From nashjc at uottawa.ca  Sun Jan 18 15:56:14 2015
From: nashjc at uottawa.ca (Prof J C Nash (U30A))
Date: Sun, 18 Jan 2015 09:56:14 -0500
Subject: [Rd] Help finding source of warnings
In-Reply-To: <21691.49844.36425.520348@fangorn.hornik.net>
References: <54BBBD1E.5040808@uottawa.ca>
	<21691.49844.36425.520348@fangorn.hornik.net>
Message-ID: <54BBC98E.3090308@uottawa.ca>

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 
warnings.

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
>
>> ______________________________________________
>> R-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-devel



[Rd] Help finding source of warnings
Prof J C Nash (U30A