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pharmAnnot
Commit 95e566f2 authored by Simon Verdez's avatar Simon Verdez
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stop unicode

parent 9bb307e1
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Showing with 3 additions and 3 deletions
create_html.py
View file @ 95e566f2
...@@ -135,13 +135,13 @@ for record in vcf_reader_SNP.fetch(): ...@@ -135,13 +135,13 @@ for record in vcf_reader_SNP.fetch():
patho = record.info["Pharmaco_Annot"][(i*12)+9].replace(")","").replace("'","").replace("-","") patho = record.info["Pharmaco_Annot"][(i*12)+9].replace(")","").replace("'","").replace("-","")
molecule = record.info["Pharmaco_Annot"][(i*12)+11].replace(")","").replace("'","").replace("-"," ").replace("]","") molecule = record.info["Pharmaco_Annot"][(i*12)+11].replace(")","").replace("'","").replace("-"," ").replace("]","")
if level.startswith("1"): if level.startswith("1"):
body= body.append(htmltag.P(htmltag.P1("pathologie: "+patho))+htmltag.P(htmltag.P1("molecule: "+molecule))+htmltag.P(htmltag.P1("gene: "+gene))+htmltag.P(htmltag.P1("variant: "+repr(record.pos)+" "+repr(record.ref)+">"+repr(record.alts)+" "+repr(record.id)))+htmltag.P(htmltag.P1("base alternative: "+alt))+htmltag.P(htmltag.P1("niveau: "+level))+htmltag.P(htmltag.P1("phenotype: "+pheno))) body= body.append(htmltag.P(htmltag.P1("pathologie: "+patho))+htmltag.P(htmltag.P1("molecule: "+molecule))+htmltag.P(htmltag.P1("gene: "+gene.encode('utf-8')))+htmltag.P(htmltag.P1("variant: "+repr(record.pos)+" "+repr(record.ref)+">"+repr(record.alts)+" "+repr(record.id)))+htmltag.P(htmltag.P1("base alternative: "+alt))+htmltag.P(htmltag.P1("niveau: "+level))+htmltag.P(htmltag.P1("phenotype: "+pheno)))
body= body.append(htmltag.P(htmltag.P1(htmltag.A(href = publi).append("publication: "+publi)))) body= body.append(htmltag.P(htmltag.P1(htmltag.A(href = publi).append("publication: "+publi))))
elif level.startswith("2"): elif level.startswith("2"):
body= body.append(htmltag.P(htmltag.P2("pathologie: "+patho))+htmltag.P(htmltag.P2("molecule: "+molecule))+htmltag.P(htmltag.P2("gene: "+gene))+htmltag.P(htmltag.P2("variant: "+repr(record.pos)+" "+repr(record.ref)+">"+repr(record.alts)+" "+repr(record.id)))+htmltag.P(htmltag.P2("base alternative: "+alt))+htmltag.P(htmltag.P2("niveau: "+level))+htmltag.P(htmltag.P2("phenotype: "+pheno))) body= body.append(htmltag.P(htmltag.P2("pathologie: "+patho))+htmltag.P(htmltag.P2("molecule: "+molecule))+htmltag.P(htmltag.P2("gene: "+gene.encode('utf-8')))+htmltag.P(htmltag.P2("variant: "+repr(record.pos)+" "+repr(record.ref)+">"+repr(record.alts)+" "+repr(record.id)))+htmltag.P(htmltag.P2("base alternative: "+alt))+htmltag.P(htmltag.P2("niveau: "+level))+htmltag.P(htmltag.P2("phenotype: "+pheno)))
body= body.append(htmltag.P(htmltag.P2(htmltag.A(href = publi).append("publication: "+publi)))) body= body.append(htmltag.P(htmltag.P2(htmltag.A(href = publi).append("publication: "+publi))))
else : else :
body= body.append(htmltag.P("pathologie: "+patho)+htmltag.P("molecule: "+molecule)+htmltag.P("gene: "+gene)+htmltag.P("variant: "+repr(record.pos)+" "+repr(record.ref)+">"+repr(record.alts)+" "+repr(record.id))+htmltag.P("base alternative: "+alt)+htmltag.P("niveau: "+level)+htmltag.P(htmltag.P("phenotype: "+pheno))) body= body.append(htmltag.P("pathologie: "+patho)+htmltag.P("molecule: "+molecule)+htmltag.P("gene: "+gene.encode('utf-8'))+htmltag.P("variant: "+repr(record.pos)+" "+repr(record.ref)+">"+repr(record.alts)+" "+repr(record.id))+htmltag.P("base alternative: "+alt)+htmltag.P("niveau: "+level)+htmltag.P(htmltag.P("phenotype: "+pheno)))
body= body.append(htmltag.P(htmltag.A(href = publi).append("publication: "+publi))) body= body.append(htmltag.P(htmltag.A(href = publi).append("publication: "+publi)))
body= body.append(htmltag.P("#######################################################################")) body= body.append(htmltag.P("#######################################################################"))
except: except:
......
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