Remove sample name parsing which doesn't work when directories have .…#100
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ericenns wants to merge 2 commits intokatholt:masterfrom
Open
Remove sample name parsing which doesn't work when directories have .…#100ericenns wants to merge 2 commits intokatholt:masterfrom
ericenns wants to merge 2 commits intokatholt:masterfrom
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… in the name, instead just pass sample_name along to functions requiring it.
mbargull
reviewed
Dec 14, 2017
scripts/srst2.py
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| consensus_type = "consensus" | ||
| with open(consensus_file, "a") as consensus_outfile: | ||
| consensus_outfile.write(">{0}.{1} {2}\n".format(allele, consensus_type, pileup_file.split(".")[1].split("__")[1])) | ||
| consensus_outfile.write(">{0}.{1} {2}\n".format(allele, consensus_type, sample_name) |
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… in the name, instead just pass sample_name along to functions requiring it.
This addresses #99