[Biojava-dev] [Bug 2175] New: IndexOutOfBoundsException still occurring on SCF.create(File file)

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2175

           Summary: IndexOutOfBoundsException still occurring on
                    SCF.create(File file)
           Product: BioJava
           Version: live (CVS source)
          Platform: PC
        OS/Version: Windows XP
            Status: NEW
          Severity: blocker
          Priority: P1
         Component: bio
        AssignedTo: biojava-dev at biojava.org
        ReportedBy: cristyn at broad.mit.edu


SCF.create(File file) is still broken. I'm using the 1.5-beta2 download. Here
is the stacktrace:

ava.lang.IndexOutOfBoundsException
        at java.io.FileInputStream.readBytes(Native Method)
        at java.io.FileInputStream.read(FileInputStream.java:199)
        at java.io.DataInputStream.read(DataInputStream.java:132)
        at org.biojava.bio.program.scf.SCF$Parser.parsePrivate(SCF.java:391)
        at org.biojava.bio.program.scf.SCF$Parser.parse(SCF.java:349)
        at org.biojava.bio.program.scf.SCF$ParserFactory.parse(SCF.java:202)
        at org.biojava.bio.program.scf.SCF.load(SCF.java:145)
        at org.biojava.bio.program.scf.SCF.load(SCF.java:140)
        at org.biojava.bio.program.scf.SCF.create(SCF.java:126)


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