[Fixed it with everyone's help and learned something useful along the way.
Here's how I worked it out, mainly for my records. Bryan]
Alright, let me try to pull some ideas from the different answers together
here. When I did:
install.packages("rgl", repos = "http://r-forge.r-project.org/";, type =
"source", configure.args = "--no-cocoa")
because rgl has it's own configure script, it detected that I am on x86_64 and
did not install the i386 version. For building my own package I'd like to use
both arch's and so when I tried to build it, it saw there were no i386
resources and stopped. I think this much is right (please correct me if not).
This is the main problem.
Now, after reading R-inst, I thought the solution would be to do this:
install.packages("rgl", repos = "http://r-forge.r-project.org/";, type =
"source", configure.args = c("--no-cocoa", "--arch=i386", "--libs-only"))
But that does not work, it does not recognize any of the configure.args (tried
each separately). I was thinking this might be because rgl's configure script
overrode these. So, using Rob's idea, I moved to one of the tempdirs of these
unsuccessful installations, and tried it from the command line:
R CMD INSTALL --libs-only rgl_0.93.924.tar.gz
but this doesn't give me the needed framework either, probably still
auto-detecting the arch. After several variations and re-reading R-inst,
R --arch=i386 CMD INSTALL --libs-only rgl_0.93.924.tar.gz
worked, in which I discovered that the flags have to be in the right place (!).
In particular, --arch must be with R and not CMD. I'm sure I knew this once.
Thanks for all your patience and help. I seem to be running. Bryan
On Feb 5, 2013, at 11:09 AM, Prof Brian Ripley <[email protected]> wrote:
> On 05/02/2013 16:07, Bryan Hanson wrote:
>> Thanks, I'll try that in a short while. But I'm still not sure exactly sure
>> how this issue arose, I only work with the 64 bit version (or so I thought).
>> Bryan
>
> But the R you installed from CRAN is biarch and hence tries to install
> packages for both i386 and x86_64. If you only want 64-bit packages, use R
> CMD INSTALL --no-multiarch.
>
>>
>> On Feb 5, 2013, at 11:01 AM, Prof Brian Ripley <[email protected]> wrote:
>>
>>> On 05/02/2013 15:56, Bryan Hanson wrote:
>>>> Is that something I can control? I've never had to worry about that
>>>> before, never run into it. Clearly I'm near the edge of my expertise.
>>>> Thanks, Bryan
>>>
>>> See the --merge-multiarch argument to INSTALL, or 'Writing R Extensions'.
>>>
>>> Since rgl has a configure script, you only installed it for x64_64.
>>>
>>>> On Feb 5, 2013, at 10:53 AM, Robert J Goedman <[email protected]> wrote:
>>>>
>>>>> Bryan,
>>>>>
>>>>> It looks like it's mixing packages compiled for 32 and 64 bit.
>>>>>
>>>>> Regards,
>>>>> Rob J. Goedman
>>>>> [email protected]
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> On Feb 5, 2013, at 7:46 AM, Bryan Hanson <[email protected]> wrote:
>>>>>
>>>>>> Thanks Rob, that's a very good trick to know.
>>>>>>
>>>>>> Duncan's suggestion about using configure.args="--disable-cocoa" worked
>>>>>> for me - I have an rgl installation that works interactively. Now
>>>>>> however, when I try to install a source package that uses rgl, I get the
>>>>>> following (also sent to Duncan separately). Does this ring any bells?
>>>>>> I'm not sure what the install process is doing with dependent packages
>>>>>> that is different, but obviously it doesn't like something. Thank you.
>>>>>> Bryan
>>>>>>
>>>>>> * installing *source* package ‘ChemoSpec’ ...
>>>>>> ** R
>>>>>> ** data
>>>>>> ** inst
>>>>>> ** byte-compile and prepare package for lazy loading
>>>>>> Warning: replacing previous import ‘panel.lines’ when loading ‘lattice’
>>>>>> ** help
>>>>>> *** installing help indices
>>>>>> ** building package indices
>>>>>> ** installing vignettes
>>>>>> ‘ChemoSpec.Rnw’
>>>>>> ** testing if installed package can be loaded
>>>>>> *** arch - i386
>>>>>> ********
>>>>>> ******** Loading Bryan's .Rprofile
>>>>>> ********
>>>>>> Loading required package: brew
>>>>>> ********
>>>>>> ******** Completed Bryan's .Rprofile GET TO WORK!
>>>>>> ********
>>>>>> Warning: replacing previous import ‘panel.lines’ when loading ‘lattice’
>>>>>> Error : .onLoad failed in loadNamespace() for 'rgl', details:
>>>>>> call: library.dynam(dll, pkg, lib.loc = lib)
>>>>>> error: shared object ‘rgl.so’ not found
>>>>>> Error: loading failed
>>>>>> Execution halted
>>>>>> *** arch - x86_64
>>>>>> ********
>>>>>> ******** Loading Bryan's .Rprofile
>>>>>> ********
>>>>>> Loading required package: brew
>>>>>> ********
>>>>>> ******** Completed Bryan's .Rprofile GET TO WORK!
>>>>>> ********
>>>>>> Warning: replacing previous import ‘panel.lines’ when loading ‘lattice’
>>>>>> ERROR: loading failed for ‘i386’
>>>>>> * removing ‘/Users/bryanhanson/Library/R/3.0/library/ChemoSpec’
>>>>>> * restoring previous ‘/Users/bryanhanson/Library/R/3.0/library/ChemoSpec’
>>>>>>
>>>>>>
>>>>>> On Feb 5, 2013, at 10:35 AM, Robert J Goedman <[email protected]> wrote:
>>>>>>
>>>>>>> Bryan,
>>>>>>>
>>>>>>> I've seen that issue a couple of times as well. Trying to install rgl
>>>>>>> 0.93.934 from R-Forge using R.app, I get (in the R.app console):
>>>>>>>
>>>>>>> ...
>>>>>>> mv AGL/* .
>>>>>>> MAKINGAGL=TRUE /Library/Frameworks/R.framework/Resources/bin/R CMD
>>>>>>> SHLIB -o aglrgl.so *.cpp *.c \
>>>>>>> osx/*.mm osx/*.cpp
>>>>>>> mv: rename AGL/* to ./*: No such file or directory
>>>>>>> make: [aglrgl.so] Error 1 (ignored)
>>>>>>> g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include
>>>>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG
>>>>>>> -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/usr/local/include -g -O2 -fPIC
>>>>>>> -g -O2 -c x11gui.cpp -o x11gui.o
>>>>>>> g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include
>>>>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG
>>>>>>> -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/usr/local/include -g -O2 -fPIC
>>>>>>> -g -O2 -c x11lib.cpp -o x11lib.o
>>>>>>> g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include
>>>>>>> -I/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG
>>>>>>> -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/usr/local/include -fPIC -c
>>>>>>> osx/osxgui.mm -o osx/osxgui.o
>>>>>>> osx/osxgui.mm:9:2: error: #error Cocoa backend reguires FreeType font
>>>>>>> reneder
>>>>>>> make[1]: *** [osx/osxgui.o] Error 1
>>>>>>> make: *** [aglrgl.so] Error 1
>>>>>>>
>>>>>>> The downloaded source packages are in
>>>>>>>
>>>>>>> ‘/private/var/folders/fl/jchvcqm92rd7bjh6hzkd1cqc0000gn/T/RtmpgyhrHG/downloaded_packages’
>>>>>>> ERROR: compilation failed for package ‘rgl’
>>>>>>> * removing ‘/Users/rob/Library/R/3.0/library/rgl’
>>>>>>> * restoring previous ‘/Users/rob/Library/R/3.0/library/rgl’
>>>>>>>>
>>>>>>>
>>>>>>> On my system the following trick works. Make sure to keep a copy of the
>>>>>>> RGL package you want to install (typically the version is in the
>>>>>>> directory containing the downloaded packages, as printed at the end of
>>>>>>> the install process in the R.app console). Notice that these are
>>>>>>> removed if you quit R.app! So just keep R.app running.
>>>>>>>
>>>>>>> I then use, in a terminal window:
>>>>>>>
>>>>>>> cd
>>>>>>> /private/var/folders/fl/jchvcqm92rd7bjh6hzkd1cqc0000gn/T/RtmpgyhrHG/downloaded_packages
>>>>>>> R_ARCH=/X86_64 R CMD INSTALL rgl_0.93.924.tar.gz
>>>>>>>
>>>>>>> Towards the end of the build/install I get:
>>>>>>>
>>>>>>> ...
>>>>>>> installing to /Users/rob/Library/R/3.0/library/rgl/libs/X86_64
>>>>>>> ** R
>>>>>>> ** demo
>>>>>>> ** inst
>>>>>>> ** preparing package for lazy loading
>>>>>>> ** help
>>>>>>> *** installing help indices
>>>>>>> ** building package indices
>>>>>>> ** testing if installed package can be loaded
>>>>>>> Warning in rgl.init(initValue) : RGL: unable to open X11 display
>>>>>>> Warning in fun(libname, pkgname) : error in rgl_init
>>>>>>>
>>>>>>> * DONE (rgl)
>>>>>>>
>>>>>>> These last 2 warning messages only show up if XQuartz.app is not
>>>>>>> running.
>>>>>>>
>>>>>>> Testing in R.app:
>>>>>>>
>>>>>>> library(rgl)
>>>>>>> demo(rgl)
>>>>>>>
>>>>>>> works (at least on my system!).
>>>>>>>
>>>>>>> Regards,
>>>>>>> Rob J. Goedman
>>>>>>> [email protected]
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> On Feb 5, 2013, at 5:25 AM, Duncan Murdoch <[email protected]>
>>>>>>> wrote:
>>>>>>>
>>>>>>>> On 13-02-05 8:07 AM, Bryan Hanson wrote:
>>>>>>>>> Thanks for taking the time to look at this carefully Duncan. I don't
>>>>>>>>> see the warning you mention, and I don't see the string R_pretty0 in
>>>>>>>>> the log either. I'm appending right here in case there is something
>>>>>>>>> else you want to look at. I restarted my computer but the result is
>>>>>>>>> the same. I'm on OSX OS X 10.8.2 (12C60). Thanks, Bryan
>>>>>>>>
>>>>>>>> Okay, now you're getting a different error than you described before.
>>>>>>>> This one I think you can fix: you need Freetype, and rgl needs to be
>>>>>>>> able to find it when you do the install. Normally it does that using
>>>>>>>> the freetype-config utility, but you're not finding that:
>>>>>>>>
>>>>>>>> [deletions]
>>>>>>>>> checking for freetype-config... no
>>>>>>>>
>>>>>>>> I thought (from online readings) that Freetype should be available in
>>>>>>>> a standard OSX install, so I'm not sure why it's not working for you.
>>>>>>>> You can disable the Cocoa (native) support by configuring with the
>>>>>>>> configure option
>>>>>>>>
>>>>>>>> install.packages("rgl", ..., configure.args="--disable-cocoa")
>>>>>>>>
>>>>>>>> and then you should be able to get the install to complete, but it
>>>>>>>> might be better to figure out why freetype-config isn't working for
>>>>>>>> you.
>>>>>>>>
>>>>>>>> Duncan Murdoch
>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>>> R-SIG-Mac mailing list
>>>>>>>> [email protected]
>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>>>>>>
>>>>>>
>>>>>
>>>>
>>>>
>>>> [[alternative HTML version deleted]]
>>>>
>>>>
>>>>
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>>>
>>>
>>> --
>>> Brian D. Ripley, [email protected]
>>> Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
>>> University of Oxford, Tel: +44 1865 272861 (self)
>>> 1 South Parks Road, +44 1865 272866 (PA)
>>> Oxford OX1 3TG, UK Fax: +44 1865 272595
>>>
>>> _______________________________________________
>>> R-SIG-Mac mailing list
>>> [email protected]
>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>
>
>
> --
> Brian D. Ripley, [email protected]
> Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
> University of Oxford, Tel: +44 1865 272861 (self)
> 1 South Parks Road, +44 1865 272866 (PA)
> Oxford OX1 3TG, UK Fax: +44 1865 272595
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