[InterMine Dev] bioseg error message
matthew at flymine.org
Tue Nov 24 16:41:35 GMT 2009
On Tue, 24 Nov 2009, Vallejos, Andrew wrote:
> I know I have raised this question before. But I have run into the
> similar problem with InterMine requiring BioSeg. According to the
> documentation BioSeg is considered optional, but in my experience I have
> never gotten a successful build without first installing BioSeg.
In general operation in the InterMine system, bioseg is optional, and the
system will work around the missing functionality, albeit with drastically
reduced performance. However, there are a couple of postprocess steps
(OverlapViewTask and BiosegIndexTask) which will fail if bioseg is not
present. These postprocess steps can be left out, but this will result in
the LocatedSequenceFeature.overlappingFeatures collection being incorrect
It is perhaps more accurate to say the bioseg is optional for InterMine,
but essential for biology-related InterMine. Perhaps we should update our
documentation to reflect that.
Riker: Our memory pathways have become accustomed to your sensory input.
Data: I understand - I'm fond of you too, Commander. And you too Counsellor
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