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Commit 92069804 authored by Wai Yi Leung's avatar Wai Yi Leung
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set default REF to N

parent a6568f28
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public/biopet-extensions/src/main/resources/nl/lumc/sasc/biopet/extensions/breakdancer/breakdancer2vcf.py
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......@@ -172,7 +172,7 @@ def _format_vcffile(dictreader, vcffile):
SAMPLEINFO = "{}:{}".format( '1/.', line['num_Reads'] )
# Create record
output_vcf.append([CHROM, POS, '.', '.', ALT, '.', 'PASS', INFO, FORMAT, SAMPLEINFO])
output_vcf.append([CHROM, POS, '.', 'N', ALT, '.', 'PASS', INFO, FORMAT, SAMPLEINFO])
# Sort all results
output_vcf.sort()
......
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