[Bioc-devel] build report repeating the same error

[Shepherd, Lori]

Next time try to add a little more frame of reference (ie.  I've submitted my package brainImageR and the tracker build report is showing ERROR)


I cloned your repository and took a quick peak -

You are using roxygen2 to make your man files


So It looks like you updated the documentation in the Comp.R  but never ran the document() function to have the man file update and also be pushed to github.  The man file example still has the original code that is a table not numeric.





Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Sara Linker <slinker using salk.edu>
Sent: Wednesday, May 30, 2018 10:43:37 AM
To: bioc-devel using r-project.org
Subject: [Bioc-devel] build report repeating the same error

Hi at bioc-devel,

I�ve tried a few times now to update the error reported in the build report. I�ve pushed the fix to GitHub and bumped the version number, but the same error message keeps coming back. Does anyone know how to fix this? I feel like a reboot of some kind is needed.

ERROR MESSAGE:


> ### ** Examples
>
> comp <- methods::new(Class="Comp",
+ tissueExp1 = c(10,12),
+ tissueExp2 =  table(c(rep("A",5), rep("B",5))),
+ composite = matrix(0,nrow=10,ncol=10),
+ random.matrix = data.frame(matrix(0,nrow=10,ncol=10)),
+ refset = "developing"
+ )
Error in validObject(.Object) :
  invalid class "Comp" object: invalid object for slot "tissueExp2" in class "Comp": got class "table", should be or extend class "numeric"
Calls: <Anonymous> -> initialize -> initialize -> validObject
Execution halted

BUT I�ve fixed this and my current code (on GitHub) now reads�
#' @examples
#' comp <- methods::new(Class="Comp",
#' tissueExp1 = c(10,12),
#' tissueExp2 =  c(10,13),
#' composite = matrix(0,nrow=10,ncol=10),
#' random.matrix = data.frame(matrix(0,nrow=10,ncol=10)),
#' refset = "developing"
#' )

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