add dummy "extractROWS" method for RangedData objects

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/IRanges@80448 bc3139a8-67e5-0310-9ffc-ced21a209358
merge Hector's better fix for the memory leak


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/IRanges@80449 bc3139a8-67e5-0310-9ffc-ced21a209358
subsetListByList now carries over the metadata() when 'x' is a CompressedList


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/IRanges@80497 bc3139a8-67e5-0310-9ffc-ced21a209358
Fix long-standing issue in "unlist" method for CompressedList objects:

  unlist( , use.names=FALSE) on a CompressedSplitDataFrameList object now
  preserves the rownames of the list elements, which is more consistent with
  what unlist() does on other CompressedList objects.


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/IRanges@80502 bc3139a8-67e5-0310-9ffc-ced21a209358
Fix "length" method for IntervalForest objects: needs to return
length(x@partitioning), not nobj(x@partitioning).


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/IRanges@80623 bc3139a8-67e5-0310-9ffc-ced21a209358
Add validation of length() and names() of Vector objects.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/IRanges@80624 bc3139a8-67e5-0310-9ffc-ced21a209358
Fix bug in findOverlaps(); query with zero-width range no longer registers as a hit.


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/IRanges@80659 bc3139a8-67e5-0310-9ffc-ced21a209358
Merge branch 'local-hedgehog'

Conflicts:
	DESCRIPTION
	src/IntervalTree.c