ENST00000466880.1_Splice_Site\|MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME\|MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME\|MITD1_ENST00000466880.1_START_CODON_SNP\|MITD1_ENST00000466880.1_START_CODON_INS\|MITD1_ENST00000466880.1_Translation_Start_Site\|MITD1_ENST00000466880.1_Nonstop_Mutation\|MITD1_ENST00000466880.1_5'UTR\|MITD1_ENST00000466880.1_3'UTR\|MITD1_ENST00000466880.1_5'Flank\|MITD1_ENST00000466880.1_Intron\|MITD1_ENST00000466880.1_RNA})	0.832s	passed
testReplaceFuncotationValuesWithMafCompliantValues[4]({Other_Transcripts=MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_DEL/MITD1_ENST00000466880.1_MISSENSE/MITD1_ENST00000466880.1_NONSENSE/MITD1_ENST00000466880.1_SILENT/MITD1_ENST00000466880.1_SPLICE_SITE/MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME/MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME/MITD1_ENST00000466880.1_START_CODON_SNP/MITD1_ENST00000466880.1_START_CODON_INS/MITD1_ENST00000466880.1_START_CODON_DEL/MITD1_ENST00000466880.1_NONSTOP/MITD1_ENST00000466880.1_FIVE_PRIME_UTR/MITD1_ENST00000466880.1_THREE_PRIME_UTR/MITD1_ENST00000466880.1_FIVE_PRIME_FLANK/MITD1_ENST00000466880.1_INTRON/MITD1_ENST00000466880.1_LINCRNA, Unreplaceable_Key1=Unreplaceable_Value1}, {Unreplaceable_Key1=Unreplaceable_Value1, Other_Transcripts=MITD1_ENST00000466880.1_In_Frame_Del\|MITD1_ENST00000466880.1_In_Frame_Del\|MITD1_ENST00000466880.1_In_Frame_Ins\|MITD1_ENST00000466880.1_Frame_Shift_Ins\|MITD1_ENST00000466880.1_Frame_Shift_Del\|MITD1_ENST00000466880.1_Missense_Mutation\|MITD1_ENST00000466880.1_Nonsense_Mutation\|MITD1_ENST00000466880.1_Silent\|MITD1_ENST00000466880.1_Splice_Site\|MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME\|MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME\|MITD1_ENST00000466880.1_START_CODON_SNP\|MITD1_ENST00000466880.1_START_CODON_INS\|MITD1_ENST00000466880.1_Translation_Start_Site\|MITD1_ENST00000466880.1_Nonstop_Mutation\|MITD1_ENST00000466880.1_5'UTR\|MITD1_ENST00000466880.1_3'UTR\|MITD1_ENST00000466880.1_5'Flank\|MITD1_ENST00000466880.1_Intron\|MITD1_ENST00000466880.1_RNA})	0.831s	passed
testReplaceFuncotationValuesWithMafCompliantValues[5]({Other_Transcripts=MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_DEL/MITD1_ENST00000466880.1_IN_FRAME_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_INS/MITD1_ENST00000466880.1_FRAME_SHIFT_DEL/MITD1_ENST00000466880.1_MISSENSE/MITD1_ENST00000466880.1_NONSENSE/MITD1_ENST00000466880.1_SILENT/MITD1_ENST00000466880.1_SPLICE_SITE/MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME/MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME/MITD1_ENST00000466880.1_START_CODON_SNP/MITD1_ENST00000466880.1_START_CODON_INS/MITD1_ENST00000466880.1_START_CODON_DEL/MITD1_ENST00000466880.1_NONSTOP/MITD1_ENST00000466880.1_FIVE_PRIME_UTR/MITD1_ENST00000466880.1_THREE_PRIME_UTR/MITD1_ENST00000466880.1_FIVE_PRIME_FLANK/MITD1_ENST00000466880.1_INTRON/MITD1_ENST00000466880.1_LINCRNA, End_Position=100, Reference_Allele=A, Variant_Type=INS, Tumor_Seq_Allele2=AT, Tumor_Seq_Allele1=A, Start_Position=100}, {Other_Transcripts=MITD1_ENST00000466880.1_In_Frame_Del\|MITD1_ENST00000466880.1_In_Frame_Del\|MITD1_ENST00000466880.1_In_Frame_Ins\|MITD1_ENST00000466880.1_Frame_Shift_Ins\|MITD1_ENST00000466880.1_Frame_Shift_Del\|MITD1_ENST00000466880.1_Missense_Mutation\|MITD1_ENST00000466880.1_Nonsense_Mutation\|MITD1_ENST00000466880.1_Silent\|MITD1_ENST00000466880.1_Splice_Site\|MITD1_ENST00000466880.1_DE_NOVO_START_IN_FRAME\|MITD1_ENST00000466880.1_DE_NOVO_START_OUT_FRAME\|MITD1_ENST00000466880.1_START_CODON_SNP\|MITD1_ENST00000466880.1_START_CODON_INS\|MITD1_ENST00000466880.1_Translation_Start_Site\|MITD1_ENST00000466880.1_Nonstop_Mutation\|MITD1_ENST00000466880.1_5'UTR\|MITD1_ENST00000466880.1_3'UTR\|MITD1_ENST00000466880.1_5'Flank\|MITD1_ENST00000466880.1_Intron\|MITD1_ENST00000466880.1_RNA, Variant_Type=INS, Reference_Allele=-, Tumor_Seq_Allele1=-, Tumor_Seq_Allele2=T, Start_Position=100, End_Position=101})	0.817s	passed
testVersion43GencodeFuncotation	0.857s	passed
testWrite[0]([[VC null @ chr1:25 Q. of type=SNP alleles=[A, T] attr={} GT=[] filters=, [VC null @ chrX:1759 Q. of type=SNP alleles=[G, C] attr={} GT=[] filters=, [VC null @ chr3:89247-89248 Q. of type=MNP alleles=[AA, GG] attr={} GT=[] filters=, [VC null @ chr6:888996-888999 Q. of type=INDEL alleles=[TCCC, T] attr={} GT=[] filters=, [VC null @ chr9:1067897-1067899 Q. of type=INDEL alleles=[AGG*, A, AG, AT] attr={} GT=[] filters=], [[TableFuncotation{dataSourceName='Gencode', fieldMap={Hugo_Symbol:A000000001 , Entrez_Gene_Id:A000000002 , Center:A000000003 , NCBI_Build:A000000004 , Chromosome:A000000005 , Start_Position:A000000006 , End_Position:A000000007 , Strand:A000000008 , Variant_Classification:A000000009 , Variant_Type:A000000010 , Reference_Allele:A000000011 , Tumor_Seq_Allele1:A000000012 , Tumor_Seq_Allele2:A000000013 , dbSNP_RS:A000000014 , dbSNP_Val_Status:A000000015 , Tumor_Sample_Barcode:A000000016 , Matched_Norm_Sample_Barcode:A000000017 , Match_Norm_Seq_Allele1:A000000018 , Match_Norm_Seq_Allele2:A000000019 , Tumor_Validation_Allele1:A000000020 , Tumor_Validation_Allele2:A000000021 , Match_Norm_Validation_Allele1:A000000022 , Match_Norm_Validation_Allele2:A000000023 , Verification_Status:A000000024 , Validation_Status:A000000025 , Mutation_Status:A000000026 , Sequencing_Phase:A000000027 , Sequence_Source:A000000028 , Validation_Method:A000000029 , Score:A000000030 , BAM_File:A000000031 , Sequencer:A000000032 , Tumor_Sample_UUID:A000000033 , Matched_Norm_Sample_UUID:A000000034 , Genome_Change:A000000035 , Annotation_Transcript:A000000036 , Transcript_Strand:A000000037 , Transcript_Exon:A000000038 , Transcript_Position:A000000039 , cDNA_Change:A000000040 , Codon_Change:A000000041 , Protein_Change:A000000042 , Other_Transcripts:A000000043 , Refseq_mRNA_Id:A000000044 , Refseq_prot_Id:A000000045 , SwissProt_acc_Id:A000000046 , SwissProt_entry_Id:A000000047 , Description:A000000048 , UniProt_AApos:A000000049 , UniProt_Region:A000000050 , UniProt_Site:A000000051 , UniProt_Natural_Variations:A000000052 , UniProt_Experimental_Info:A000000053 , GO_Biological_Process:A000000054 , GO_Cellular_Component:A000000055 , GO_Molecular_Function:A000000056 , COSMIC_overlapping_mutations:A000000057 , COSMIC_fusion_genes:A000000058 , COSMIC_tissue_types_affected:A000000059 , COSMIC_total_alterations_in_gene:A000000060 , Tumorscape_Amplification_Peaks:A000000061 , Tumorscape_Deletion_Peaks:A000000062 , TCGAscape_Amplification_Peaks:A000000063 , TCGAscape_Deletion_Peaks:A000000064 , DrugBank:A000000065 , ref_context:A000000066 , gc_content:A000000067 , CCLE_ONCOMAP_overlapping_mutations:A000000068 , CCLE_ONCOMAP_total_mutations_in_gene:A000000069 , CGC_Mutation_Type:A000000070 , CGC_Translocation_Partner:A000000071 , CGC_Tumor_Types_Somatic:A000000072 , CGC_Tumor_Types_Germline:A000000073 , CGC_Other_Diseases:A000000074 , DNARepairGenes_Activity_linked_to_OMIM:A000000075 , FamilialCancerDatabase_Syndromes:A000000076 , MUTSIG_Published_Results:A000000077 , OREGANNO_ID:A000000078 , OREGANNO_Values:A000000079 , tumor_f:A000000080 , t_alt_count:A000000081 , t_ref_count:A000000082 , n_alt_count:A000000083 , n_ref_count:A000000084 , Achilles_Top_Genes:A000000085 , CGC_Name:A000000086 , CGC_GeneID:A000000087 , CGC_Chr:A000000088 , CGC_Chr_Band:A000000089 , CGC_Cancer_Somatic_Mut:A000000090 , CGC_Cancer_Germline_Mut:A000000091 , CGC_Cancer_Syndrome:A000000092 , CGC_Tissue_Type:A000000093 , CGC_Cancer_Molecular_Genetics:A000000094 , CGC_Other_Germline_Mut:A000000095 , ClinVar_HGMD_ID:A000000096 , ClinVar_SYM:A000000097 , ClinVar_TYPE:A000000098 , ClinVar_ASSEMBLY:A000000099 , ClinVar_rs:A000000100 , CosmicFusion_fusion_id:A000000101 , DNARepairGenes_Chromosome_location_linked_to_NCBI_MapView:A000000102 , DNARepairGenes_Accession_number_linked_to_NCBI_Entrez:A000000103 , Familial_Cancer_Genes_Synonym:A000000104 , Familial_Cancer_Genes_Reference:A000000105 , Gencode_19_secondaryVariantClassification:A000000106 , Gencode_XHGNC_hgnc_id:A000000107 , HGNC_HGNC_ID:A000000108 , HGNC_Status:A000000109 , HGNC_Locus_Type:A000000110 , HGNC_Locus_Group:A000000111 , HGNC_Previous_Symbols:A000000112 , HGNC_Previous_Name:A000000113 , HGNC_Synonyms:A000000114 , HGNC_Name_Synonyms:A000000115 , HGNC_Chromosome:A000000116 , HGNC_Date_Modified:A000000117 , HGNC_Date_Symbol_Changed:A000000118 , HGNC_Date_Name_Changed:A000000119 , HGNC_Accession_Numbers:A000000120 , HGNC_Enzyme_IDs:A000000121 , HGNC_Ensembl_Gene_ID:A000000122 , HGNC_Pubmed_IDs:A000000123 , HGNC_RefSeq_IDs:A000000124 , HGNC_Gene_Family_ID:A000000125 , HGNC_Gene_Family_Name:A000000126 , HGNC_CCDS_IDs:A000000127 , HGNC_Vega_ID:A000000128 , HGNC_OMIM_ID(supplied_by_OMIM):A000000129 , HGNC_RefSeq(supplied_by_NCBI):A000000130 , HGNC_UniProt_ID(supplied_by_UniProt):A000000131 , HGNC_Ensembl_ID(supplied_by_Ensembl):A000000132 , HGNC_UCSC_ID(supplied_by_UCSC):A000000133 , Simple_Uniprot_alt_uniprot_accessions:A000000134 , dbSNP_AC:A000000135 , dbSNP_AF:A000000136 , dbSNP_AN:A000000137 , dbSNP_ASP:A000000138 , dbSNP_ASS:A000000139 , dbSNP_CAF:A000000140 , dbSNP_CDA:A000000141 , dbSNP_CFL:A000000142 , dbSNP_COMMON:A000000143 , dbSNP_DP:A000000144 , dbSNP_DSS:A000000145 , dbSNP_G5:A000000146 , dbSNP_G5A:A000000147 , dbSNP_GENEINFO:A000000148 , dbSNP_GNO:A000000149 , dbSNP_HD:A000000150 , dbSNP_INT:A000000151 , dbSNP_KGPhase1:A000000152 , dbSNP_KGPhase3:A000000153 , dbSNP_LSD:A000000154 , dbSNP_MTP:A000000155 , dbSNP_MUT:A000000156 , dbSNP_NOC:A000000157 , dbSNP_NOV:A000000158 , dbSNP_NSF:A000000159 , dbSNP_NSM:A000000160 , dbSNP_NSN:A000000161 , dbSNP_OM:A000000162 , dbSNP_OTH:A000000163 , dbSNP_PM:A000000164 , dbSNP_PMC:A000000165 , dbSNP_R3:A000000166 , dbSNP_R5:A000000167 , dbSNP_REF:A000000168 , dbSNP_RV:A000000169 , dbSNP_S3D:A000000170 , dbSNP_SAO:A000000171 , dbSNP_SLO:A000000172 , dbSNP_SSR:A000000173 , dbSNP_SYN:A000000174 , dbSNP_TOPMED:A000000175 , dbSNP_TPA:A000000176 , dbSNP_U3:A000000177 , dbSNP_U5:A000000178 , dbSNP_VC:A000000179 , dbSNP_VP:A000000180 , dbSNP_WGT:A000000181 , dbSNP_WTD:A000000182 , dbSNP_dbSNPBuildID:A000000183 , dbSNP_ID:A000000184 , dbSNP_FILTER:A000000185}, altAllele=T}], [TableFuncotation{dataSourceName='Gencode', fieldMap={Hugo_Symbol:B000000001 , Entrez_Gene_Id:B000000002 , Center:B000000003 , NCBI_Build:B000000004 , Chromosome:B000000005 , Start_Position:B000000006 , End_Position:B000000007 , Strand:B000000008 , Variant_Classification:B000000009 , Variant_Type:B000000010 , Reference_Allele:B000000011 , Tumor_Seq_Allele1:B000000012 , Tumor_Seq_Allele2:B000000013 , dbSNP_RS:B000000014 , dbSNP_Val_Status:B000000015 , Tumor_Sample_Barcode:B000000016 , Matched_Norm_Sample_Barcode:B000000017 , Match_Norm_Seq_Allele1:B000000018 , Match_Norm_Seq_Allele2:B000000019 , Tumor_Validation_Allele1:B000000020 , Tumor_Validation_Allele2:B000000021 , Match_Norm_Validation_Allele1:B000000022 , Match_Norm_Validation_Allele2:B000000023 , Verification_Status:B000000024 , Validation_Status:B000000025 , Mutation_Status:B000000026 , Sequencing_Phase:B000000027 , Sequence_Source:B000000028 , Validation_Method:B000000029 , Score:B000000030 , BAM_File:B000000031 , Sequencer:B000000032 , Tumor_Sample_UUID:B000000033 , Matched_Norm_Sample_UUID:B000000034 , Genome_Change:B000000035 , Annotation_Transcript:B000000036 , Transcript_Strand:B000000037 , Transcript_Exon:B000000038 , Transcript_Position:B000000039 , cDNA_Change:B000000040 , Codon_Change:B000000041 , Protein_Change:B000000042 , Other_Transcripts:B000000043 , Refseq_mRNA_Id:B000000044 , Refseq_prot_Id:B000000045 , SwissProt_acc_Id:B000000046 , SwissProt_entry_Id:B000000047 , Description:B000000048 , UniProt_AApos:B000000049 , UniProt_Region:B000000050 , UniProt_Site:B000000051 , UniProt_Natural_Variations:B000000052 , UniProt_Experimental_Info:B000000053 , GO_Biological_Process:B000000054 , GO_Cellular_Component:B000000055 , GO_Molecular_Function:B000000056 , COSMIC_overlapping_mutations:B000000057 , COSMIC_fusion_genes:B000000058 , COSMIC_tissue_types_affected:B000000059 , COSMIC_total_alterations_in_gene:B000000060 , Tumorscape_Amplification_Peaks:B000000061 , Tumorscape_Deletion_Peaks:B000000062 , TCGAscape_Amplification_Peaks:B000000063 , TCGAscape_Deletion_Peaks:B000000064 , DrugBank:B000000065 , ref_context:B000000066 , gc_content:B000000067 , CCLE_ONCOMAP_overlapping_mutations:B000000068 , CCLE_ONCOMAP_total_mutations_in_gene:B000000069 , CGC_Mutation_Type:B000000070 , CGC_Translocation_Partner:B000000071 , CGC_Tumor_Types_Somatic:B000000072 , CGC_Tumor_Types_Germline:B000000073 , CGC_Other_Diseases:B000000074 , DNARepairGenes_Activity_linked_to_OMIM:B000000075 , FamilialCancerDatabase_Syndromes:B000000076 , MUTSIG_Published_Results:B000000077 , OREGANNO_ID:B000000078 , OREGANNO_Values:B000000079 , tumor_f:B000000080 , t_alt_count:B000000081 , t_ref_count:B000000082 , n_alt_count:B000000083 , n_ref_count:B000000084 , Achilles_Top_Genes:B000000085 , CGC_Name:B000000086 , CGC_GeneID:B000000087 , CGC_Chr:B000000088 , CGC_Chr_Band:B000000089 , CGC_Cancer_Somatic_Mut:B000000090 , CGC_Cancer_Germline_Mut:B000000091 , CGC_Cancer_Syndrome:B000000092 , CGC_Tissue_Type:B000000093 , CGC_Cancer_Molecular_Genetics:B000000094 , CGC_Other_Germline_Mut:B000000095 , ClinVar_HGMD_ID:B000000096 , ClinVar_SYM:B000000097 , ClinVar_TYPE:B000000098 , ClinVar_ASSEMBLY:B000000099 , ClinVar_rs:B000000100 , CosmicFusion_fusion_id:B000000101 , DNARepairGenes_Chromosome_location_linked_to_NCBI_MapView:B000000102 , DNARepairGenes_Accession_number_linked_to_NCBI_Entrez:B000000103 , Familial_Cancer_Genes_Synonym:B000000104 , Familial_Cancer_Genes_Reference:B000000105 , Gencode_19_secondaryVariantClassification:B000000106 , Gencode_XHGNC_hgnc_id:B000000107 , HGNC_HGNC_ID:B000000108 , HGNC_Status:B000000109 , HGNC_Locus_Type:B000000110 , HGNC_Locus_Group:B000000111 , HGNC_Previous_Symbols:B000000112 , HGNC_Previous_Name:B000000113 , HGNC_Synonyms:B000000114 , HGNC_Name_Synonyms:B000000115 , HGNC_Chromosome:B000000116 , HGNC_Date_Modified:B000000117 , HGNC_Date_Symbol_Changed:B000000118 , HGNC_Date_Name_Changed:B000000119 , HGNC_Accession_Numbers:B000000120 , HGNC_Enzyme_IDs:B000000121 , HGNC_Ensembl_Gene_ID:B000000122 , HGNC_Pubmed_IDs:B000000123 , HGNC_RefSeq_IDs:B000000124 , HGNC_Gene_Family_ID:B000000125 , HGNC_Gene_Family_Name:B000000126 , HGNC_CCDS_IDs:B000000127 , HGNC_Vega_ID:B000000128 , HGNC_OMIM_ID(supplied_by_OMIM):B000000129 , HGNC_RefSeq(supplied_by_NCBI):B000000130 , HGNC_UniProt_ID(supplied_by_UniProt):B000000131 , HGNC_Ensembl_ID(supplied_by_Ensembl):B000000132 , HGNC_UCSC_ID(supplied_by_UCSC):B000000133 , Simple_Uniprot_alt_uniprot_accessions:B000000134 , dbSNP_AC:B000000135 , dbSNP_AF:B000000136 , dbSNP_AN:B000000137 , dbSNP_ASP:B000000138 , dbSNP_ASS:B000000139 , dbSNP_CAF:B000000140 , dbSNP_CDA:B000000141 , dbSNP_CFL:B000000142 , dbSNP_COMMON:B000000143 , dbSNP_DP:B000000144 , dbSNP_DSS:B000000145 , dbSNP_G5:B000000146 , dbSNP_G5A:B000000147 , dbSNP_GENEINFO:B000000148 , dbSNP_GNO:B000000149 , dbSNP_HD:B000000150 , dbSNP_INT:B000000151 , dbSNP_KGPhase1:B000000152 , dbSNP_KGPhase3:B000000153 , dbSNP_LSD:B000000154 , dbSNP_MTP:B000000155 , dbSNP_MUT:B000000156 , dbSNP_NOC:B000000157 , dbSNP_NOV:B000000158 , dbSNP_NSF:B000000159 , dbSNP_NSM:B000000160 , dbSNP_NSN:B000000161 , dbSNP_OM:B000000162 , dbSNP_OTH:B000000163 , dbSNP_PM:B000000164 , dbSNP_PMC:B000000165 , dbSNP_R3:B000000166 , dbSNP_R5:B000000167 , dbSNP_REF:B000000168 , dbSNP_RV:B000000169 , dbSNP_S3D:B000000170 , dbSNP_SAO:B000000171 , dbSNP_SLO:B000000172 , dbSNP_SSR:B000000173 , dbSNP_SYN:B000000174 , dbSNP_TOPMED:B000000175 , dbSNP_TPA:B000000176 , dbSNP_U3:B000000177 , dbSNP_U5:B000000178 , dbSNP_VC:B000000179 , dbSNP_VP:B000000180 , dbSNP_WGT:B000000181 , dbSNP_WTD:B000000182 , dbSNP_dbSNPBuildID:B000000183 , dbSNP_ID:B000000184 , dbSNP_FILTER:B000000185}, altAllele=C}], [TableFuncotation{dataSourceName='Gencode', fieldMap={Hugo_Symbol:C000000001 , Entrez_Gene_Id:C000000002 , Center:C000000003 , NCBI_Build:C000000004 , Chromosome:C000000005 , Start_Position:C000000006 , End_Position:C000000007 , Strand:C000000008 , Variant_Classification:C000000009 , Variant_Type:C000000010 , Reference_Allele:C000000011 , Tumor_Seq_Allele1:C000000012 , Tumor_Seq_Allele2:C000000013 , dbSNP_RS:C000000014 , dbSNP_Val_Status:C000000015 , Tumor_Sample_Barcode:C000000016 , Matched_Norm_Sample_Barcode:C000000017 , Match_Norm_Seq_Allele1:C000000018 , Match_Norm_Seq_Allele2:C000000019 , Tumor_Validation_Allele1:C000000020 , Tumor_Validation_Allele2:C000000021 , Match_Norm_Validation_Allele1:C000000022 , Match_Norm_Validation_Allele2:C000000023 , Verification_Status:C000000024 , Validation_Status:C000000025 , Mutation_Status:C000000026 , Sequencing_Phase:C000000027 , Sequence_Source:C000000028 , Validation_Method:C000000029 , Score:C000000030 , BAM_File:C000000031 , Sequencer:C000000032 , Tumor_Sample_UUID:C000000033 , Matched_Norm_Sample_UUID:C000000034 , Genome_Change:C000000035 , Annotation_Transcript:C000000036 , Transcript_Strand:C000000037 , Transcript_Exon:C000000038 , Transcript_Position:C000000039 , cDNA_Change:C000000040 , Codon_Change:C000000041 , Protein_Change:C000000042 , Other_Transcripts:C000000043 , Refseq_mRNA_Id:C000000044 , Refseq_prot_Id:C000000045 , SwissProt_acc_Id:C000000046 , SwissProt_entry_Id:C000000047 , Description:C000000048 , UniProt_AApos:C000000049 , UniProt_Region:C000000050 , UniProt_Site:C000000051 , UniProt_Natural_Variations:C000000052 , UniProt_Experimental_Info:C000000053 , GO_Biological_Process:C000000054 , GO_Cellular_Component:C000000055 , GO_Molecular_Function:C000000056 , COSMIC_overlapping_mutations:C000000057 , COSMIC_fusion_genes:C000000058 , COSMIC_tissue_types_affected:C000000059 , COSMIC_total_alterations_in_gene:C000000060 , Tumorscape_Amplification_Peaks:C000000061 , Tumorscape_Deletion_Peaks:C000000062 , TCGAscape_Amplification_Peaks:C000000063 , TCGAscape_Deletion_Peaks:C000000064 , DrugBank:C000000065 , ref_context:C000000066 , gc_content:C000000067 , CCLE_ONCOMAP_overlapping_mutations:C000000068 , CCLE_ONCOMAP_total_mutations_in_gene:C000000069 , CGC_Mutation_Type:C000000070 , CGC_Translocation_Partner:C000000071 , CGC_Tumor_Types_Somatic:C000000072 , CGC_Tumor_Types_Germline:C000000073 , CGC_Other_Diseases:C000000074 , DNARepairGenes_Activity_linked_to_OMIM:C000000075 , FamilialCancerDatabase_Syndromes:C000000076 , MUTSIG_Published_Results:C000000077 , OREGANNO_ID:C000000078 , OREGANNO_Values:C000000079 , tumor_f:C000000080 , t_alt_count:C000000081 , t_ref_count:C000000082 , n_alt_count:C000000083 , n_ref_count:C000000084 , Achilles_Top_Genes:C000000085 , CGC_Name:C000000086 , CGC_GeneID:C000000087 , CGC_Chr:C000000088 , CGC_Chr_Band:C000000089 , CGC_Cancer_Somatic_Mut:C000000090 , CGC_Cancer_Germline_Mut:C000000091 , CGC_Cancer_Syndrome:C000000092 , CGC_Tissue_Type:C000000093 , CGC_Cancer_Molecular_Genetics:C000000094 , CGC_Other_Germline_Mut:C000000095 , ClinVar_HGMD_ID:C000000096 , ClinVar_SYM:C000000097 , ClinVar_TYPE:C000000098 , ClinVar_ASSEMBLY:C000000099 , ClinVar_rs:C000000100 , CosmicFusion_fusion_id:C000000101 , DNARepairGenes_Chromosome_location_linked_to_NCBI_MapView:C000000102 , DNARepairGenes_Accession_number_linked_to_NCBI_Entrez:C000000103 , Familial_Cancer_Genes_Synonym:C000000104 , Familial_Cancer_Genes_Reference:C000000105 , Gencode_19_secondaryVariantClassification:C000000106 , Gencode_XHGNC_hgnc_id:C000000107 , HGNC_HGNC_ID:C000000108 , HGNC_Status:C000000109 , HGNC_Locus_Type:C000000110 , HGNC_Locus_Group:C000000111 , HGNC_Previous_Symbols:C000000112 , HGNC_Previous_Name:C000000113 , HGNC_Synonyms:C000000114 , HGNC_Name_Synonyms:C000000115 , HGNC_Chromosome:C000000116 , HGNC_Date_Modified:C000000117 , HGNC_Date_Symbol_Changed:C000000118 , HGNC_Date_Name_Changed:C000000119 , HGNC_Accession_Numbers:C000000120 , HGNC_Enzyme_IDs:C000000121 , HGNC_Ensembl_Gene_ID:C000000122 , HGNC_Pubmed_IDs:C000000123 , HGNC_RefSeq_IDs:C000000124 , HGNC_Gene_Family_ID:C000000125 , HGNC_Gene_Family_Name:C000000126 , HGNC_CCDS_IDs:C000000127 , HGNC_Vega_ID:C000000128 , HGNC_OMIM_ID(supplied_by_OMIM):C000000129 , HGNC_RefSeq(supplied_by_NCBI):C000000130 , HGNC_UniProt_ID(supplied_by_UniProt):C000000131 , HGNC_Ensembl_ID(supplied_by_Ensembl):C000000132 , HGNC_UCSC_ID(supplied_by_UCSC):C000000133 , Simple_Uniprot_alt_uniprot_accessions:C000000134 , dbSNP_AC:C000000135 , dbSNP_AF:C000000136 , dbSNP_AN:C000000137 , dbSNP_ASP:C000000138 , dbSNP_ASS:C000000139 , dbSNP_CAF:C000000140 , dbSNP_CDA:C000000141 , dbSNP_CFL:C000000142 , dbSNP_COMMON:C000000143 , dbSNP_DP:C000000144 , dbSNP_DSS:C000000145 , dbSNP_G5:C000000146 , dbSNP_G5A:C000000147 , dbSNP_GENEINFO:C000000148 , dbSNP_GNO:C000000149 , dbSNP_HD:C000000150 , dbSNP_INT:C000000151 , dbSNP_KGPhase1:C000000152 , dbSNP_KGPhase3:C000000153 , dbSNP_LSD:C000000154 , dbSNP_MTP:C000000155 , dbSNP_MUT:C000000156 , dbSNP_NOC:C000000157 , dbSNP_NOV:C000000158 , dbSNP_NSF:C000000159 , dbSNP_NSM:C000000160 , dbSNP_NSN:C000000161 , dbSNP_OM:C000000162 , dbSNP_OTH:C000000163 , dbSNP_PM:C000000164 , dbSNP_PMC:C000000165 , dbSNP_R3:C000000166 , dbSNP_R5:C000000167 , dbSNP_REF:C000000168 , dbSNP_RV:C000000169 , dbSNP_S3D:C000000170 , dbSNP_SAO:C000000171 , dbSNP_SLO:C000000172 , dbSNP_SSR:C000000173 , dbSNP_SYN:C000000174 , dbSNP_TOPMED:C000000175 , dbSNP_TPA:C000000176 , dbSNP_U3:C000000177 , dbSNP_U5:C000000178 , dbSNP_VC:C000000179 , dbSNP_VP:C000000180 , dbSNP_WGT:C000000181 , dbSNP_WTD:C000000182 , dbSNP_dbSNPBuildID:C000000183 , dbSNP_ID:C000000184 , dbSNP_FILTER:C000000185}, altAllele=GG}], [TableFuncotation{dataSourceName='TestDataSource4', fieldMap={Hugo_Symbol:D000000001 , Entrez_Gene_Id:D000000002 , Center:D000000003 , NCBI_Build:D000000004 , Chromosome:D000000005 , Start_Position:D000000006 , End_Position:D000000007 , Strand:D000000008 , Variant_Classification:D000000009 , Variant_Type:D000000010 , Reference_Allele:D000000011 , Tumor_Seq_Allele1:D000000012 , Tumor_Seq_Allele2:D000000013 , dbSNP_RS:D000000014 , dbSNP_Val_Status:D000000015 , Tumor_Sample_Barcode:D000000016 , Matched_Norm_Sample_Barcode:D000000017 , Match_Norm_Seq_Allele1:D000000018 , Match_Norm_Seq_Allele2:D000000019 , Tumor_Validation_Allele1:D000000020 , Tumor_Validation_Allele2:D000000021 , Match_Norm_Validation_Allele1:D000000022 , Match_Norm_Validation_Allele2:D000000023 , Verification_Status:D000000024 , Validation_Status:D000000025 , Mutation_Status:D000000026 , Sequencing_Phase:D000000027 , Sequence_Source:D000000028 , Validation_Method:D000000029 , Score:D000000030 , BAM_File:D000000031 , Sequencer:D000000032 , Tumor_Sample_UUID:D000000033 , Matched_Norm_Sample_UUID:D000000034 , Genome_Change:D000000035 , Annotation_Transcript:D000000036 , Transcript_Strand:D000000037 , Transcript_Exon:D000000038 , Transcript_Position:D000000039 , cDNA_Change:D000000040 , Codon_Change:D000000041 , Protein_Change:D000000042 , Other_Transcripts:D000000043 , Refseq_mRNA_Id:D000000044 , Refseq_prot_Id:D000000045 , SwissProt_acc_Id:D000000046 , SwissProt_entry_Id:D000000047 , Description:D000000048 , UniProt_AApos:D000000049 , UniProt_Region:D000000050 , UniProt_Site:D000000051 , UniProt_Natural_Variations:D000000052 , UniProt_Experimental_Info:D000000053 , GO_Biological_Process:D000000054 , GO_Cellular_Component:D000000055 , GO_Molecular_Function:D000000056 , COSMIC_overlapping_mutations:D000000057 , COSMIC_fusion_genes:D000000058 , COSMIC_tissue_types_affected:D000000059 , COSMIC_total_alterations_in_gene:D000000060 , Tumorscape_Amplification_Peaks:D000000061 , Tumorscape_Deletion_Peaks:D000000062 , TCGAscape_Amplification_Peaks:D000000063 , TCGAscape_Deletion_Peaks:D000000064 , DrugBank:D000000065 , ref_context:D000000066 , gc_content:D000000067 , CCLE_ONCOMAP_overlapping_mutations:D000000068 , CCLE_ONCOMAP_total_mutations_in_gene:D000000069 , CGC_Mutation_Type:D000000070 , CGC_Translocation_Partner:D000000071 , CGC_Tumor_Types_Somatic:D000000072 , CGC_Tumor_Types_Germline:D000000073 , CGC_Other_Diseases:D000000074 , DNARepairGenes_Activity_linked_to_OMIM:D000000075 , FamilialCancerDatabase_Syndromes:D000000076 , MUTSIG_Published_Results:D000000077 , OREGANNO_ID:D000000078 , OREGANNO_Values:D000000079 , tumor_f:D000000080 , t_alt_count:D000000081 , t_ref_count:D000000082 , n_alt_count:D000000083 , n_ref_count:D000000084 , Achilles_Top_Genes:D000000085 , CGC_Name:D000000086 , CGC_GeneID:D000000087 , CGC_Chr:D000000088 , CGC_Chr_Band:D000000089 , CGC_Cancer_Somatic_Mut:D000000090 , CGC_Cancer_Germline_Mut:D000000091 , CGC_Cancer_Syndrome:D000000092 , CGC_Tissue_Type:D000000093 , CGC_Cancer_Molecular_Genetics:D000000094 , CGC_Other_Germline_Mut:D000000095 , ClinVar_HGMD_ID:D000000096 , ClinVar_SYM:D000000097 , ClinVar_TYPE:D000000098 , ClinVar_ASSEMBLY:D000000099 , ClinVar_rs:D000000100 , CosmicFusion_fusion_id:D000000101 , DNARepairGenes_Chromosome_location_linked_to_NCBI_MapView:D000000102 , DNARepairGenes_Accession_number_linked_to_NCBI_Entrez:D000000103 , Familial_Cancer_Genes_Synonym:D000000104 , Familial_Cancer_Genes_Reference:D000000105 , Gencode_19_secondaryVariantClassification:D000000106 , Gencode_XHGNC_hgnc_id:D000000107 , HGNC_HGNC_ID:D000000108 , HGNC_Status:D000000109 , HGNC_Locus_Type:D000000110 , HGNC_Locus_Group:D000000111 , HGNC_Previous_Symbols:D000000112 , HGNC_Previous_Name:D000000113 , HGNC_Synonyms:D000000114 , HGNC_Name_Synonyms:D000000115 , HGNC_Chromosome:D000000116 , HGNC_Date_Modified:D000000117 , HGNC_Date_Symbol_Changed:D000000118 , HGNC_Date_Name_Changed:D000000119 , HGNC_Accession_Numbers:D000000120 , HGNC_Enzyme_IDs:D000000121 , HGNC_Ensembl_Gene_ID:D000000122 , HGNC_Pubmed_IDs:D000000123 , HGNC_RefSeq_IDs:D000000124 , HGNC_Gene_Family_ID:D000000125 , HGNC_Gene_Family_Name:D000000126 , HGNC_CCDS_IDs:D000000127 , HGNC_Vega_ID:D000000128 , HGNC_OMIM_ID(supplied_by_OMIM):D000000129 , HGNC_RefSeq(supplied_by_NCBI):D000000130 , HGNC_UniProt_ID(supplied_by_UniProt):D000000131 , HGNC_Ensembl_ID(supplied_by_Ensembl):D000000132 , HGNC_UCSC_ID(supplied_by_UCSC):D000000133 , Simple_Uniprot_alt_uniprot_accessions:D000000134 , dbSNP_AC:D000000135 , dbSNP_AF:D000000136 , dbSNP_AN:D000000137 , dbSNP_ASP:D000000138 , dbSNP_ASS:D000000139 , dbSNP_CAF:D000000140 , dbSNP_CDA:D000000141 , dbSNP_CFL:D000000142 , dbSNP_COMMON:D000000143 , dbSNP_DP:D000000144 , dbSNP_DSS:D000000145 , dbSNP_G5:D000000146 , dbSNP_G5A:D000000147 , dbSNP_GENEINFO:D000000148 , dbSNP_GNO:D000000149 , dbSNP_HD:D000000150 , dbSNP_INT:D000000151 , dbSNP_KGPhase1:D000000152 , dbSNP_KGPhase3:D000000153 , dbSNP_LSD:D000000154 , dbSNP_MTP:D000000155 , dbSNP_MUT:D000000156 , dbSNP_NOC:D000000157 , dbSNP_NOV:D000000158 , dbSNP_NSF:D000000159 , dbSNP_NSM:D000000160 , dbSNP_NSN:D000000161 , dbSNP_OM:D000000162 , dbSNP_OTH:D000000163 , dbSNP_PM:D000000164 , dbSNP_PMC:D000000165 , dbSNP_R3:D000000166 , dbSNP_R5:D000000167 , dbSNP_REF:D000000168 , dbSNP_RV:D000000169 , dbSNP_S3D:D000000170 , dbSNP_SAO:D000000171 , dbSNP_SLO:D000000172 , dbSNP_SSR:D000000173 , dbSNP_SYN:D000000174 , dbSNP_TOPMED:D000000175 , dbSNP_TPA:D000000176 , dbSNP_U3:D000000177 , dbSNP_U5:D000000178 , dbSNP_VC:D000000179 , dbSNP_VP:D000000180 , dbSNP_WGT:D000000181 , dbSNP_WTD:D000000182 , dbSNP_dbSNPBuildID:D000000183 , dbSNP_ID:D000000184 , dbSNP_FILTER:D000000185}, altAllele=T}], [TableFuncotation{dataSourceName='TestDataSource5', fieldMap={Hugo_Symbol:E000000001 , Entrez_Gene_Id:E000000002 , Center:E000000003 , NCBI_Build:E000000004 , Chromosome:E000000005 , Start_Position:E000000006 , End_Position:E000000007 , Strand:E000000008 , Variant_Classification:E000000009 , Variant_Type:E000000010 , Reference_Allele:E000000011 , Tumor_Seq_Allele1:E000000012 , Tumor_Seq_Allele2:E000000013 , dbSNP_RS:E000000014 , dbSNP_Val_Status:E000000015 , Tumor_Sample_Barcode:E000000016 , Matched_Norm_Sample_Barcode:E000000017 , Match_Norm_Seq_Allele1:E000000018 , Match_Norm_Seq_Allele2:E000000019 , Tumor_Validation_Allele1:E000000020 , Tumor_Validation_Allele2:E000000021 , Match_Norm_Validation_Allele1:E000000022 , Match_Norm_Validation_Allele2:E000000023 , Verification_Status:E000000024 , Validation_Status:E000000025 , Mutation_Status:E000000026 , Sequencing_Phase:E000000027 , Sequence_Source:E000000028 , Validation_Method:E000000029 , Score:E000000030 , BAM_File:E000000031 , Sequencer:E000000032 , Tumor_Sample_UUID:E000000033 , Matched_Norm_Sample_UUID:E000000034 , Genome_Change:E000000035 , Annotation_Transcript:E000000036 , Transcript_Strand:E000000037 , Transcript_Exon:E000000038 , Transcript_Position:E000000039 , cDNA_Change:E000000040 , Codon_Change:E000000041 , Protein_Change:E000000042 , Other_Transcripts:E000000043 , Refseq_mRNA_Id:E000000044 , Refseq_prot_Id:E000000045 , SwissProt_acc_Id:E000000046 , SwissProt_entry_Id:E000000047 , Description:E000000048 , UniProt_AApos:E000000049 , UniProt_Region:E000000050 , UniProt_Site:E000000051 , UniProt_Natural_Variations:E000000052 , UniProt_Experimental_Info:E000000053 , GO_Biological_Process:E000000054 , GO_Cellular_Component:E000000055 , GO_Molecular_Function:E000000056 , COSMIC_overlapping_mutations:E000000057 , COSMIC_fusion_genes:E000000058 , COSMIC_tissue_types_affected:E000000059 , COSMIC_total_alterations_in_gene:E000000060 , Tumorscape_Amplification_Peaks:E000000061 , Tumorscape_Deletion_Peaks:E000000062 , TCGAscape_Amplification_Peaks:E000000063 , TCGAscape_Deletion_Peaks:E000000064 , DrugBank:E000000065 , ref_context:E000000066 , gc_content:E000000067 , CCLE_ONCOMAP_overlapping_mutations:E000000068 , CCLE_ONCOMAP_total_mutations_in_gene:E000000069 , CGC_Mutation_Type:E000000070 , CGC_Translocation_Partner:E000000071 , CGC_Tumor_Types_Somatic:E000000072 , CGC_Tumor_Types_Germline:E000000073 , CGC_Other_Diseases:E000000074 , DNARepairGenes_Activity_linked_to_OMIM:E000000075 , FamilialCancerDatabase_Syndromes:E000000076 , MUTSIG_Published_Results:E000000077 , OREGANNO_ID:E000000078 , OREGANNO_Values:E000000079 , tumor_f:E000000080 , t_alt_count:E000000081 , t_ref_count:E000000082 , n_alt_count:E000000083 , n_ref_count:E000000084 , Achilles_Top_Genes:E000000085 , CGC_Name:E000000086 , CGC_GeneID:E000000087 , CGC_Chr:E000000088 , CGC_Chr_Band:E000000089 , CGC_Cancer_Somatic_Mut:E000000090 , CGC_Cancer_Germline_Mut:E000000091 , CGC_Cancer_Syndrome:E000000092 , CGC_Tissue_Type:E000000093 , CGC_Cancer_Molecular_Genetics:E000000094 , CGC_Other_Germline_Mut:E000000095 , ClinVar_HGMD_ID:E000000096 , ClinVar_SYM:E000000097 , ClinVar_TYPE:E000000098 , ClinVar_ASSEMBLY:E000000099 , ClinVar_rs:E000000100 , CosmicFusion_fusion_id:E000000101 , DNARepairGenes_Chromosome_location_linked_to_NCBI_MapView:E000000102 , DNARepairGenes_Accession_number_linked_to_NCBI_Entrez:E000000103 , Familial_Cancer_Genes_Synonym:E000000104 , Familial_Cancer_Genes_Reference:E000000105 , Gencode_19_secondaryVariantClassification:E000000106 , Gencode_XHGNC_hgnc_id:E000000107 , HGNC_HGNC_ID:E000000108 , HGNC_Status:E000000109 , HGNC_Locus_Type:E000000110 , HGNC_Locus_Group:E000000111 , HGNC_Previous_Symbols:E000000112 , HGNC_Previous_Name:E000000113 , HGNC_Synonyms:E000000114 , HGNC_Name_Synonyms:E000000115 , HGNC_Chromosome:E000000116 , HGNC_Date_Modified:E000000117 , HGNC_Date_Symbol_Changed:E000000118 , HGNC_Date_Name_Changed:E000000119 , HGNC_Accession_Numbers:E000000120 , HGNC_Enzyme_IDs:E000000121 , HGNC_Ensembl_Gene_ID:E000000122 , HGNC_Pubmed_IDs:E000000123 , HGNC_RefSeq_IDs:E000000124 , HGNC_Gene_Family_ID:E000000125 , HGNC_Gene_Family_Name:E000000126 , HGNC_CCDS_IDs:E000000127 , HGNC_Vega_ID:E000000128 , HGNC_OMIM_ID(supplied_by_OMIM):E000000129 , HGNC_RefSeq(supplied_by_NCBI):E000000130 , HGNC_UniProt_ID(supplied_by_UniProt):E000000131 , HGNC_Ensembl_ID(supplied_by_Ensembl):E000000132 , HGNC_UCSC_ID(supplied_by_UCSC):E000000133 , Simple_Uniprot_alt_uniprot_accessions:E000000134 , dbSNP_AC:E000000135 , dbSNP_AF:E000000136 , dbSNP_AN:E000000137 , dbSNP_ASP:E000000138 , dbSNP_ASS:E000000139 , dbSNP_CAF:E000000140 , dbSNP_CDA:E000000141 , dbSNP_CFL:E000000142 , dbSNP_COMMON:E000000143 , dbSNP_DP:E000000144 , dbSNP_DSS:E000000145 , dbSNP_G5:E000000146 , dbSNP_G5A:E000000147 , dbSNP_GENEINFO:E000000148 , dbSNP_GNO:E000000149 , dbSNP_HD:E000000150 , dbSNP_INT:E000000151 , dbSNP_KGPhase1:E000000152 , dbSNP_KGPhase3:E000000153 , dbSNP_LSD:E000000154 , dbSNP_MTP:E000000155 , dbSNP_MUT:E000000156 , dbSNP_NOC:E000000157 , dbSNP_NOV:E000000158 , dbSNP_NSF:E000000159 , dbSNP_NSM:E000000160 , dbSNP_NSN:E000000161 , dbSNP_OM:E000000162 , dbSNP_OTH:E000000163 , dbSNP_PM:E000000164 , dbSNP_PMC:E000000165 , dbSNP_R3:E000000166 , dbSNP_R5:E000000167 , dbSNP_REF:E000000168 , dbSNP_RV:E000000169 , dbSNP_S3D:E000000170 , dbSNP_SAO:E000000171 , dbSNP_SLO:E000000172 , dbSNP_SSR:E000000173 , dbSNP_SYN:E000000174 , dbSNP_TOPMED:E000000175 , dbSNP_TPA:E000000176 , dbSNP_U3:E000000177 , dbSNP_U5:E000000178 , dbSNP_VC:E000000179 , dbSNP_VP:E000000180 , dbSNP_WGT:E000000181 , dbSNP_WTD:E000000182 , dbSNP_dbSNPBuildID:E000000183 , dbSNP_ID:E000000184 , dbSNP_FILTER:E000000185}, altAllele=A}, TableFuncotation{dataSourceName='TestDataSource5', fieldMap={Hugo_Symbol:F000000001 , Entrez_Gene_Id:F000000002 , Center:F000000003 , NCBI_Build:F000000004 , Chromosome:F000000005 , Start_Position:F000000006 , End_Position:F000000007 , Strand:F000000008 , Variant_Classification:F000000009 , Variant_Type:F000000010 , Reference_Allele:F000000011 , Tumor_Seq_Allele1:F000000012 , Tumor_Seq_Allele2:F000000013 , dbSNP_RS:F000000014 , dbSNP_Val_Status:F000000015 , Tumor_Sample_Barcode:F000000016 , Matched_Norm_Sample_Barcode:F000000017 , Match_Norm_Seq_Allele1:F000000018 , Match_Norm_Seq_Allele2:F000000019 , Tumor_Validation_Allele1:F000000020 , Tumor_Validation_Allele2:F000000021 , Match_Norm_Validation_Allele1:F000000022 , Match_Norm_Validation_Allele2:F000000023 , Verification_Status:F000000024 , Validation_Status:F000000025 , Mutation_Status:F000000026 , Sequencing_Phase:F000000027 , Sequence_Source:F000000028 , Validation_Method:F000000029 , Score:F000000030 , BAM_File:F000000031 , Sequencer:F000000032 , Tumor_Sample_UUID:F000000033 , Matched_Norm_Sample_UUID:F000000034 , Genome_Change:F000000035 , Annotation_Transcript:F000000036 , Transcript_Strand:F000000037 , Transcript_Exon:F000000038 , Transcript_Position:F000000039 , cDNA_Change:F000000040 , Codon_Change:F000000041 , Protein_Change:F000000042 , Other_Transcripts:F000000043 , Refseq_mRNA_Id:F000000044 , Refseq_prot_Id:F000000045 , SwissProt_acc_Id:F000000046 , SwissProt_entry_Id:F000000047 , Description:F000000048 , UniProt_AApos:F000000049 , UniProt_Region:F000000050 , UniProt_Site:F000000051 , UniProt_Natural_Variations:F000000052 , UniProt_Experimental_Info:F000000053 , GO_Biological_Process:F000000054 , GO_Cellular_Component:F000000055 , GO_Molecular_Function:F000000056 , COSMIC_overlapping_mutations:F000000057 , COSMIC_fusion_genes:F000000058 , COSMIC_tissue_types_affected:F000000059 , COSMIC_total_alterations_in_gene:F000000060 , Tumorscape_Amplification_Peaks:F000000061 , Tumorscape_Deletion_Peaks:F000000062 , TCGAscape_Amplification_Peaks:F000000063 , TCGAscape_Deletion_Peaks:F000000064 , DrugBank:F000000065 , ref_context:F000000066 , gc_content:F000000067 , CCLE_ONCOMAP_overlapping_mutations:F000000068 , CCLE_ONCOMAP_total_mutations_in_gene:F000000069 , CGC_Mutation_Type:F000000070 , CGC_Translocation_Partner:F000000071 , CGC_Tumor_Types_Somatic:F000000072 , CGC_Tumor_Types_Germline:F000000073 , CGC_Other_Diseases:F000000074 , DNARepairGenes_Activity_linked_to_OMIM:F000000075 , FamilialCancerDatabase_Syndromes:F000000076 , MUTSIG_Published_Results:F000000077 , OREGANNO_ID:F000000078 , OREGANNO_Values:F000000079 , tumor_f:F000000080 , t_alt_count:F000000081 , t_ref_count:F000000082 , n_alt_count:F000000083 , n_ref_count:F000000084 , Achilles_Top_Genes:F000000085 , CGC_Name:F000000086 , CGC_GeneID:F000000087 , CGC_Chr:F000000088 , CGC_Chr_Band:F000000089 , CGC_Cancer_Somatic_Mut:F000000090 , CGC_Cancer_Germline_Mut:F000000091 , CGC_Cancer_Syndrome:F000000092 , CGC_Tissue_Type:F000000093 , CGC_Cancer_Molecular_Genetics:F000000094 , CGC_Other_Germline_Mut:F000000095 , ClinVar_HGMD_ID:F000000096 , ClinVar_SYM:F000000097 , ClinVar_TYPE:F000000098 , ClinVar_ASSEMBLY:F000000099 , ClinVar_rs:F000000100 , CosmicFusion_fusion_id:F000000101 , DNARepairGenes_Chromosome_location_linked_to_NCBI_MapView:F000000102 , DNARepairGenes_Accession_number_linked_to_NCBI_Entrez:F000000103 , Familial_Cancer_Genes_Synonym:F000000104 , Familial_Cancer_Genes_Reference:F000000105 , Gencode_19_secondaryVariantClassification:F000000106 , Gencode_XHGNC_hgnc_id:F000000107 , HGNC_HGNC_ID:F000000108 , HGNC_Status:F000000109 , HGNC_Locus_Type:F000000110 , HGNC_Locus_Group:F000000111 , HGNC_Previous_Symbols:F000000112 , HGNC_Previous_Name:F000000113 , HGNC_Synonyms:F000000114 , HGNC_Name_Synonyms:F000000115 , HGNC_Chromosome:F000000116 , HGNC_Date_Modified:F000000117 , HGNC_Date_Symbol_Changed:F000000118 , HGNC_Date_Name_Changed:F000000119 , HGNC_Accession_Numbers:F000000120 , HGNC_Enzyme_IDs:F000000121 , HGNC_Ensembl_Gene_ID:F000000122 , HGNC_Pubmed_IDs:F000000123 , HGNC_RefSeq_IDs:F000000124 , HGNC_Gene_Family_ID:F000000125 , HGNC_Gene_Family_Name:F000000126 , HGNC_CCDS_IDs:F000000127 , HGNC_Vega_ID:F000000128 , HGNC_OMIM_ID(supplied_by_OMIM):F000000129 , HGNC_RefSeq(supplied_by_NCBI):F000000130 , HGNC_UniProt_ID(supplied_by_UniProt):F000000131 , HGNC_Ensembl_ID(supplied_by_Ensembl):F000000132 , HGNC_UCSC_ID(supplied_by_UCSC):F000000133 , Simple_Uniprot_alt_uniprot_accessions:F000000134 , dbSNP_AC:F000000135 , dbSNP_AF:F000000136 , dbSNP_AN:F000000137 , dbSNP_ASP:F000000138 , dbSNP_ASS:F000000139 , dbSNP_CAF:F000000140 , dbSNP_CDA:F000000141 , dbSNP_CFL:F000000142 , dbSNP_COMMON:F000000143 , dbSNP_DP:F000000144 , dbSNP_DSS:F000000145 , dbSNP_G5:F000000146 , dbSNP_G5A:F000000147 , dbSNP_GENEINFO:F000000148 , dbSNP_GNO:F000000149 , dbSNP_HD:F000000150 , dbSNP_INT:F000000151 , dbSNP_KGPhase1:F000000152 , dbSNP_KGPhase3:F000000153 , dbSNP_LSD:F000000154 , dbSNP_MTP:F000000155 , dbSNP_MUT:F000000156 , dbSNP_NOC:F000000157 , dbSNP_NOV:F000000158 , dbSNP_NSF:F000000159 , dbSNP_NSM:F000000160 , dbSNP_NSN:F000000161 , dbSNP_OM:F000000162 , dbSNP_OTH:F000000163 , dbSNP_PM:F000000164 , dbSNP_PMC:F000000165 , dbSNP_R3:F000000166 , dbSNP_R5:F000000167 , dbSNP_REF:F000000168 , dbSNP_RV:F000000169 , dbSNP_S3D:F000000170 , dbSNP_SAO:F000000171 , dbSNP_SLO:F000000172 , dbSNP_SSR:F000000173 , dbSNP_SYN:F000000174 , dbSNP_TOPMED:F000000175 , dbSNP_TPA:F000000176 , dbSNP_U3:F000000177 , dbSNP_U5:F000000178 , dbSNP_VC:F000000179 , dbSNP_VP:F000000180 , dbSNP_WGT:F000000181 , dbSNP_WTD:F000000182 , dbSNP_dbSNPBuildID:F000000183 , dbSNP_ID:F000000184 , dbSNP_FILTER:F000000185}, altAllele=AG}, TableFuncotation{dataSourceName='TestDataSource5', fieldMap={Hugo_Symbol:G000000001 , Entrez_Gene_Id:G000000002 , Center:G000000003 , NCBI_Build:G000000004 , Chromosome:G000000005 , Start_Position:G000000006 , End_Position:G000000007 , Strand:G000000008 , Variant_Classification:G000000009 , Variant_Type:G000000010 , Reference_Allele:G000000011 , Tumor_Seq_Allele1:G000000012 , Tumor_Seq_Allele2:G000000013 , dbSNP_RS:G000000014 , dbSNP_Val_Status:G000000015 , Tumor_Sample_Barcode:G000000016 , Matched_Norm_Sample_Barcode:G000000017 , Match_Norm_Seq_Allele1:G000000018 , Match_Norm_Seq_Allele2:G000000019 , Tumor_Validation_Allele1:G000000020 , Tumor_Validation_Allele2:G000000021 , Match_Norm_Validation_Allele1:G000000022 , Match_Norm_Validation_Allele2:G000000023 , Verification_Status:G000000024 , Validation_Status:G000000025 , Mutation_Status:G000000026 , Sequencing_Phase:G000000027 , Sequence_Source:G000000028 , Validation_Method:G000000029 , Score:G000000030 , BAM_File:G000000031 , Sequencer:G000000032 , Tumor_Sample_UUID:G000000033 , Matched_Norm_Sample_UUID:G000000034 , Genome_Change:G000000035 , Annotation_Transcript:G000000036 , Transcript_Strand:G000000037 , Transcript_Exon:G000000038 , Transcript_Position:G000000039 , cDNA_Change:G000000040 , Codon_Change:G000000041 , Protein_Change:G000000042 , Other_Transcripts:G000000043 , Refseq_mRNA_Id:G000000044 , Refseq_prot_Id:G000000045 , SwissProt_acc_Id:G000000046 , SwissProt_entry_Id:G000000047 , Description:G000000048 , UniProt_AApos:G000000049 , UniProt_Region:G000000050 , UniProt_Site:G000000051 , UniProt_Natural_Variations:G000000052 , UniProt_Experimental_Info:G000000053 , GO_Biological_Process:G000000054 , GO_Cellular_Component:G000000055 , GO_Molecular_Function:G000000056 , COSMIC_overlapping_mutations:G000000057 , COSMIC_fusion_genes:G000000058 , COSMIC_tissue_types_affected:G000000059 , COSMIC_total_alterations_in_gene:G000000060 , Tumorscape_Amplification_Peaks:G000000061 , Tumorscape_Deletion_Peaks:G000000062 , TCGAscape_Amplification_Peaks:G000000063 , TCGAscape_Deletion_Peaks:G000000064 , DrugBank:G000000065 , ref_context:G000000066 , gc_content:G000000067 , CCLE_ONCOMAP_overlapping_mutations:G000000068 , CCLE_ONCOMAP_total_mutations_in_gene:G000000069 , CGC_Mutation_Type:G000000070 , CGC_Translocation_Partner:G000000071 , CGC_Tumor_Types_Somatic:G000000072 , CGC_Tumor_Types_Germline:G000000073 , CGC_Other_Diseases:G000000074 , DNARepairGenes_Activity_linked_to_OMIM:G000000075 , FamilialCancerDatabase_Syndromes:G000000076 , MUTSIG_Published_Results:G000000077 , OREGANNO_ID:G000000078 , OREGANNO_Values:G000000079 , tumor_f:G000000080 , t_alt_count:G000000081 , t_ref_count:G000000082 , n_alt_count:G000000083 , n_ref_count:G000000084 , Achilles_Top_Genes:G000000085 , CGC_Name:G000000086 , CGC_GeneID:G000000087 , CGC_Chr:G000000088 , CGC_Chr_Band:G000000089 , CGC_Cancer_Somatic_Mut:G000000090 , CGC_Cancer_Germline_Mut:G000000091 , CGC_Cancer_Syndrome:G000000092 , CGC_Tissue_Type:G000000093 , CGC_Cancer_Molecular_Genetics:G000000094 , CGC_Other_Germline_Mut:G000000095 , ClinVar_HGMD_ID:G000000096 , ClinVar_SYM:G000000097 , ClinVar_TYPE:G000000098 , ClinVar_ASSEMBLY:G000000099 , ClinVar_rs:G000000100 , CosmicFusion_fusion_id:G000000101 , DNARepairGenes_Chromosome_location_linked_to_NCBI_MapView:G000000102 , DNARepairGenes_Accession_number_linked_to_NCBI_Entrez:G000000103 , Familial_Cancer_Genes_Synonym:G000000104 , Familial_Cancer_Genes_Reference:G000000105 , Gencode_19_secondaryVariantClassification:G000000106 , Gencode_XHGNC_hgnc_id:G000000107 , HGNC_HGNC_ID:G000000108 , HGNC_Status:G000000109 , HGNC_Locus_Type:G000000110 , HGNC_Locus_Group:G000000111 , HGNC_Previous_Symbols:G000000112 , HGNC_Previous_Name:G000000113 , HGNC_Synonyms:G000000114 , HGNC_Name_Synonyms:G000000115 , HGNC_Chromosome:G000000116 , HGNC_Date_Modified:G000000117 , HGNC_Date_Symbol_Changed:G000000118 , HGNC_Date_Name_Changed:G000000119 , HGNC_Accession_Numbers:G000000120 , HGNC_Enzyme_IDs:G000000121 , HGNC_Ensembl_Gene_ID:G000000122 , HGNC_Pubmed_IDs:G000000123 , HGNC_RefSeq_IDs:G000000124 , HGNC_Gene_Family_ID:G000000125 , HGNC_Gene_Family_Name:G000000126 , HGNC_CCDS_IDs:G000000127 , HGNC_Vega_ID:G000000128 , HGNC_OMIM_ID(supplied_by_OMIM):G000000129 , HGNC_RefSeq(supplied_by_NCBI):G000000130 , HGNC_UniProt_ID(supplied_by_UniProt):G000000131 , HGNC_Ensembl_ID(supplied_by_Ensembl):G000000132 , HGNC_UCSC_ID(supplied_by_UCSC):G000000133 , Simple_Uniprot_alt_uniprot_accessions:G000000134 , dbSNP_AC:G000000135 , dbSNP_AF:G000000136 , dbSNP_AN:G000000137 , dbSNP_ASP:G000000138 , dbSNP_ASS:G000000139 , dbSNP_CAF:G000000140 , dbSNP_CDA:G000000141 , dbSNP_CFL:G000000142 , dbSNP_COMMON:G000000143 , dbSNP_DP:G000000144 , dbSNP_DSS:G000000145 , dbSNP_G5:G000000146 , dbSNP_G5A:G000000147 , dbSNP_GENEINFO:G000000148 , dbSNP_GNO:G000000149 , dbSNP_HD:G000000150 , dbSNP_INT:G000000151 , dbSNP_KGPhase1:G000000152 , dbSNP_KGPhase3:G000000153 , dbSNP_LSD:G000000154 , dbSNP_MTP:G000000155 , dbSNP_MUT:G000000156 , dbSNP_NOC:G000000157 , dbSNP_NOV:G000000158 , dbSNP_NSF:G000000159 , dbSNP_NSM:G000000160 , dbSNP_NSN:G000000161 , dbSNP_OM:G000000162 , dbSNP_OTH:G000000163 , dbSNP_PM:G000000164 , dbSNP_PMC:G000000165 , dbSNP_R3:G000000166 , dbSNP_R5:G000000167 , dbSNP_REF:G000000168 , dbSNP_RV:G000000169 , dbSNP_S3D:G000000170 , dbSNP_SAO:G000000171 , dbSNP_SLO:G000000172 , dbSNP_SSR:G000000173 , dbSNP_SYN:G000000174 , dbSNP_TOPMED:G000000175 , dbSNP_TPA:G000000176 , dbSNP_U3:G000000177 , dbSNP_U5:G000000178 , dbSNP_VC:G000000179 , dbSNP_VP:G000000180 , dbSNP_WGT:G000000181 , dbSNP_WTD:G000000182 , dbSNP_dbSNPBuildID:G000000183 , dbSNP_ID:G000000184 , dbSNP_FILTER:G000000185}, altAllele=AT}]], /gatkCloneMountPoint/src/test/resources/org/broadinstitute/hellbender/tools/funcotator/ExampleMafFileForTests.maf)	0.824s	passed

Standard error

20:32:31.148 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:32	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:32.147 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:32.149 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:33	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:33.232 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:33.234 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:34	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:34.299 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:34.302 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:35	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:35.507 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:35.508 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:36	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:36.400 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:36.401 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:37	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:37.522 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:37.524 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:38	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:38.464 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:38.466 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:39	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:39.352 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:39.354 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:40	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:40.224 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:40.226 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:41	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:41.227 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:41.228 WARN  MafOutputRenderer - No dbSNP annotations exist for this variant.  Cannot render the dbSNP fields in the MAF.  These fields will not be correct.  [VC /tmp/funcotatorTmpFolder13669890650518203127/GRCh37.p13.chr3.fasta @ 3:1000000 Q. of type=SNP alleles=[C*, T] attr={} GT=[] filters=
20:32:41.233 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:41	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:42.090 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:42.091 WARN  MafOutputRenderer - No dbSNP annotations exist for this variant.  Cannot render the dbSNP fields in the MAF.  These fields will not be correct.  [VC /tmp/funcotatorTmpFolder13669890650518203127/GRCh37.p13.chr3.fasta @ 3:1000000 Q. of type=SNP alleles=[C*, T] attr={} GT=[] filters=
20:32:42.101 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:42	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:42.924 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:42.925 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:43	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:43.736 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:43.737 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:44	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:44.572 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:44.573 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:45	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:45.404 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:45.405 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:46	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:46.236 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:46.237 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:46	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:47.052 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:47.053 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:47	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:47.906 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:47.907 WARN  MafOutputRenderer - No dbSNP annotations exist for this variant.  Cannot render the dbSNP fields in the MAF.  These fields will not be correct.  [VC /tmp/funcotatorTmpFolder13669890650518203127/GRCh37.p13.chr3.fasta @ 3:1000000 Q. of type=SNP alleles=[C*, T] attr={} GT=[] filters=
20:32:47.910 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:48	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:48.734 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:48.739 WARN  DataSourceUtils - Could not read MANIFEST.txt: unable to log data sources version information.
WARNING	2025-02-10 20:32:49	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream
20:32:49.556 WARN  MafOutputRenderer - No tumor/normal pairs were seen, cannot populate the some of the MAF fields (e.g. t_alt_count).  Please add '##tumor_sample=<tumor_sample_name>' and (if applicable) '##normal_sample=<normal_sample_name>' to the input VCF header
20:32:49.557 WARN  MafOutputRenderer - No dbSNP annotations exist for this variant.  Cannot render the dbSNP fields in the MAF.  These fields will not be correct.  [VC null @ chr1:25 Q. of type=SNP alleles=[A*, T] attr={} GT=[] filters=
20:32:49.558 WARN  MafOutputRenderer - No dbSNP annotations exist for this variant.  Cannot render the dbSNP fields in the MAF.  These fields will not be correct.  [VC null @ chrX:1759 Q. of type=SNP alleles=[G*, C] attr={} GT=[] filters=
20:32:49.558 WARN  MafOutputRenderer - No dbSNP annotations exist for this variant.  Cannot render the dbSNP fields in the MAF.  These fields will not be correct.  [VC null @ chr3:89247-89248 Q. of type=MNP alleles=[AA*, GG] attr={} GT=[] filters=
20:32:49.559 WARN  MafOutputRenderer - No dbSNP annotations exist for this variant.  Cannot render the dbSNP fields in the MAF.  These fields will not be correct.  [VC null @ chr6:888996-888999 Q. of type=INDEL alleles=[TCCC*, T] attr={} GT=[] filters=
20:32:49.559 WARN  MafOutputRenderer - No dbSNP annotations exist for this variant.  Cannot render the dbSNP fields in the MAF.  These fields will not be correct.  [VC null @ chr9:1067897-1067899 Q. of type=INDEL alleles=[AGG*, A, AG, AT] attr={} GT=[] filters=