[Biojava-l] Reading a fasta file which is not encoded in ansi
Ilhami Visne
ilhami.visne at gmail.com
Fri Apr 28 09:09:56 UTC 2006
i got a file in fasta format, which is not encoded in ansi. but it seems ok.
it can be downloaded here: http://stud3.tuwien.ac.at/~e0125935/try3.fasta
i tried to read it with SeqIOTools.readFastaDNA and this exception was
thrown:
org.biojava.bio.BioException: Could not read sequence
at org.biojava.bio.seq.io.StreamReader.nextSequence(StreamReader.java
:104)
..............
..............
Caused by: java.io.IOException: Stream does not appear to contain FASTA
formatted data: ÿþ>
org.biojava.bio.seq.io.FastaFormat.readSequence(FastaFormat.java:112)
at org.biojava.bio.seq.io.StreamReader.nextSequence(StreamReader.java:101)
"ÿþ>" there is no row like this but it seems it is hidden.
How should i handle such files?
thax in advance.
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