Great, thanks for updating. I legitimately wanted to use %in%, not %over%. Michael
On Wed, Nov 6, 2013 at 10:59 AM, Hervé Pagès <hpa...@fhcrc.org> wrote: > Hi Michael, > > > On 11/05/2013 04:30 PM, Michael Lawrence wrote: > >> I'm getting a little tired of this one popping up: >> >> In x %in% other : >> Starting with BioC 2.12, the behavior of %in% on GenomicRanges objects >> has changed to use *equality* instead of *overlap* for comparing >> elements between GenomicRanges objects 'x' and 'table'. Now 'x[i]' and >> 'table[j]' are considered to match when they are equal (i.e. 'x[i] == >> table[j]'), instead of when they overlap. This new behavior is >> consistent >> with base::`%in%`(). If you need the old behavior, please use: >> >> query %over% subject >> >> Now that even release is Bioc 2.13, can we remove it? And there might be >> others. >> > > If you use %over% you don't get the warning ;-) > > Anyway this is gone in BioC 2.14 as part of the normal process of > removing features that were defunct in BioC 2.13. > > Cheers, > H. > > > >> Thanks, >> Michael >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> >> > -- > Hervé Pagès > > Program in Computational Biology > Division of Public Health Sciences > Fred Hutchinson Cancer Research Center > 1100 Fairview Ave. N, M1-B514 > P.O. Box 19024 > Seattle, WA 98109-1024 > > E-mail: hpa...@fhcrc.org > Phone: (206) 667-5791 > Fax: (206) 667-1319 > [[alternative HTML version deleted]]
_______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
