[Biojava-l] SCF Chromatogram Read Error

[mark.schreiber at novartis.com]

Hi Kikia -

This might be a bug. To be sure we need more details. Please submit a bug 
report to http://bugzilla.open-bio.org/ (under biojava) with as much 
detail as possible.

Try and include some sample code so we can recreate the error.

Best regards,

- Mark

Mark Schreiber
Research Investigator (Bioinformatics)

Novartis Institute for Tropical Diseases (NITD)
10 Biopolis Road
#05-01 Chromos
Singapore 138670
www.nitd.novartis.com

phone +65 6722 2973
fax  +65 6722 2910





"Kikia Carter" <k_stellar at msn.com>
Sent by: biojava-l-bounces at lists.open-bio.org
07/12/2006 05:43 AM

 
        To:     biojava-l at biojava.org
        cc:     (bcc: Mark Schreiber/GP/Novartis)
        Subject:        [Biojava-l] SCF Chromatogram Read Error


I am having the following problem when trying to create a chromatogram 
from 
an SCF file:
java.lang.IndexOutOfBoundsException
                 at java.io.FileInputStream.readBytes(Native Method)
                 at java.io.FileInputStream.read(FileInputStream.java:194)
                 at java.io.DataInputStream.read(DataInputStream.java:224)
                 at 
org.biojava.bio.program.scf.SCF$Parser.parsePrivate(SCF.java:348)
                 at 
org.biojava.bio.program.scf.SCF$Parser.parse(SCF.java:313)
                 at 
org.biojava.bio.program.scf.SCF$ParserFactory.parse(SCF.java:176)
                 at org.biojava.bio.program.scf.SCF.load(SCF.java:122)
                 at org.biojava.bio.program.scf.SCF.load(SCF.java:117)
                 at org.biojava.bio.program.scf.SCF.create(SCF.java:104)
                 at 
org.biojava.bio.chromatogram.ChromatogramFactory.create(ChromatogramFactory.java:75)

Can anyone offer advice on this problem? Thanks in advance!

_________________________________________________________________
FREE pop-up blocking with the new MSN Toolbar ? get it now! 
http://toolbar.msn.click-url.com/go/onm00200415ave/direct/01/

_______________________________________________
Biojava-l mailing list  -  Biojava-l at lists.open-bio.org
http://lists.open-bio.org/mailman/listinfo/biojava-l