[Bioperl-l] Bio::Map changes

[Sendu Bala]

Sendu Bala wrote:
> The next step is to tidy up all of Bio::Map*, which involves a major 
> reimplementation of the whole system [...]
> The reimplementation will make Position central to the model, allowing 
> for lots of other things to work properly without anything becoming 
> inconsistent (as is currently the case).

This is now done. It uses a new PositionHandler class behind the scenes.

The next step is to introduce relative positioning across the board, 
possibly in a way that makes OrderedPosition redundant or an implementer 
of the system.

Has anyone here ever used Bio::Map* modules for anything? I would 
appreciate you sending me your code, especially if you've used MapIO, 
Physical (encompassing Clone, Contig, FPCMarker, 
OrderedPositionWithDistance) or LinkageMap (encompassing 
LinkagePosition, OrderedPosition, Microsatellite) since these have 
insufficient tests at the moment.