Commit d746ea48 authored by Jacques Lagnel's avatar Jacques Lagnel
Browse files

bwa added index

parent 59c49144
......@@ -211,7 +211,7 @@ rule bwa_se :
idx = config["REFPATH"] + "/" + config["GENOME"] + ".bwt"
output:
bam = "{outdir}/mapped/{{sample}}_sorted.bam".format(outdir=config["outdir"]),
#bai = "{outdir}/mapped/raw/{{sample}}_sorted.raw.bam.bai".format(outdir=config["outdir"]),
bai = "{outdir}/mapped/{{sample}}_sorted.bam.bai".format(outdir=config["outdir"]),
params:
outtmp = "{outdir}/mapped/raw/{{sample}}".format(outdir=config["outdir"]),
idxbase = config["REFPATH"] + "/" + config["GENOME"],
......
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