[Bioc-devel] [Rd] Error on executing functions from installed package

Hi Kamal,

The "rbind" method for SummarizedExperiment objects is defined in the
GenomicRanges package:

   > library(GenomicRanges)
   > selectMethod("rbind", "SummarizedExperiment")
   Method Definition:

   function (..., deparse.level = 1)
   {
     args <- unname(list(...))
     .rbind.SummarizedExperiment(args)
   }
   <environment: namespace:GenomicRanges>

   Signatures:
         ...
   target  "SummarizedExperiment"
   defined "SummarizedExperiment"

And the rbind() generic is defined in the BiocGenerics package:

   > rbind
   standardGeneric for "rbind" defined from package "BiocGenerics"

   function (..., deparse.level = 1)
   standardGeneric("rbind")
   <environment: 0x1f0b8b0>
   Methods may be defined for arguments: ...
   Use  showMethods("rbind")  for currently available ones.

So your package needs to import at least the rbind() generic from
BiocGenerics + I think the method from GenomicRanges:

   importFrom(BiocGenerics, rbind)
   importMethodsFrom(GenomicRanges, rbind)

I would highly recommend that you actually import *all* the generics
from BiocGenerics:

   import(BiocGenerics)
   importMethodsFrom(GenomicRanges, rbind)

You also need to put BiocGenerics and GenomicRanges in the Depends field
of your DESCRIPTION file (yes Depends, not Imports -- you can also put
it in both even though some people might try to argue against this).

Please let us know if that still doesn't solve the problem.

Cheers,
H.