This problem is now resolved in the biojava1.3 branch, Features are serializing nicely
and still behaiving like features at the end of it all.
I'm still working on a solution in biojava-live which involves delving into the bowels
of the ontology Term implementations to find out why they won't deserialize. Some
problem with a HashSet throwing a wobbly when it calls hashcode() on Term$Impl and
getting a null pointer exception which shouldn't be possible as far as I can tell.
Matthew, do you know what might be going on? Might need to write a ReadObject method
for Term$Impl to hold its hand but hopefull not.
- Mark
-----Original Message-----
From: Schreiber, Mark
Sent: Tue 28/10/2003 3:40 p.m.
To: Vasa Curcin; [EMAIL PROTECTED]
Cc:
Subject: RE: [Biojava-l] Serialization of SimpleSequences
Hi -
I thought we had fixed that one although it turns out the unit test was a bit
inadequate. Generally its not a good idea to make an interface implement serializable
as there may be a perfectly valid implementation that can't implement serializable.
Probably better to make as many of the implementations as possible serializable. I'll
have a look at this.
- Mark
-----Original Message-----
From: Vasa Curcin [mailto:[EMAIL PROTECTED]
Sent: Tue 28/10/2003 2:06 p.m.
To: [EMAIL PROTECTED]
Cc:
Subject: [Biojava-l] Serialization of SimpleSequences
Hello,
While transferring some sequences via serialization, I noticed that all
my Features are getting lost. After some digging around, it seems as if
Java doesn't serialize the FeatureHolder inside the sequence (I was
working with SimpleSequence objects). Even though a
NotSerializableException is not thrown, the FeatureHolder is missing.
After making the FeatureHolder interface in Biojava extend
Serializable,
the problem disappeared. How much will this change affect the rest of
the code - ie. is there a good reason why FeatureHolders are not
serializable?
Cheers,
Vasa
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