[Bioc-devel] graph package conflict with rtracklayer
MEC at stowers.org
Fri Jun 10 21:56:41 CEST 2011
Michael & Robert,
If I load the graph package prior to rtracklayer, import.bed generates an error and fails. It otherwise succeeds if I don't load the graph package.
It happens both with rtracklayer from svn and production.
In a fresh session:
Loading required package: RCurl
Loading required package: bitops
> b <- import.bed('my.bed')
Error in function (classes, fdef, mtable) :
unable to find an inherited method for function "import.ucsc", for signature "file"
R version 2.13.0 (2011-04-13)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)
attached base packages:
 stats graphics grDevices utils datasets methods base
other attached packages:
 rtracklayer_1.13.3 RCurl_1.5-0 bitops_1.0-4.1 graph_1.30.0
loaded via a namespace (and not attached):
 BSgenome_1.20.0 Biostrings_2.20.1 GenomicRanges_1.4.6
 IRanges_1.10.4 XML_3.4-0 tools_2.13.0
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