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Avoid exception if no match

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This fixes the sniffing unit test, the datatype framework would just
continue anyway.
This commit is contained in:
mvdbeek
2018-10-30 09:27:26 +01:00
parent ecc02bb659
commit ba5d76eb93
1 changed files with 5 additions and 3 deletions
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lib/galaxy/datatypes/sequence.py
+5 -3
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@@ -697,9 +697,11 @@ class BaseFastq(Sequence):
headers = get_headers(file_prefix, sep='\n', count=4)
if len(headers) == 4 and headers[0][0] and headers[0][0][0] == "@" and headers[2][0] and headers[2][0][0] == "+" and headers[1][0]:
# Check the sequence line, make sure it contains only G/C/A/T/N
start, end = cls.bases_regexp.match(headers[1][0]).span()
if (end - start) == len(headers[1][0]):
return True
match = cls.bases_regexp.match(headers[1][0])
if match:
start, end = match.span()
if (end - start) == len(headers[1][0]):
return True
return False