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Commit c221314

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PolinaBevadPolinaBevad
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Fixed test (two variants considered of frequency 0.001)
1 parent aa2437f commit c221314

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Lines changed: 5 additions & 0 deletions

‎testdata/integrationtestcases/Simple;hg38.fa;DelOutOfBound.chr1_150578117_150578617.bam;chr1:150578117-150578617;-f 0.001 --deldupvar.txt‎

Lines changed: 3 additions & 0 deletions
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@@ -1,7 +1,10 @@
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Simple,hg38.fa,DelOutOfBound.chr1_150578117_150578617.bam,chr1,150578117,150578617,-f 0.001 --deldupvar
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578429 150578429 T C 4965 5 2527 2432 1 4 T/C 0.0010 2;2 48.4 1 45.0 0 60.0 10.000 0.0010 0 1 2.000 3 2.2 5 4965 GCCGTCGCTGAAAACATGGA CATCACTCGAGACAACGATT chr1:150578118-150578617 SNV 0 0
3+
DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578557 150578557 C T 1965 2 591 1372 1 1 C/T 0.0010 2;2 41.5 1 42.0 1 60.0 4.000 0.0010 0 1 3.000 1 1.0 2 1965 ACCGGCGCAAGATTCGCCTG CCACCCGCGGCGGGAAAATC chr1:150578118-150578617 SNV 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578606 150578606 A G 1560 3 506 1051 0 3 A/G 0.0019 2;0 37.0 0 45.0 0 60.0 6.000 0.0019 0 0 4.000 1 2.0 3 1558 GATTTACAGAACTCAGGTTG CCCCACTTGAAATTGACATC chr1:150578118-150578617 SNV 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578577 150578577 C T 1847 2 542 1303 1 1 C/T 0.0011 2;2 28.0 1 45.0 0 60.0 4.000 0.0011 0 0 1.000 1 1.0 2 1847 CCCACCCGCGGCGGGAAAAT GCTACTGGGATTTACAGAAC chr1:150578118-150578617 SNV 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578149 150578149 C T 1673 2 1306 365 2 0 C/T 0.0012 2;0 63.5 1 45.0 0 60.0 4.000 0.0012 0 2 1.000 1 1.0 2 1671 AGAGCCTGCAAACAGCCGTG GTCATAAAAACCTTTAGATA chr1:150578118-150578617 SNV 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578151 150578151 T C 1683 2 1308 373 1 1 T/C 0.0012 2;2 38.0 1 45.0 0 60.0 4.000 0.0012 0 0 1.000 1 1.0 2 1682 AGCCTGCAAACAGCCGTGCG CATAAAAACCTTTAGATATC chr1:150578118-150578617 SNV 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578182 150578183 TA T 2219 3 1580 636 2 1 A/-1 0.0014 2;2 62.3 1 45.0 0 60.0 6.000 0.0014 0 7 8.000 1 0.0 3 2219 TTTAGATATCCCCACCTCTC AAAAAAATCCTTCATTCTAC chr1:150578118-150578617 Deletion 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578182 150578182 T TA 2182 6 1414 565 5 1 T/+1 0.0027 2;2 33.3 1 47.0 1 62.8 12.000 0.0030 0.0005 8 9.000 1 0.3 6 1982 TTTAGATATCCCCACCTCTC AAAAAAAATCCTTCATTCTA chr1:150578118-150578617 Insertion 0 0
10+

‎testdata/integrationtestcases/Simple;hg38.fa;DelOutOfBound.chr1_150578117_150578617.bam;chr1:150578117-150578617;-f 0.001.txt‎

Lines changed: 2 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -1,4 +1,6 @@
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Simple,hg38.fa,DelOutOfBound.chr1_150578117_150578617.bam,chr1,150578117,150578617,-f 0.001
2+
DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578429 150578429 T C 4965 5 2527 2432 1 4 T/C 0.0010 2;2 48.4 1 45.0 0 60.0 10.000 0.0010 0 1 2.000 3 2.2 5 4965 GCCGTCGCTGAAAACATGGA CATCACTCGAGACAACGATT chr1:150578118-150578617 SNV 0 0
3+
DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578557 150578557 C T 1965 2 591 1372 1 1 C/T 0.0010 2;2 41.5 1 42.0 1 60.0 4.000 0.0010 0 1 3.000 1 1.0 2 1965 ACCGGCGCAAGATTCGCCTG CCACCCGCGGCGGGAAAATC chr1:150578118-150578617 SNV 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578606 150578606 A G 1560 3 506 1051 0 3 A/G 0.0019 2;0 37.0 0 45.0 0 60.0 6.000 0.0019 0 0 4.000 1 2.0 3 1558 GATTTACAGAACTCAGGTTG CCCCACTTGAAATTGACATC chr1:150578118-150578617 SNV 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150578577 150578577 C T 1847 2 542 1303 1 1 C/T 0.0011 2;2 28.0 1 45.0 0 60.0 4.000 0.0011 0 0 1.000 1 1.0 2 1847 CCCACCCGCGGCGGGAAAAT GCTACTGGGATTTACAGAAC chr1:150578118-150578617 SNV 0 0
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DelOutOfBound.chr1_150578117_150578617 testbed chr1 150577490 150578242 TCCTAGAAAACAAAAAAGAAAAGCACATTTTCAAGTATGGGTTTCTGCTCTCTTACAACACTACTATCCAGAGAGAAGGTAAATTAAAATATCTAAGGTTTCCCCCTAAAGCAATAGTAAACCAATTATTATTCACCCCGGGGCAAAAAAAGAAAATAAGTTCTTCAGTTTCTTAAGCGGGGACCCATGATAATTAAACTTCATTTTACAGTACTATCTTGGTCTTATTAGGATTTATCCTAACAAAAGGACTTCCAGAGTTCCCATGAGGTAAAAGACGAAAACCCTTATTCTCAAATCTCCACCACCTAATATTTCAGTAACGCCTCAATTGCGCAGATCAGTTTTTCTCAACGTAGTTAAGTACATCCTGCATCAGATCTGGGTTTGTTTAAAACGCAGGCTCCACCCCATATCTTCTCCATTAAAACAGGCACCGCCTTAGGAATTATTTCAGCTATCCTCCCCTGGTGACTTATTTTTTCATGGTTTGAATCCACTGAAGAGTATTCAACTGAATTGGAACAAAAAATTGCCTAGAGAAAACCAAGATTTTTGATACAATTCAAGACCGCCATACCACTATCTCTAAGGATCCACTACTTAAATCAACATCAAATAAACAATGGTCCTTTAGTTAGAGCCTGCAAACAGCCGTGCGTCATAAAAACCTTTAGATATCCCCACCTCTCTAAAAAAAATCCTTCATTCTACTTCCACTCCAAGGCCCCTTTCATCCTTAAGGCAAACTTA T 3528 1377 1307 1553 768 609 C/-752 0.3903 2;2 37.2 1 44.9 1 60.0 2754.000 0.3257 0.3903 2 1.000 1 0.1 1377 4228 GGAAGAACTCCACAAACCCA CCCAGCCTCTTTGTTTAACT chr1:150578118-150578617 Deletion 0 713-722-1

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