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pharmAnnot
Commit e2416800 authored by Simon Verdez's avatar Simon Verdez
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ajout profondeur

parent eeb9a1cf
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create_html_v2.py
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...@@ -23,6 +23,7 @@ body = body.append(htmltag.H2('Variants pharmgkb')) ...@@ -23,6 +23,7 @@ body = body.append(htmltag.H2('Variants pharmgkb'))
data = get_data("/work/gad/sv347413/epilepsie/Pipeline/tableau pharmgkb.ods") data = get_data("/work/gad/sv347413/epilepsie/Pipeline/tableau pharmgkb.ods")
vcf_reader_SNP = VariantFile(sys.argv[1]) vcf_reader_SNP = VariantFile(sys.argv[1])
vcf_reader_CNV = VariantFile(sys.argv[2]) vcf_reader_CNV = VariantFile(sys.argv[2])
BAM_FILE = VariantFile(sys.argv[4])
Report_HLA = open(sys.argv[3],"r") Report_HLA = open(sys.argv[3],"r")
for record in vcf_reader_SNP.fetch(): for record in vcf_reader_SNP.fetch():
......
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