[R-pkg-devel] ERROR from R CMD check that I have never seen before

[Richard M. Heiberger]

followup.

I backed up to R-3.1.2 and fixed the problems it found.
Then I tried again with R-3.2.0 and I am still getting these messages

Error in validObject(.Object) :
  invalid class "ObjectsWithPackage" object: superclass "atomicVector"
not defined in the environment of the object's class
Calls: <Anonymous> ... metaNameUndo -> new -> initialize -> initialize
-> validObject
Execution halted

On Fri, May 22, 2015 at 8:08 PM, Richard M. Heiberger <rmh at temple.edu> wrote:
> I am updating the HH package and have series of messages that I don't recognize.
>
> bash-3.2$ R CMD check HH2
> * using log directory '/Users/rmh/WindowsC/HOME/rmh/HH-R.package/HH2.Rcheck'
> * using R Under development (unstable) (2015-02-12 r67812)
> * using platform: x86_64-apple-darwin13.4.0 (64-bit)
> * using session charset: ASCII
> * checking for file 'HH2/DESCRIPTION' ... OK
> * checking extension type ... Package
> * this is package 'HH' version '3.1-17'
> * checking package namespace information ... OK
> * checking package dependencies ... OK
> * checking if this is a source package ... OK
> * checking if there is a namespace ... OK
> * checking for executable files ... OK
> * checking for hidden files and directories ... NOTE
> Found the following hidden files and directories:
>   .DS_Store
>   inst/.DS_Store
> These were most likely included in error. See section 'Package
> structure' in the 'Writing R Extensions' manual.
> * checking for portable file names ... OK
> * checking for sufficient/correct file permissions ... OK
> * checking whether package 'HH' can be installed ... OK
> * checking installed package size ... OK
> * checking package directory ... OK
> * checking DESCRIPTION meta-information ... OK
> * checking top-level files ... OK
> * checking for left-over files ... OK
> * checking index information ... OK
> * checking package subdirectories ... OK
> * checking R files for non-ASCII characters ... OK
> * checking R files for syntax errors ... OK
> * checking whether the package can be loaded ... OK
> * checking whether the package can be loaded with stated dependencies ... OK
> * checking whether the package can be unloaded cleanly ... OK
> * checking whether the namespace can be loaded with stated dependencies ... OK
> * checking whether the namespace can be unloaded cleanly ... OK
> * checking dependencies in R code ... NOTE
> Error in validObject(.Object) :
>   invalid class "ObjectsWithPackage" object: superclass "atomicVector"
> not defined in the environment of the object's class
> Execution halted
>
> I have two questions about it.
> 1. What is it checking?  There are no words in the message that
> indicate which of my
> functions is being looked at.
>
> I am getting 6 of these.  They are all identically worded.  sometimes they are
> NOTE ERROR WARNING
>
> Thanks
> Rich
>
> 2. How can I run R CMD check, or its components, in a way that will stop and
> let me investigate from the point?  I am looking for the equivalent of
> the R option
> option(error=recover)