GitLab

and in Slice to make more consistant.

-'Flatening' FeaturePair object so that it no longer contains 2 SeqFeatures; It is now isa SeqFeature with some additional Hit attributes (object still bhaves as if it contained two features
-Adding 'fast' constructors to DnaDnaAlignFeatures and PepDnaAlignFeatures
-Some other minor tweaks such as using bind columns instead of fetchrow_hashref

    fetch_by_contig_id(int) -> fetch_by_Contig(RawContig)
  store(int, list of Features) -> store(list of Features with attached contigs)

DBAdaptor now allows for attached EST database

Moved generic FeatureAdaptor functions from BaseAlignFeatureAdaptor to BaseFeatureAdaptor, SimpleFeatureAdaptor and AlignFeatureAdaptor now extend BaseFeatureAdaptor

updated ProteinAlignFeatureAdaptor DnaAlignFeatureAdaptor to extend new BaseAlignFeatureAdaptor thereby eliminating quite a few lines of duplicated code