I've no idea what binary format that file is in - it contains some very strange characters. It appears to contain _some_ ANSI data but with extra binary bits added to the start and end. I think you need to check the program that generated the file as it is obviously not doing what it is supposed to.
Your best bet is to convert the file to ANSI or some other format understood out-of-the-box by Java. cheers, Richard On Fri, 2006-04-28 at 11:09 +0200, Ilhami Visne wrote: > 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. > > _______________________________________________ > Biojava-l mailing list - [email protected] > http://lists.open-bio.org/mailman/listinfo/biojava-l > -- Richard Holland (BioMart Team) EMBL-EBI Wellcome Trust Genome Campus Hinxton Cambridge CB10 1SD UNITED KINGDOM Tel: +44-(0)1223-494416 _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
