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Patch a bug about the reading of the last sequence

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This commit is contained in:
Eric Coissac
2016-05-21 10:28:03 +02:00
parent e681ca646d
commit 0b9a41d952
1 changed files with 9 additions and 3 deletions
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12
python/obitools3/parsers/fasta.pyx
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@ -28,9 +28,14 @@ def fastaIterator(lineiterator, int buffersize=100000000):
ident,tags,definition = parseHeader(line) ident,tags,definition = parseHeader(line)
s = [] s = []
line = next(i) line = next(i)
while line[0]!='>':
s.append(line[0:-1]) try:
line = next(i) while line[0]!='>':
s.append(line[0:-1])
line = next(i)
except StopIteration:
pass
sequence = "".join(s) sequence = "".join(s)
quality = None quality = None
@ -42,5 +47,6 @@ def fastaIterator(lineiterator, int buffersize=100000000):
"annotation" : {} "annotation" : {}
} }