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Update expected test results for default value change.
1 parent 444e9e7 commit 865c8a2

6 files changed

+12
-12
lines changed

‎test/com/rtg/variant/cnv/segment/resources/expected.segments-gc.vcf

+1-1
Original file line numberDiff line numberDiff line change
@@ -19,6 +19,6 @@
1919
##FORMAT=<ID=LR,Number=1,Type=Float,Description="Log2 of RD ratio with respect to control">
2020
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT foo
2121
simulatedSequence1 1752 . C . . . END=4944;IMPRECISE;CIPOS=-1752,502;CIEND=-505,25;BC=3 GT:LR:RDR:SQS 0:0.0000:1.0000:0.0000
22-
simulatedSequence1 4969 . G <DEL> . . SVTYPE=DEL;END=6352;IMPRECISE;CIPOS=-25,505;CIEND=-8,3;BC=3 GT:LR:RDR:SQS 1:-8.3808:0.0030:8.3808
22+
simulatedSequence1 4969 . G <DEL> . . SVTYPE=DEL;END=6352;IMPRECISE;CIPOS=-25,505;CIEND=-8,3;BC=3 GT:LR:RDR:SQS 1:-6.0000:0.0156:6.0000
2323
simulatedSequence1 6355 . G . . . END=8415;IMPRECISE;CIPOS=-3,92;CIEND=-55,13;BC=9 GT:LR:RDR:SQS 0:0.0000:1.0000:0.0000
2424
simulatedSequence1 8428 . A <DUP> . . SVTYPE=DUP;END=9219;IMPRECISE;CIPOS=-13,8;CIEND=-308,781;BC=2 GT:LR:RDR:SQS 1:1.5850:3.0000:1.5850

‎test/com/rtg/variant/cnv/segment/resources/expected.segments-panel.vcf

+1-1
Original file line numberDiff line numberDiff line change
@@ -19,6 +19,6 @@
1919
##FORMAT=<ID=LR,Number=1,Type=Float,Description="Log2 of RD ratio with respect to control">
2020
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT foo
2121
simulatedSequence1 1752 . C . . . END=4944;IMPRECISE;CIPOS=-1752,502;CIEND=-505,25;BC=3 GT:LR:RDR:SQS 0:0.0000:1.0000:0.0000
22-
simulatedSequence1 4969 . G <DEL> . . SVTYPE=DEL;END=6352;IMPRECISE;CIPOS=-25,505;CIEND=-8,3;BC=3 GT:LR:RDR:SQS 1:-8.3808:0.0030:8.3808
22+
simulatedSequence1 4969 . G <DEL> . . SVTYPE=DEL;END=6352;IMPRECISE;CIPOS=-25,505;CIEND=-8,3;BC=3 GT:LR:RDR:SQS 1:-6.0000:0.0156:6.0000
2323
simulatedSequence1 6355 . G . . . END=8415;IMPRECISE;CIPOS=-3,92;CIEND=-55,13;BC=9 GT:LR:RDR:SQS 0:0.0000:1.0000:0.0000
2424
simulatedSequence1 8428 . A <DUP> . . SVTYPE=DUP;END=9219;IMPRECISE;CIPOS=-13,8;CIEND=-308,781;BC=2 GT:LR:RDR:SQS 1:1.5850:3.0000:1.5850

‎test/com/rtg/variant/cnv/segment/resources/expected.segments.vcf

+1-1
Original file line numberDiff line numberDiff line change
@@ -19,6 +19,6 @@
1919
##FORMAT=<ID=LR,Number=1,Type=Float,Description="Log2 of RD ratio with respect to control">
2020
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT foo
2121
simulatedSequence1 1752 . C . . . END=4944;IMPRECISE;CIPOS=-1752,502;CIEND=-505,25;BC=3 GT:LR:RDR:SQS 0:0.0000:1.0000:0.0000
22-
simulatedSequence1 4969 . G <DEL> . . SVTYPE=DEL;END=6352;IMPRECISE;CIPOS=-25,505;CIEND=-8,3;BC=3 GT:LR:RDR:SQS 1:-8.3808:0.0030:8.3808
22+
simulatedSequence1 4969 . G <DEL> . . SVTYPE=DEL;END=6352;IMPRECISE;CIPOS=-25,505;CIEND=-8,3;BC=3 GT:LR:RDR:SQS 1:-6.0000:0.0156:6.0000
2323
simulatedSequence1 6355 . G . . . END=8415;IMPRECISE;CIPOS=-3,92;CIEND=-55,13;BC=9 GT:LR:RDR:SQS 0:0.0000:1.0000:0.0000
2424
simulatedSequence1 8428 . A <DUP> . . SVTYPE=DUP;END=9219;IMPRECISE;CIPOS=-13,8;CIEND=-308,781;BC=2 GT:LR:RDR:SQS 1:1.5850:3.0000:1.5850

‎test/com/rtg/variant/cnv/segment/resources/expected.unsegmented-gc.bed

+3-3
Original file line numberDiff line numberDiff line change
@@ -2,9 +2,9 @@
22
simulatedSequence1 1752 2757 2000.00 2000.00 496 0.493532 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
33
simulatedSequence1 2822 3835 2000.00 2000.00 531 0.524186 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
44
simulatedSequence1 3933 4944 2000.00 2000.00 525 0.519288 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
5-
simulatedSequence1 4969 5980 6.00000 2000.00 508 0.502473 6.00000 2000.00 0.00300000 1.00000 0.00300000 -8.38082
6-
simulatedSequence1 6289 6298 6.00000 2000.00 6 0.666667 6.00000 2000.00 0.00300000 1.00000 0.00300000 -8.38082
7-
simulatedSequence1 6335 6352 6.00000 2000.00 9 0.529412 6.00000 2000.00 0.00300000 1.00000 0.00300000 -8.38082
5+
simulatedSequence1 4969 5980 6.00000 2000.00 508 0.502473 6.00000 2000.00 0.00300000 1.00000 0.00300000 -6.00000
6+
simulatedSequence1 6289 6298 6.00000 2000.00 6 0.666667 6.00000 2000.00 0.00300000 1.00000 0.00300000 -6.00000
7+
simulatedSequence1 6335 6352 6.00000 2000.00 9 0.529412 6.00000 2000.00 0.00300000 1.00000 0.00300000 -6.00000
88
simulatedSequence1 6355 6540 2000.00 2000.00 96 0.518919 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
99
simulatedSequence1 6655 6740 2000.00 2000.00 51 0.600000 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
1010
simulatedSequence1 6755 6940 2000.00 2000.00 86 0.464865 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000

‎test/com/rtg/variant/cnv/segment/resources/expected.unsegmented-panel.bed

+3-3
Original file line numberDiff line numberDiff line change
@@ -2,9 +2,9 @@
22
simulatedSequence1 1752 2757 2000.00 1.00000 1.00000 1.00000 0.00000
33
simulatedSequence1 2822 3835 2000.00 1.00000 1.00000 1.00000 0.00000
44
simulatedSequence1 3933 4944 2000.00 1.00000 1.00000 1.00000 0.00000
5-
simulatedSequence1 4969 5980 6.00000 1.00000 0.00300000 0.00300000 -8.38082
6-
simulatedSequence1 6289 6298 6.00000 1.00000 0.00300000 0.00300000 -8.38082
7-
simulatedSequence1 6335 6352 6.00000 1.00000 0.00300000 0.00300000 -8.38082
5+
simulatedSequence1 4969 5980 6.00000 1.00000 0.00300000 0.00300000 -6.00000
6+
simulatedSequence1 6289 6298 6.00000 1.00000 0.00300000 0.00300000 -6.00000
7+
simulatedSequence1 6335 6352 6.00000 1.00000 0.00300000 0.00300000 -6.00000
88
simulatedSequence1 6355 6540 2000.00 1.00000 1.00000 1.00000 0.00000
99
simulatedSequence1 6655 6740 2000.00 1.00000 1.00000 1.00000 0.00000
1010
simulatedSequence1 6755 6940 2000.00 1.00000 1.00000 1.00000 0.00000

‎test/com/rtg/variant/cnv/segment/resources/expected.unsegmented.bed

+3-3
Original file line numberDiff line numberDiff line change
@@ -2,9 +2,9 @@
22
simulatedSequence1 1752 2757 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
33
simulatedSequence1 2822 3835 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
44
simulatedSequence1 3933 4944 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
5-
simulatedSequence1 4969 5980 6.00000 2000.00 0.00300000 1.00000 0.00300000 -8.38082
6-
simulatedSequence1 6289 6298 6.00000 2000.00 0.00300000 1.00000 0.00300000 -8.38082
7-
simulatedSequence1 6335 6352 6.00000 2000.00 0.00300000 1.00000 0.00300000 -8.38082
5+
simulatedSequence1 4969 5980 6.00000 2000.00 0.00300000 1.00000 0.00300000 -6.00000
6+
simulatedSequence1 6289 6298 6.00000 2000.00 0.00300000 1.00000 0.00300000 -6.00000
7+
simulatedSequence1 6335 6352 6.00000 2000.00 0.00300000 1.00000 0.00300000 -6.00000
88
simulatedSequence1 6355 6540 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
99
simulatedSequence1 6655 6740 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000
1010
simulatedSequence1 6755 6940 2000.00 2000.00 1.00000 1.00000 1.00000 0.00000

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