[Biojava-l] Serialization of SequenceDB obtained from Swiss-Prot

Schreiber, Mark mark.schreiber at agresearch.co.nz
Tue Nov 18 15:14:48 EST 2003

Hi -

I'm not sure serializing an entire SequenceDB is a good idea, however, can you tell me if the serialization is failing on the DB or one of the sequences in it?

- Mark

> -----Original Message-----
> From: Vasa Curcin [mailto:vc100 at doc.ic.ac.uk] 
> Sent: Tuesday, 18 November 2003 11:28 p.m.
> To: biojava-l at biojava.org
> Subject: [Biojava-l] Serialization of SequenceDB obtained 
> from Swiss-Prot
> Hello,
> There seems to be some problem with serializing SequenceDB objects 
> obtained from SwissProtDatabase. The error is:
> java.io.WriteAbortedException: writing aborted; java.io.NotSeria
> lizableException: 
> org.biojava.bio.seq.io.SequenceBuilderBase$TemplateWithChildre
> n
>         at 
> java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1278)
>         at 
> java.io.ObjectInputStream.readObject(ObjectInputStream.java:324)
>         at java.util.HashSet.readObject(HashSet.java:272)
>         at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
>         at 
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.
> I am using Biojava 1.30, with Mark's patches from a few weeks back. 
> Anyone has an idea?
> Regards,
> Vasa
> _______________________________________________
> Biojava-l mailing list  -  Biojava-l at biojava.org 
> http://biojava.org/mailman/listinfo/biojava-l
Attention: The information contained in this message and/or attachments
from AgResearch Limited is intended only for the persons or entities
to which it is addressed and may contain confidential and/or privileged
material. Any review, retransmission, dissemination or other use of, or
taking of any action in reliance upon, this information by persons or
entities other than the intended recipients is prohibited by AgResearch
Limited. If you have received this message in error, please notify the
sender immediately.

More information about the Biojava-l mailing list