[R-SIG-Mac] Trouble compiling Rcpp from source

[Adam D. I. Kramer]

Simon,

 	Many thanks, as always! It was actually a bit trickier since I run R
as root and then install.packages(). So this is what I needed:

sudo PKG_LIBS=-L/sw/lib R

...and then I could install.packages("Rcpp").

...I'm sure you knew that, but I'm in favor of posting solutions to mailing
lists. Additional replies inline.

On Tue, 29 Jun 2010, Simon Urbanek wrote:

> Adam,
>
> the correct way to specify custom linking flags is via PKG_LIBS so try that (more comments inline).
>
> Cheers,
> Simon
>
>
> On Jun 29, 2010, at 5:42 PM, Adam D. I. Kramer wrote:
>
>> Hi,
>>
>> 	I tried to install the source version of Rcpp under 64-bit R 2.11.1,
>> which I had compiled myself under OS 10.6.4.  The install.packages() run
>> failed, however, with this error:
>>
>> g++ -arch x86_64 -o libRcpp.dylib Date.o DateVector.o Datetime.o
>> DatetimeVector.o Dimension.o DottedPair.o Environment.o Evaluator.o
>> Formula.o Function.o Language.o Module.o Pairlist.o Promise.o RObject.o
>> RcppCommon.o RcppDate.o RcppDateVector.o RcppDatetime.o RcppDatetimeVector.o
>> RcppFrame.o RcppFunction.o RcppList.o RcppNumList.o RcppParams.o
>> RcppResultSet.o RcppStringVector.o RcppStringVectorView.o S4.o Symbol.o
>> WeakReference.o coerce.o debugging.o exceptions.o posixt.o r_cast.o
>> -dynamiclib -Wl,-headerpad_max_install_names  -undefined dynamic_lookup
>> -single_module -multiply_defined suppress    -lintl -Wl,-framework
>> -Wl,CoreFoundation
>> ld: library not found for -lintl
>> collect2: ld returned 1 exit status
>> make: *** [libRcpp] Error 1
>> ERROR: compilation failed for package 'Rcpp'
>> * removing '/usr/local/lib/R/library/Rcpp'
>>
>> ...libintl could not be found. Well, shoot--I have that. It's in /sw/lib.
>> So, I tried setting LDFLAGS, I tried setting
>> --configure-vars="LDFLAGS=-L/sw/lib", I tried setting configure-args the
>> same way, I added /sw/lib to my LD_LIBRARY_PATH environment
>> variable...pretty much everything, but when I install.packages() the above
>> command does not change even though it is clearly linking.
>>
>
> That is clear - LD_LIBRARY_PATH has no effect on OS X and the package has
> no configure script so there is no point in trying to set configure-vars
> ;).

Yep, this is just an instance of me trying everything I could think of.

>> I would also note that LDFLAGS=-L/sw/lib is actually included in my call to
>> ./configure when building R in the first place...
>
> Your'e asking for trouble with that. Although it is unrelated to your
> issue if you have fink setup R's configure will pick it up automatically
> so better stick to that.

I compile R myself, I don't use fink for it. But yes, my setup is
nonstandard.

>> so my hand-compiled version of R should well know where to look for libraries.
>>
>> So my question to the list: Is there some specific way to make R pass the
>> correct flags to the compiler in this case?  I can't figure one out.
>
> It is well documented in R-exts section 1.2.1.

To be clear, I'm trying to _install_ an extension, not write one. :) That is
why I could not find this result, most likely.

> Just for completeness (not related to your case), packages with configure
> scripts should respect the usual autoconf settings such as CFLAGS, LIBS
> etc.  and pass them to Makevars as PKG_LIBS etc., but there are some that
> are badly written and don't.

Right. Rcpp is using "Makevars" and not a configure script, and is required
for lme4a, which I'm just dying to try out...that's dying for other reasons,
but I'll probably ask on the R-sig-mixed-effects list before coming back
here.

Thanks again,
Adam

>> (I also note that if I download the source, unarchive it, and tweak the
>> makefile to hard-code -L/sw/lib into the path, the package installs just
>> fine and works...so the problem is in how install.packages() is working.)
>>
>> So, could someone please explain to me how to get R CMD INSTALL or
>> install.packages() on OSX to add linker flags that I would like to
>> specify?  Or if this is a problem with R in general, or a problem with
>> Rcpp in general, please kindly let me know.  I doubt that I am the only
>> person having this trouble.
>>
>> Cordially,
>> Adam Kramer
>>
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>>
>>
>
>