Thanks Simon to pick this up.
Adam, FWIW Rcpp has its own mailing list:
http://lists.r-forge.r-project.org/mailman/listinfo/rcpp-devel
50% of the development team works on OSX ;-)
Romain
Le 30/06/10 05:05, Adam D. I. Kramer a écrit :
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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Romain Francois
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http://romainfrancois.blog.free.fr
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