[Bioc-devel] Unexpected Warning About Cross-Reference Without Package Specification

[Martin Morgan]

On 05/11/2018 01:00 AM, Dario Strbenac wrote:
> Good day,
> 
> I have documented a parameter that is linked to lmFit's documentation.
> 
> \item{...}{Optional settings that are passed to \code{\link{lmFit}}.}
> 
> The package checking process displays a warning.
> 
> * checking Rd cross-references ... WARNING
> Missing link or links in documentation object 'limmaSelection.Rd':
>    ‘lmFit’
> 
> If I add [limma] to the cross-reference, the link is resolved.
> 
> * checking Rd cross-references ... OK
> 
> Why is the package specification not optional in this scenario? I am using the latest release of R.

I would guess that limma is not in the Depends: or Imports: fields of 
your package. Maybe you can point to your package source code or reduced 
package example for more help?

Martin

> 
> * using R version 3.5.0 (2018-04-23)
> * using platform: x86_64-pc-linux-gnu (64-bit)
> * using session charset: UTF-8
> 
> --------------------------------------
> Dario Strbenac
> University of Sydney
> Camperdown NSW 2050
> Australia
> 
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