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Minor update and fix to obi grep command

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Celine Mercier
2016-08-12 17:45:44 +02:00
parent 10b22f79da
commit cf839522e7
1 changed files with 1 additions and 4 deletions
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5
python/obitools3/commands/grep.pyx
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@ -73,10 +73,7 @@ def run(config):
selection.append(i) selection.append(i)
# Create output view with the line selection # Create output view with the line selection
if isinstance(iview, OBIView_NUC_SEQS) : # TODO make view type automatic when cloning oview = d.new_view(config['obi']['outputview'], view_to_clone=iview, line_selection=selection, comments="obi grep: "+config['grep']['predicate']+"\n")
oview = d.new_view(config['obi']['outputview'], view_type="NUC_SEQS_VIEW", view_to_clone=iview, line_selection=selection, comments="obi grep: "+config['grep']['predicate']+'\n')
else :
oview = d.new_view(config['obi']['outputview'], view_to_clone=iview, line_selection=selection, comments="obi grep: "+config['grep']['predicate'])
iview.save_and_close() iview.save_and_close()
oview.save_and_close() oview.save_and_close()