Commit 42d2a030 authored by peguerin's avatar peguerin
Browse files

replace all_samples TSV with all_samples CSV

parent e975e931
......@@ -40,7 +40,7 @@ from Bio.Seq import Seq
## read a sample description .dat file and return a dataframe object
def read_dat(filedat):
dfdat = pandas.read_csv(filedat,sep="\t",header=None)
dfdat = pandas.read_csv(filedat,sep=";",header=None)
dfdat.columns=['plaque','plaque1','barcode','primer5','primer3','F']
return dfdat
......
......@@ -47,7 +47,7 @@ import pandas
rapidrunfile = config['fichiers']['rapidrun']
## read the rapidrun file as dataframe
dfr =pandas.read_csv(rapidrunfile, sep="\t")
dfr =pandas.read_csv(rapidrunfile, sep=";")
dfr.columns = ['plaque', 'run','sample','projet','marker']
## remove blacklisted projets
blacklistedProjets = config['blacklist']['projet']
......
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