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Updated coverter to reflect change in contig ordering in Geli files 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@888 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
andrewk 2009-06-03 10:05:28 +00:00
parent 40af4f085c
commit 7755476d36
1 changed files with 2 additions and 1 deletions
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3
python/Geli2GFF.py
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@ -29,8 +29,9 @@ if __name__ == "__main__":
for line in pipe: for line in pipe:
if line[0] not in ('@', '#'): if line[0] not in ('@', '#'):
fields = line.split("\t") fields = line.split("\t")
#print fields
try: try:
contig = Index2AffyChr[int(fields[0])] contig = fields[0] #Index2AffyChr[int(fields[0])]
except KeyError, ValueError: except KeyError, ValueError:
print "skipping "+fields[0] print "skipping "+fields[0]
continue # Skip entries not in chr 0 through 24 continue # Skip entries not in chr 0 through 24