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Update indel test results
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@pjvandehaar
pjvandehaar committed Oct 29, 2015
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Showing 679 changed files with 2,564 additions and 1,960 deletions.
1,744 changes: 1,744 additions & 0 deletions test/indel/expected/gotcloud.indel.Makefile
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8 changes: 4 additions & 4 deletions test/indel/expected/indel/aux/all.sites.20.bcf.log
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@@ -1,13 +1,13 @@
merge_candidate_variants v0.5

options: [L] input VCF file list aux/candidate_vcf_files.txt (60 files)
[o] output VCF file aux/all.sites.20.20000001.40000000.bcf
[i] intervals 20:20000001-40000000
options: [L] input VCF file list /net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/aux/candidate_vcf_files.txt (60 files)
[o] output VCF file /net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/aux/all.sites.20.bcf
[i] intervals 20

stats: Total Number of Candidate SNPs 0
Total Number of Candidate Indels 386
Total Number of Candidate SNPIndels 2
Total Number of Candidate other variant types 0

Time elapsed: 0.04s
Time elapsed: 0.07s

120 changes: 60 additions & 60 deletions test/indel/expected/indel/aux/candidate_vcf_files.txt
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@@ -1,60 +1,60 @@
indelvcf/NA12272/NA12272.sites.bcf
indelvcf/NA12004/NA12004.sites.bcf
indelvcf/NA11994/NA11994.sites.bcf
indelvcf/NA12749/NA12749.sites.bcf
indelvcf/NA10847/NA10847.sites.bcf
indelvcf/NA12716/NA12716.sites.bcf
indelvcf/NA12829/NA12829.sites.bcf
indelvcf/NA12275/NA12275.sites.bcf
indelvcf/NA12750/NA12750.sites.bcf
indelvcf/NA12348/NA12348.sites.bcf
indelvcf/NA12347/NA12347.sites.bcf
indelvcf/NA12003/NA12003.sites.bcf
indelvcf/NA12286/NA12286.sites.bcf
indelvcf/NA11829/NA11829.sites.bcf
indelvcf/NA07357/NA07357.sites.bcf
indelvcf/NA12144/NA12144.sites.bcf
indelvcf/NA12812/NA12812.sites.bcf
indelvcf/NA12718/NA12718.sites.bcf
indelvcf/NA12777/NA12777.sites.bcf
indelvcf/NA12872/NA12872.sites.bcf
indelvcf/NA12751/NA12751.sites.bcf
indelvcf/NA12717/NA12717.sites.bcf
indelvcf/NA07051/NA07051.sites.bcf
indelvcf/NA11992/NA11992.sites.bcf
indelvcf/NA12058/NA12058.sites.bcf
indelvcf/NA12889/NA12889.sites.bcf
indelvcf/NA12400/NA12400.sites.bcf
indelvcf/NA12778/NA12778.sites.bcf
indelvcf/NA12154/NA12154.sites.bcf
indelvcf/NA11932/NA11932.sites.bcf
indelvcf/NA06986/NA06986.sites.bcf
indelvcf/NA07056/NA07056.sites.bcf
indelvcf/NA12046/NA12046.sites.bcf
indelvcf/NA12342/NA12342.sites.bcf
indelvcf/NA06984/NA06984.sites.bcf
indelvcf/NA12273/NA12273.sites.bcf
indelvcf/NA12748/NA12748.sites.bcf
indelvcf/NA12814/NA12814.sites.bcf
indelvcf/NA12546/NA12546.sites.bcf
indelvcf/NA12827/NA12827.sites.bcf
indelvcf/NA12489/NA12489.sites.bcf
indelvcf/NA12283/NA12283.sites.bcf
indelvcf/NA11919/NA11919.sites.bcf
indelvcf/NA11995/NA11995.sites.bcf
indelvcf/NA07000/NA07000.sites.bcf
indelvcf/NA10851/NA10851.sites.bcf
indelvcf/NA12341/NA12341.sites.bcf
indelvcf/NA11892/NA11892.sites.bcf
indelvcf/NA12383/NA12383.sites.bcf
indelvcf/NA06994/NA06994.sites.bcf
indelvcf/NA12006/NA12006.sites.bcf
indelvcf/NA11993/NA11993.sites.bcf
indelvcf/NA12413/NA12413.sites.bcf
indelvcf/NA11920/NA11920.sites.bcf
indelvcf/NA12874/NA12874.sites.bcf
indelvcf/NA12045/NA12045.sites.bcf
indelvcf/NA12249/NA12249.sites.bcf
indelvcf/NA11931/NA11931.sites.bcf
indelvcf/NA11918/NA11918.sites.bcf
indelvcf/NA12043/NA12043.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12272/NA12272.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12004/NA12004.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11994/NA11994.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12749/NA12749.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA10847/NA10847.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12716/NA12716.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12829/NA12829.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12275/NA12275.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12750/NA12750.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12348/NA12348.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12347/NA12347.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12003/NA12003.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12286/NA12286.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11829/NA11829.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA07357/NA07357.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12144/NA12144.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12812/NA12812.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12718/NA12718.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12777/NA12777.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12872/NA12872.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12751/NA12751.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12717/NA12717.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA07051/NA07051.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11992/NA11992.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12058/NA12058.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12889/NA12889.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12400/NA12400.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12778/NA12778.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12154/NA12154.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11932/NA11932.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA06986/NA06986.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA07056/NA07056.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12046/NA12046.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12342/NA12342.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA06984/NA06984.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12273/NA12273.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12748/NA12748.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12814/NA12814.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12546/NA12546.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12827/NA12827.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12489/NA12489.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12283/NA12283.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11919/NA11919.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11995/NA11995.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA07000/NA07000.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA10851/NA10851.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12341/NA12341.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11892/NA11892.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12383/NA12383.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA06994/NA06994.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12006/NA12006.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11993/NA11993.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12413/NA12413.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11920/NA11920.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12874/NA12874.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12045/NA12045.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12249/NA12249.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11931/NA11931.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11918/NA11918.sites.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12043/NA12043.sites.bcf
120 changes: 60 additions & 60 deletions test/indel/expected/indel/aux/merge.20.vcf.list.txt
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@@ -1,60 +1,60 @@
indelvcf/NA12272/NA12272.genotypes.20.20000001.40000000.bcf
indelvcf/NA12004/NA12004.genotypes.20.20000001.40000000.bcf
indelvcf/NA11994/NA11994.genotypes.20.20000001.40000000.bcf
indelvcf/NA12749/NA12749.genotypes.20.20000001.40000000.bcf
indelvcf/NA10847/NA10847.genotypes.20.20000001.40000000.bcf
indelvcf/NA12716/NA12716.genotypes.20.20000001.40000000.bcf
indelvcf/NA12829/NA12829.genotypes.20.20000001.40000000.bcf
indelvcf/NA12275/NA12275.genotypes.20.20000001.40000000.bcf
indelvcf/NA12750/NA12750.genotypes.20.20000001.40000000.bcf
indelvcf/NA12348/NA12348.genotypes.20.20000001.40000000.bcf
indelvcf/NA12347/NA12347.genotypes.20.20000001.40000000.bcf
indelvcf/NA12003/NA12003.genotypes.20.20000001.40000000.bcf
indelvcf/NA12286/NA12286.genotypes.20.20000001.40000000.bcf
indelvcf/NA11829/NA11829.genotypes.20.20000001.40000000.bcf
indelvcf/NA07357/NA07357.genotypes.20.20000001.40000000.bcf
indelvcf/NA12144/NA12144.genotypes.20.20000001.40000000.bcf
indelvcf/NA12812/NA12812.genotypes.20.20000001.40000000.bcf
indelvcf/NA12718/NA12718.genotypes.20.20000001.40000000.bcf
indelvcf/NA12777/NA12777.genotypes.20.20000001.40000000.bcf
indelvcf/NA12872/NA12872.genotypes.20.20000001.40000000.bcf
indelvcf/NA12751/NA12751.genotypes.20.20000001.40000000.bcf
indelvcf/NA12717/NA12717.genotypes.20.20000001.40000000.bcf
indelvcf/NA07051/NA07051.genotypes.20.20000001.40000000.bcf
indelvcf/NA11992/NA11992.genotypes.20.20000001.40000000.bcf
indelvcf/NA12058/NA12058.genotypes.20.20000001.40000000.bcf
indelvcf/NA12889/NA12889.genotypes.20.20000001.40000000.bcf
indelvcf/NA12400/NA12400.genotypes.20.20000001.40000000.bcf
indelvcf/NA12778/NA12778.genotypes.20.20000001.40000000.bcf
indelvcf/NA12154/NA12154.genotypes.20.20000001.40000000.bcf
indelvcf/NA11932/NA11932.genotypes.20.20000001.40000000.bcf
indelvcf/NA06986/NA06986.genotypes.20.20000001.40000000.bcf
indelvcf/NA07056/NA07056.genotypes.20.20000001.40000000.bcf
indelvcf/NA12046/NA12046.genotypes.20.20000001.40000000.bcf
indelvcf/NA12342/NA12342.genotypes.20.20000001.40000000.bcf
indelvcf/NA06984/NA06984.genotypes.20.20000001.40000000.bcf
indelvcf/NA12273/NA12273.genotypes.20.20000001.40000000.bcf
indelvcf/NA12748/NA12748.genotypes.20.20000001.40000000.bcf
indelvcf/NA12814/NA12814.genotypes.20.20000001.40000000.bcf
indelvcf/NA12546/NA12546.genotypes.20.20000001.40000000.bcf
indelvcf/NA12827/NA12827.genotypes.20.20000001.40000000.bcf
indelvcf/NA12489/NA12489.genotypes.20.20000001.40000000.bcf
indelvcf/NA12283/NA12283.genotypes.20.20000001.40000000.bcf
indelvcf/NA11919/NA11919.genotypes.20.20000001.40000000.bcf
indelvcf/NA11995/NA11995.genotypes.20.20000001.40000000.bcf
indelvcf/NA07000/NA07000.genotypes.20.20000001.40000000.bcf
indelvcf/NA10851/NA10851.genotypes.20.20000001.40000000.bcf
indelvcf/NA12341/NA12341.genotypes.20.20000001.40000000.bcf
indelvcf/NA11892/NA11892.genotypes.20.20000001.40000000.bcf
indelvcf/NA12383/NA12383.genotypes.20.20000001.40000000.bcf
indelvcf/NA06994/NA06994.genotypes.20.20000001.40000000.bcf
indelvcf/NA12006/NA12006.genotypes.20.20000001.40000000.bcf
indelvcf/NA11993/NA11993.genotypes.20.20000001.40000000.bcf
indelvcf/NA12413/NA12413.genotypes.20.20000001.40000000.bcf
indelvcf/NA11920/NA11920.genotypes.20.20000001.40000000.bcf
indelvcf/NA12874/NA12874.genotypes.20.20000001.40000000.bcf
indelvcf/NA12045/NA12045.genotypes.20.20000001.40000000.bcf
indelvcf/NA12249/NA12249.genotypes.20.20000001.40000000.bcf
indelvcf/NA11931/NA11931.genotypes.20.20000001.40000000.bcf
indelvcf/NA11918/NA11918.genotypes.20.20000001.40000000.bcf
indelvcf/NA12043/NA12043.genotypes.20.20000001.40000000.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12272/NA12272.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12004/NA12004.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11994/NA11994.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12749/NA12749.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA10847/NA10847.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12716/NA12716.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12829/NA12829.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12275/NA12275.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12750/NA12750.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12348/NA12348.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12347/NA12347.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12003/NA12003.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12286/NA12286.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11829/NA11829.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA07357/NA07357.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12144/NA12144.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12045/NA12045.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12812/NA12812.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12718/NA12718.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12777/NA12777.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12872/NA12872.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12751/NA12751.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12717/NA12717.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA07051/NA07051.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12249/NA12249.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11992/NA11992.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12058/NA12058.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12889/NA12889.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12400/NA12400.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12778/NA12778.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12154/NA12154.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11932/NA11932.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11931/NA11931.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA06986/NA06986.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA07056/NA07056.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12046/NA12046.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12342/NA12342.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA06984/NA06984.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12273/NA12273.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12748/NA12748.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12814/NA12814.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12546/NA12546.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12827/NA12827.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12489/NA12489.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12283/NA12283.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11919/NA11919.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11995/NA11995.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA07000/NA07000.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA10851/NA10851.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11918/NA11918.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12341/NA12341.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11892/NA11892.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12383/NA12383.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA06994/NA06994.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12006/NA12006.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12043/NA12043.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11993/NA11993.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12413/NA12413.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA11920/NA11920.genotypesConcat.20.bcf
/net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/indelvcf/NA12874/NA12874.genotypesConcat.20.bcf
8 changes: 4 additions & 4 deletions test/indel/expected/indel/aux/probes.20.20000001.40000000.log
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@@ -1,13 +1,13 @@
construct_probes v0.5

options: input VCF file aux/all.sites.20.20000001.40000000.bcf
[o] output VCF file aux/probes.sites.20.20000001.40000000.bcf
[r] reference FASTA file test/chr20Ref/human_g1k_v37_chr20.fa
options: input VCF file /net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/aux/all.sites.20.bcf
[o] output VCF file /net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/aux/probes.sites.20.20000001.40000000.bcf
[r] reference FASTA file /net/snowwhite/home/pjvh/tmp/gotcloud/test/chr20Ref/human_g1k_v37_chr20.fa
[f] minimum flank length 20
[i] intervals 20:20000001-40000000

stats: no. of probes generated : 388
no. variants : 388

Time elapsed: 0.31s
Time elapsed: 0.13s

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2 changes: 1 addition & 1 deletion test/indel/expected/indel/final/concat.log
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@@ -1 +1 @@
processing final/merge/all.genotypes.20.20000001.40000000.bcf
processing /net/snowwhite/home/pjvh/tmp/indel-1029-0221/indeltest/indel/final/merge/all.genotypes.20.bcf
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2 changes: 1 addition & 1 deletion test/indel/expected/indel/final/merge/compute_features.20.log
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Expand Up @@ -5,5 +5,5 @@ Options: input VCF File +

stats: variants : 386

Time elapsed: 0.05s
Time elapsed: 0.04s

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