[Bioc-devel] problem in building package GSAR

[Wolfgang Huber]

Dear Yasir
Did you actually upload the source code of these new function to the subversion server?
I get, right now

huber at boltzmann:~/madman/Rpacks/GSAR/R$ svn info .
…
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GSAR/R
Revision: 119920
…

"grep AggrF  *” in that directory does not yield any results. 
"grep radial *” finds radial_ranking but not radial.ranking
etc.

	Wolfgang

> On Aug 6, 2016, at 0:34 GMT+2, Rahmatallah, Yasir <YRahmatallah at uams.edu> wrote:
> 
> Hi,
> 
> I recently added 6 more functions to package GSAR. I added the R files and manual pages for the new functions. I updated the namespace file accordingly. I can build the package successfully on my windows PC and 'R CMD check' returns no errors or warnings. I can install the package and it works fine on my PC. I use svn to update the development version (current development version is 1.7.2). The last update returned the following error
> 
> ** testing if installed package can be loaded
> Error in namespaceExport(ns, exports) :
>  undefined exports: AggrFtest, radial.ranking, MDtest, RMDtest, findMST2.PPI, TestGeneSets
> Error: loading failed
> 
> The undefined exports are the 6 new functions I added to the package. It's like they are declared in the namespace file but they don't exist elsewhere. Any idea what causes this error? Help is appreciated. The contents of the namespace file are shown below:
> 
> export(
>      AggrFtest,
>      HDP.ranking,
>      radial.ranking,
>      WWtest,
>      KStest,
>      MDtest,
>      RKStest,
>      RMDtest,
>      GSNCAtest,
>      findMST2,
>      findMST2.PPI,
>      plotMST2.pathway,
>      TestGeneSets
>      )
> 
> import(igraph)
> importFrom("stats", "cor", "dist", "sd", "var.test", "p.adjust")
> importFrom("graphics", "legend", "mtext", "par", "plot", "title")
> 
> Thank you,
> Yasir
> 
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Wolfgang

Wolfgang Huber
Principal Investigator, EMBL Senior Scientist
Genome Biology Unit
European Molecular Biology Laboratory (EMBL)
Heidelberg, Germany

wolfgang.huber at embl.de
http://www.huber.embl.de