[R-pkg-devel] Strange error from CRAN on package submission

[Duncan Murdoch]

Okay, I've tried testing on my Mac with R 4.0.3 and R-devel for the new 
one, 4.0.3 for the CRAN version.

I'm not seeing any check error with the CRAN version.  I get an error 
trying to check 0.11.4 from R-forge because I don't have flexmix 
installed.  If I take flexmix out of the Suggests list, it checks with 
no error on 4.0.3, but I get the error you saw on R-devel when checked 
with --as-cran.

I tried debugging this, and narrowed it down a bit.  It happens when 
your package is installed, in particular in the do_install_source() 
function in src/library/tools/R/install.R.  But that function runs a new 
R instance, and I didn't get to debugging that.  I'll try again later 
today if nobody else figures it out.

Duncan Murdoch




On 11/11/2020 12:03 p.m., Kevin R. Coombes wrote:
> Hi Duncan,
> 
> Oops; I didn't realize I had forgotten to push updates to the OOMPA web
> site.
> 
> The code for Mercator is contained as part of the Thresher project in
> the subversion repository on R-Forge.
> (https://r-forge.r-project.org/projects/thresher/) It's under
> pkg/Mercator below that URL
> 
> Thanks,
>     Kevin
> 
> On 11/11/2020 11:30 AM, Duncan Murdoch wrote:
>> Uwe suggested you suggest flexmix, but I see below you already tried
>> that.
>>
>> I'd like to take a look, but I can't find your package.  The existing
>> version on CRAN gives the URL as http://oompa.r-forge.r-project.org/,
>> but I can't see it mentioned there.
>>
>> Duncan Murdoch
>>
>> On 11/11/2020 8:44 a.m., Kevin R. Coombes wrote:
>>> Hi,
>>>
>>> I am trying to figure out how to fix warnings from two of the CRAN
>>> machines on the submission of an update to a package. The only change to
>>> my package was to add a "show" method to one of the S4 classes, which
>>> was requested by a reviewer of the paper we submitted. The inability to
>>> get this updated package into CRAN  is the only thing holding up the
>>> revision (and probable acceptance) of the manuscript.
>>>
>>> The same "warnings"s were found in the previous version. The package is
>>> called Mercator, and the CRAN check results from the  last version
>>> are here:
>>> https://cran.r-project.org/web/checks/check_results_Mercator.html
>>>
>>> I get warnings from the two fedora machine instances (clang and gcc).
>>> They both report
>>>
>>>> Check: whether package can be installed.
>>>> Result: WARN
>>>>        Found the following significant  warnings:
>>>>        Warning: namespace ‘flexmix’ is  not available and has been
>>>> replaced
>>>    >
>>>    > Check: data for non-ASCII characters
>>>> Result: WARN
>>>>         Warning: namespace 'flexmix'  is not available and has been
>>>> replaced
>>>>         by .GlobalEnv when processing  object '<unknown>'
>>>
>>> The relationships in the DESCRIPTION files are:
>>>
>>> 1. Mercator depends on Thresher
>>> 2. Thresher imports moVMF
>>> 3. moMVF suggests flexmix
>>>
>>> On my Windows machine, the package builds and installs with no errors or
>>> warnings even if flexmix is not available (which I believe to be the
>>> correct behavior). On R-Forge, both the Windows and LINUX versions build
>>> and install with no errors or warnings. On R-Hub, tested on multiple
>>> LINUX versions, the package builds and installs with no errors or
>>> warnings.
>>>
>>> And flexmix is still clearly available from CRAN:
>>>      https://cran.r-project.org/web/packages/flexmix/index.html
>>>
>>> In the latest attempt to get things to work, I added
>>>      Suggests: flexmix
>>> into the DESCRIPTION file for Mercator, but this didn't help fix the
>>> problem on CRAN.
>>>
>>> Is there anything I can do to fix this problem (other than moan here on
>>> this list and hope that CRAN can just install flexmix on those
>>> machines)?
>>>
>>> Thanks in advance for your help,
>>>      Kevin
>>>
>>>      [[alternative HTML version deleted]]
>>>
>>> ______________________________________________
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>>> https://stat.ethz.ch/mailman/listinfo/r-package-devel
>>>
>>
>