[Rd] Help finding source of warnings

Prof J C Nash (U30A) nashjc at uottawa.ca
Sun Jan 18 15:56:14 CET 2015

Kurt pointed to the issue. Thanks. I did install r-recommended, but it 
seems something went wrong at some point. A reinstall got rid of the 

Thanks to Dirk for his offer of help.

Now I'm still getting a namespace issue on the second run of an 
optimization problem. However, I think I need to do some more digging to 
narrow down where this issue is lurking. It may be some local matter, as 
with the r-recommended links failing.

Best, JN

On 15-01-18 09:27 AM, Kurt Hornik wrote:
>>>>>> Prof J C Nash (U30A) writes:
>> I've been implementing a wrapper to the 2011 Fortran version of
>> L-BFGS-B. In optim(), R uses a C translation of a Fortran version (the
>> version number does not appear to be documented by the original
>> authors). The authors of the original Fortran code have updated it and
>> published the reasons in ACM TOMS due to inefficiencies and a bug.
>> In running the checks on the resulting package (which is on R-forge
>> under the optimizer project), I'm getting a number of warning messages
>> of the type
>> Warning in file.copy(file.path(.Library, pkg, "DESCRIPTION"), pd) :
>>     problem copying /usr/lib/R/library/mgcv/DESCRIPTION to
>> /tmp/Rtmp0kkeHo/RLIBS_1214765d1c5f/mgcv/DESCRIPTION: No such file or
>> directory
>> which reference DESCRIPTIONs for a number of packages other than the one
>> being checked -- here mgcv -- and which are not referenced in my package
>> as far as I can determine.
>> Possibly unrelated, when I run the code on a problem, it works for one
>> run, then gives a NAMESPACE error and failure on the second try. Apart
>> from this, checks and unit tests appear to work correctly.
>> Does anyone have pointers where I might find some ideas on the origin of
>> the issue(s)? I suspect the warning messages are not particularly
>> indicative of the source of the warnings, but that I have some subtle
>> glitch in the setup and call to the Fortran.
>> I suspect this is not platform dependent, but I'm running Linux Mint
>> 17.1 (ubuntu derivative), and  R 3.1.2.
> John: maybe you did not install the recommended packages?
> (On Debian, the corresponding package would be r-recommended.)
> Best
> -k
>> Cheers, JN
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