Any package in the devel branch have an implicit dependency on R-devel, which is why everyone always tells you to use biocLite to install packages.
Now, I am aware that for some packages this is not necessarily true, but only the package author(s) can reliably tell you whether that is the case. As a minimum I routinely expect that any package that really uses the internals of R - and especially the core sequencing packages - has a strong dependence on R-devel. Kasper On Tue, Sep 14, 2010 at 8:00 PM, Dario Strbenac <[email protected]> wrote: > Hello, > > I've installed the development versions of IRanges - 1.7.34 - and > GenomicRanges - 1.1.25 - and now the copying and pasting of the constructing > a GenomicRangesList example in the Reference Manual doesn't work. Is there an > implicit dependency on R 2.12 maybe ? > >> gr1 <- > + GRanges(seqnames = "chr2", ranges = IRanges(3, 6), > + strand = "+", score = 5L, GC = 0.45) > Error in which(lengths == 0L) : > could not find symbol "useNames" in environment of the generic function >> gr2 <- > + GRanges(seqnames = c("chr1", "chr1"), > + ranges = IRanges(c(7,13), width = 3), > + strand = c("+", "-"), score = 3:4, GC = c(0.3, 0.5)) > Error in which(lengths == 0L) : > could not find symbol "useNames" in environment of the generic function >> gr3 <- > + GRanges(seqnames = c("chr1", "chr2"), > + ranges = IRanges(c(1, 4), c(3, 9)), > + strand = c("-", "-"), score = c(6L, 2L), GC = c(0.4, 0.1)) > Error in which(lengths == 0L) : > could not find symbol "useNames" in environment of the generic function > >> sessionInfo() > R version 2.11.1 (2010-05-31) > x86_64-pc-mingw32 > ... ... ... > > -------------------------------------- > Dario Strbenac > Research Assistant > Cancer Epigenetics > Garvan Institute of Medical Research > Darlinghurst NSW 2010 > Australia > > _______________________________________________ > Bioc-sig-sequencing mailing list > [email protected] > https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing > _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
