Join GitHub today
GitHub is home to over 31 million developers working together to host and review code, manage projects, and build software together.Sign up
GFF3Tabix gets really slow if there is a "whole chromosome feature" #1076
This issue is sort of particular to NCBI gff, which will probably have a "region" feature that covers the whole chromosome. If you load this into a GFF3Tabix track then this results in extensive refetching to get the whole chromosome data and makes it too slow.
It would be pretty good to avoid refetching for the region feature using some sort of filter mechansim (could be configurable or just assume type=region does not have subfeatures and hence does not require refetching)
Maybe something like this? It allows configurable dontRedispatch to be a comma separated list of types (similar to the subParts config) so you can set dontRedispatch=region in config