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vasudeva8pd3
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test update with updated rlen calculation in htslib
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3 files changed

+13
-13
lines changed

3 files changed

+13
-13
lines changed

test/norm.rmdup.3.1.out

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -3,7 +3,7 @@
33
##INFO=<ID=SVLEN,Number=.,Type=Integer,Description="Difference in length between REF and ALT alleles">
44
##contig=<ID=1>
55
#CHROM POS ID REF ALT QUAL FILTER INFO
6-
1 1 . A <DEL> . . SVLEN=-1000
7-
1 1 . A <DEL> . . SVLEN=-2000
8-
1 1 . A <DEL> . . SVLEN=-3000
6+
1 8 . T <DEL> . . SVLEN=-10
7+
1 8 . T <DEL> . . SVLEN=-11
8+
1 8 . T <DEL> . . SVLEN=-12
99
1 18 . AC A . . .

test/norm.rmdup.3.2.out

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -3,5 +3,5 @@
33
##INFO=<ID=SVLEN,Number=.,Type=Integer,Description="Difference in length between REF and ALT alleles">
44
##contig=<ID=1>
55
#CHROM POS ID REF ALT QUAL FILTER INFO
6-
1 1 . A <DEL> . . SVLEN=-1000
6+
1 8 . T <DEL> . . SVLEN=-10
77
1 18 . AC A . . .

test/norm.rmdup.3.vcf

Lines changed: 9 additions & 9 deletions
Original file line numberDiff line numberDiff line change
@@ -2,14 +2,14 @@
22
##INFO=<ID=SVLEN,Number=.,Type=Integer,Description="Difference in length between REF and ALT alleles">
33
##contig=<ID=1>
44
#CHROM POS ID REF ALT QUAL FILTER INFO
5-
1 10 . C <DEL> . . SVLEN=-1000
6-
1 10 . C <DEL> . . SVLEN=-1000
7-
1 10 . C <DEL> . . SVLEN=-2000
8-
1 10 . C <DEL> . . SVLEN=-1000
9-
1 10 . C <DEL> . . SVLEN=-3000
10-
1 10 . C <DEL> . . SVLEN=-2000
11-
1 10 . C <DEL> . . SVLEN=-1000
12-
1 10 . C <DEL> . . SVLEN=-3000
13-
1 10 . C <DEL> . . SVLEN=-2000
5+
1 10 . C <DEL> . . SVLEN=-10
6+
1 10 . C <DEL> . . SVLEN=-10
7+
1 10 . C <DEL> . . SVLEN=-11
8+
1 10 . C <DEL> . . SVLEN=-10
9+
1 10 . C <DEL> . . SVLEN=-12
10+
1 10 . C <DEL> . . SVLEN=-11
11+
1 10 . C <DEL> . . SVLEN=-10
12+
1 10 . C <DEL> . . SVLEN=-12
13+
1 10 . C <DEL> . . SVLEN=-11
1414
1 20 . CCC CC . . .
1515
1 20 . CC C . . .

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