compiling R devel on vanilla tiger
I am not too worried about the Aqua GUI: basically, one needs access to the development version of R when working with the development version of Bioconductor. The entire exercise is an attempt to make a devel version of R while retaining an installation of stable R with R.app and all that jazz. I want this to be relatively easy because several others need to do this as well, so that was why I refrained from installing tcltk. I am not really using these gui packages myself (but I sometimes need to install them to satisfy dependencies), perhaps I need to rethink this approach. Kasper
On Aug 25, 2005, at 11:28 AM, Jan de Leeuw wrote:
Of course now you have R with AquaTcl, your Tcl/Tk based packages will not work from the Aqua GUI, and packages such as tkrplot will not work at all. On Aug 25, 2005, at 11:17 , Kasper Daniel Hansen wrote:
On Aug 24, 2005, at 4:43 PM, Simon Urbanek wrote:
On Aug 24, 2005, at 4:58 PM, Kasper Daniel Hansen wrote:
On Aug 24, 2005, at 11:09 AM, Simon Urbanek wrote:
I just repeat what I've said here already: unless you desperately need 64-bit R there is no real benefit from using gcc4, because it's still very instable (gfortran segfaults even on simple examples) and unreliable (gfortran is even slower than g77). There is a good reason why the CRAN build uses gcc3 and g77.
That was a nice clear statement. So given that I want to compile R from source (because I need the devel version), without too much hassle I should use gcc 3.3 supplied by Xcode 2.1. But what do I do with respect to the Fortran compiler?
CRAN installer package of R comes with g77 3.4 which is recommended. You can install it even separately from the R binary (preferably using sudo installer ... because there is a bug in the package that doesn't allow non-admins to install it - c.f. the list). That version is tested to work with the gcc3 that cones with Xcode 2.x. If you plan to compile R from sources you may also want to run sudo gcc_select 3.3 to prevent having problems with cc_dynamic.
How close should the versions match? Should I get - gcc 3.3.6 (latest version of the 3.3 branch) from Gnu's website - gcc 3.4.4 from Gnu's website - gcc 3.4 from the hpc.sourceforge website
It doesn't really matter as long as it is >=3.3 and <=3.9 except that it should use static Fortran libraries if possible (unfortunately the more recent ones don't).
It works!
So here is what I did:
1) Downloaded the most recent (binary) version of R from cran and
mounted the disk image.
2) installed the g77 compiler from the package by
sudo installer -pkg /Volumes/R-2.1.1/Packages/g77.pkg -target /
(if you just want to check the package information, do
installer -pkg /Volumes/R-2.1.1/Packages/g77.pkg -pkginfo
)
3) compiled R using the flags
./configure --with-aqua \
--with-blas='-framework vecLib' --with-lapack \
--with-tcl-config=/Library/Frameworks/Tcl.framework/tclConfig.sh \
--with-tk-config=/Library/Frameworks/Tk.framework/tkConfig.sh \
R_PAPERSIZE=letter \
F77=g77 \
TCLTK_LIBS='-framework Tcl -framework Tk' \
TCLTK_CPPFLAGS='-I/Library/Frameworks/Tcl.framework/Headers
-I/Library/Frameworks/Tk.frameworks/Headers'
(bad linebreak because of the mail program in the two last lines)
Thanks a lot!
Kasper
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Und die Einen sind im Dunkeln
Und die Andern sind im Licht
Doch man sieht nur die im Lichte
Die im Dunkeln sieht man
nicht (Brecht)
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