[Biojava-l] serializing a SimpleSequence? "NoSuchFieldException: DEFAULT"

[Schreiber, Mark]

Hi -

I have checked in the change, thanks for spotting it. There doesn't seem
to be anything in SubArraySymbolList that needs to be transient so I
think that adding the Serialization tag was all that was needed.

If you notice other problems let me know. This has been a weak area of
biojava for too long :(

- Mark


> -----Original Message-----
> From: Paul Shannon [mailto:pshannon@systemsbiology.org] 
> Sent: Wednesday, 10 July 2002 12:29 p.m.
> To: Schreiber, Mark
> Cc: biojava-l@biojava.org
> Subject: Re: [Biojava-l] serializing a SimpleSequence? 
> "NoSuchFieldException: DEFAULT"
> 
> 
> Hi Mark,
> 
> Thanks for the speedy reply!
> 
> I did as you suggested (I believe) and just build the latest 
> biojava from CVS.  Things are better, I think but still not 
> quite right.  Here is the exception thrown by the latest 
> version of biojava:
> 
>    Exception in thread "main" 
> java.io.NotSerializableException: 
> org.biojava.bio.seq.io.SubArraySymbolList
> 
> So I slipped an "implements Serializable" into the class 
> defintion and now it works fine.  
> 
> Shall I see if I have the privileges to check this change in? 
>   Or is that
> best left to those who know the code better (and can mull 
> over the wisdom of my quick code change)?
> 
>  - Paul
> 
>   > What version of biojava are you using. You may need to 
> 'upgrade' to the
>   > biojava-live version. There has been some not 
> insignificant issues with
>   > serialization in biojava. We managed to nail a lot of 
> them at the last
>   > bootcamp and I'm pretty sure that serializing a sequence 
> works ok know.
>   > 
>   > Take a look at SeqSerializationTest.java in the tests 
> directory of the
>   > CVS tree. The test sequence does have features and this 
> test seems to
>   > work for me now so possibly you have an older version 
> (which definitely
>   > didn't work).
>   > 
> 
> 
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