[R-SIG-Mac] [R] compiling gap on mac os x

[Kenny Ye]

Hi, any help is greatly appreciated.

Prof Brian Ripley wrote:

> Isn't this the age-old story of the MacOS X Fortran compiler not fully 
> supporting compilation for dynamic libraries?  Looks like the same
> sort of problem it has with LAPACK code.  You could try rewriting the 
> code to avoid DATA statements.
>
> Asking MacOS-specific questions on the r-sig-mac is a better idea than 
> using a general list.
>
> On Thu, 23 Jun 2005, Kenny Ye wrote:
>
>> Hi, I am having trouble compiling package gap
>> http://www.hgmp.mrc.ac.uk/~jzhao/r-progs.htm on Tiger. I have installed
>> XcodeTools 2.1. The binary version of gap currently available on CRAN
>> has some bug and is fixed in the latest version.
>>
>> The message I get from R is below. Any help is greatly appreciated.
>>
>> best regards,
>>
>> Kenny Ye
>>
>> tar: Read 1536 bytes from -
>> * Installing *source* package 'gap' ...
>> ** libs
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c 2k.c -o 2k.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c 2ld.c -o 2ld.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c cline.c -o cline.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c gc.c -o gc.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c gcontrol.c -o gcontrol.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c gif.c -o gif.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c hap.c -o hap.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c hwe.hardy.c -o hwe.hardy.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c kin.morgan.c -o 
>> kin.morgan.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c makeped.c -o makeped.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c mia.c -o mia.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c muvar.c -o muvar.o
>> g77   -fno-common  -g -O2 -c pfc.f -o pfc.o
>> g77   -fno-common  -g -O2 -c pfc.sim.f -o pfc.sim.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c pgc.c -o pgc.o
>> gcc-3.3 -no-cpp-precomp
>> -I/Library/Frameworks/R.framework/Resources/include
>> -I/usr/local/include   -fno-common  -g -O2 -c whscore.c -o whscore.o
>> gcc-3.3 -bundle -flat_namespace -undefined suppress -L/usr/local/lib -o
>> gap.so 2k.o 2ld.o cline.o gc.o gcontrol.o gif.o hap.o hwe.hardy.o
>> kin.morgan.o makeped.o mia.o muvar.o pfc.o pfc.sim.o pgc.o whscore.o
>> -L/usr/local/lib/gcc/powerpc-apple-darwin6.8/3.4.2 -lg2c -lSystem
>> -framework R
>> ** Removing
>> '/Library/Frameworks/R.framework/Versions/2.1.0/Resources/library/gap'
>>    npackage installation failed
>> ld: warning multiple definitions of symbol _i1mach_
>> pfc.sim.o definition of _i1mach_ in section (__TEXT,__text)
>> /Library/Frameworks/R.framework/R(i1mach.lo) definition of _i1mach_
>> ld: 2ld.o has external relocation entries in non-writable section
>> (__TEXT,__text) for symbols:
>> restFP
>> saveFP
>> make: *** [gap.so] Error 1
>> ERROR: compilation failed for package 'gap'
>> ** Restoring previous
>> '/Library/Frameworks/R.framework/Versions/2.1.0/Resources/library/gap'
>> ** Removing
>> '/Library/Frameworks/R.framework/Versions/2.1.0/Resources/library/pathmix' 
>>
>> ** Removing
>> '/Library/Frameworks/R.framework/Versions/2.1.0/Resources/library/pointer' 
>>
>>
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