[R-SIG-Mac] Re: Compiling Analyze FMRI

stefano iacus jago at mclink.it
Fri Feb 6 22:58:25 MET 2004 

 From inside the AnalyzeFMRI package: by copying the code of LSAME from  
src/sblas.unused in the file src/slapack.f fixes the problem and R is  
happy with this.

I don't know yet a better solution.

stefano


On Feb 6, 2004, at 8:38 PM, Benjamin Jacobson wrote:

> I am still having the same issues compiling this AnalyzeFMRI library.   
> I created a clean install of both the R-devel.dmg and from a  
> successful build from source of the Jan312004 build of R-devel.  In  
> both cases similar error messages were generated when executing  
> library (AnalyzeFMRI) after a successful install.  Below is the output  
> from one of these attempts.  I am compiling on a G4 installed with  
> both the most updated versions of Panther and Xtools.  Thanks for your  
> time.
>
>
> Ben Jacobson
>
>
> * Installing *source* package 'AnalyzeFMRI' ...
> creating cache ./config.cache
> checking for sgesdd_ in -llapack... no
> could not find SGESVD in your LAPACK library, using our routines
> updating cache ./config.cache
> creating ./config.status
> creating src/Makevars
> ** libs
> gcc -no-cpp-precomp  
> -I/Library/Frameworks/R.framework/Versions/1.9.0/Resources/include   
> -I/usr/local/include  -Wall -pedantic -fno-common  -g -O2 -c  
> analyzeFMRI.c -o analyzeFMRI.o
> g77   -fno-common  -g -O2 -c slapack.f -o slapack.o
> gcc -bundle -flat_namespace -undefined suppress -L/usr/local/lib -o  
> AnalyzeFMRI.so analyzeFMRI.o slapack.o -framework vecLib  
> -L/usr/local/lib -L/usr/local/lib/gcc/powerpc-apple-darwin7.0.0/3.4  
> -L/usr/local/lib/gcc/powerpc-apple-darwin7.0.0/3.4/../../.. -lfrtbegin  
> -lg2c -lgcc_s -lSystem  -L/usr/local/lib  
> -L/usr/local/lib/gcc/powerpc-apple-darwin7.0.0/3.4  
> -L/usr/local/lib/gcc/powerpc-apple-darwin7.0.0/3.4/../../.. -lfrtbegin  
> -lg2c -lgcc_s -lSystem -lcc_dynamic  
> -L/Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin -lR
> ld: warning multiple definitions of symbol _ilaenv_
> slapack.o definition of _ilaenv_ in section (__TEXT,__text)
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/ 
> vecLib.framework/Versions/A/libBLAS.dylib(single module) definition of  
> _ilaenv_
> ld: warning multiple definitions of symbol _xerbla_
> analyzeFMRI.o definition of _xerbla_ in section (__TEXT,__text)
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/ 
> vecLib.framework/Versions/A/libBLAS.dylib(single module) definition of  
> _xerbla_
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(print.lo) definition of _xerbla_
> ld: warning multiple definitions of symbol _crc32
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(crc32.o) definition of _crc32
> /usr/lib/libz.1.dylib(crc32.o) definition of _crc32
> ld: warning multiple definitions of symbol _get_crc_table
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(crc32.o) definition of _get_crc_table
> /usr/lib/libz.1.dylib(crc32.o) definition of _get_crc_table
> ld: warning multiple definitions of symbol _deflate
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(deflate.o) definition of _deflate
> /usr/lib/libz.1.dylib(deflate.o) definition of _deflate
> ld: warning multiple definitions of symbol _deflateCopy
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(deflate.o) definition of _deflateCopy
> /usr/lib/libz.1.dylib(deflate.o) definition of _deflateCopy
> ld: warning multiple definitions of symbol _deflateReset
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(deflate.o) definition of _deflateReset
> /usr/lib/libz.1.dylib(deflate.o) definition of _deflateReset
> ld: warning multiple definitions of symbol _deflateSetDictionary
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(deflate.o) definition of _deflateSetDictionary
> /usr/lib/libz.1.dylib(deflate.o) definition of _deflateSetDictionary
> ld: warning multiple definitions of symbol _deflateInit2_
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(deflate.o) definition of _deflateInit2_
> /usr/lib/libz.1.dylib(deflate.o) definition of _deflateInit2_
> ld: warning multiple definitions of symbol _deflateEnd
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(deflate.o) definition of _deflateEnd
> /usr/lib/libz.1.dylib(deflate.o) definition of _deflateEnd
> ld: warning multiple definitions of symbol _deflateParams
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(deflate.o) definition of _deflateParams
> /usr/lib/libz.1.dylib(deflate.o) definition of _deflateParams
> ld: warning multiple definitions of symbol _deflateInit_
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(deflate.o) definition of _deflateInit_
> /usr/lib/libz.1.dylib(deflate.o) definition of _deflateInit_
> ld: warning multiple definitions of symbol _zError
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(zutil.o) definition of _zError
> /usr/lib/libz.1.dylib(zutil.o) definition of _zError
> ld: warning multiple definitions of symbol _zlibVersion
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(zutil.o) definition of _zlibVersion
> /usr/lib/libz.1.dylib(zutil.o) definition of _zlibVersion
> ld: warning multiple definitions of symbol _inflateEnd
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(inflate.o) definition of _inflateEnd
> /usr/lib/libz.1.dylib(inflate.o) definition of _inflateEnd
> ld: warning multiple definitions of symbol _inflateSync
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(inflate.o) definition of _inflateSync
> /usr/lib/libz.1.dylib(inflate.o) definition of _inflateSync
> ld: warning multiple definitions of symbol _inflateSyncPoint
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(inflate.o) definition of _inflateSyncPoint
> /usr/lib/libz.1.dylib(inflate.o) definition of _inflateSyncPoint
> ld: warning multiple definitions of symbol _inflate
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(inflate.o) definition of _inflate
> /usr/lib/libz.1.dylib(inflate.o) definition of _inflate
> ld: warning multiple definitions of symbol _inflateSetDictionary
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(inflate.o) definition of _inflateSetDictionary
> /usr/lib/libz.1.dylib(inflate.o) definition of _inflateSetDictionary
> ld: warning multiple definitions of symbol _inflateInit2_
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(inflate.o) definition of _inflateInit2_
> /usr/lib/libz.1.dylib(inflate.o) definition of _inflateInit2_
> ld: warning multiple definitions of symbol _inflateReset
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(inflate.o) definition of _inflateReset
> /usr/lib/libz.1.dylib(inflate.o) definition of _inflateReset
> ld: warning multiple definitions of symbol _inflateInit_
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(inflate.o) definition of _inflateInit_
> /usr/lib/libz.1.dylib(inflate.o) definition of _inflateInit_
> ld: warning multiple definitions of symbol _adler32
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(adler32.o) definition of _adler32
> /usr/lib/libz.1.dylib(adler32.o) definition of _adler32
> ld: warning multiple definitions of symbol _BC
> /usr/local/lib/libreadline.4.3.dylib(terminal.so) definition of _BC
> /usr/lib/libncurses.5.dylib(lib_termcap.o) definition of _BC
> ld: warning multiple definitions of symbol _UP
> /usr/local/lib/libreadline.4.3.dylib(terminal.so) definition of _UP
> /usr/lib/libncurses.5.dylib(lib_termcap.o) definition of _UP
> ld: warning multiple definitions of symbol _PC
> /usr/local/lib/libreadline.4.3.dylib(terminal.so) definition of _PC
> /usr/lib/libncurses.5.dylib(lib_tputs.o) definition of _PC
> ld: warning multiple definitions of symbol _gzeof
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzeof
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzeof
> ld: warning multiple definitions of symbol _gzclose
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzclose
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzclose
> ld: warning multiple definitions of symbol _gzdopen
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzdopen
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzdopen
> ld: warning multiple definitions of symbol _gzerror
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzerror
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzerror
> ld: warning multiple definitions of symbol _gzflush
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzflush
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzflush
> ld: warning multiple definitions of symbol _gzgetc
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzgetc
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzgetc
> ld: warning multiple definitions of symbol _gzgets
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzgets
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzgets
> ld: warning multiple definitions of symbol _gzopen
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzopen
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzopen
> ld: warning multiple definitions of symbol _gzprintf
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzprintf
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzprintf
> ld: warning multiple definitions of symbol _gzputc
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzputc
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzputc
> ld: warning multiple definitions of symbol _gzputs
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzputs
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzputs
> ld: warning multiple definitions of symbol _gzread
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzread
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzread
> ld: warning multiple definitions of symbol _gzrewind
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzrewind
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzrewind
> ld: warning multiple definitions of symbol _gzseek
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzseek
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzseek
> ld: warning multiple definitions of symbol _gzsetparams
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzsetparams
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzsetparams
> ld: warning multiple definitions of symbol _gztell
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gztell
> /usr/lib/libz.1.dylib(gzio.o) definition of _gztell
> ld: warning multiple definitions of symbol _gzwrite
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/ 
> libR.dylib(gzio.o) definition of _gzwrite
> /usr/lib/libz.1.dylib(gzio.o) definition of _gzwrite
> ** R
> ** inst
> ** help
>  >>> Building/Updating help pages for package 'AnalyzeFMRI'
>      Formats: text html latex example
>   f.analyze.file.summary            text    html    latex   example
>   f.analyzeIO.gui                   text    html    latex
>   f.basic.hdr.list.create           text    html    latex   example
>   f.ica.fmri                        text    html    latex
>   f.ica.fmri.gui                    text    html    latex
>   f.plot.ica.fmri                   text    html    latex
>   f.plot.ica.fmri.jpg               text    html    latex
>   f.read.analyze.header             text    html    latex   example
>   f.read.analyze.slice              text    html    latex   example
>   f.read.analyze.slice.at.all.timep text    html    latex   example
>   f.read.analyze.tpt                text    html    latex   example
>   f.read.analyze.ts                 text    html    latex   example
>   f.read.analyze.volume             text    html    latex   example
>   f.spectral.summary                text    html    latex
>   f.write.analyze                   text    html    latex   example
>   f.write.array.to.img.2bytes       text    html    latex
>   f.write.array.to.img.8bit         text    html    latex
>   f.write.array.to.img.float        text    html    latex
>   f.write.list.to.hdr               text    html    latex   example
> * DONE (AnalyzeFMRI)
>
> Delete downloaded files (y/N)? y
>
> > library (AnalyzeFMRI)
> Error in dyn.load(x, as.logical(local), as.logical(now)) :
>         unable to load shared library  
> "/Library/Frameworks/R.framework/Versions/1.9.0/Resources/library/ 
> AnalyzeFMRI/libs/AnalyzeFMRI.so":
>   dlcompat: dyld:  
> /Library/Frameworks/R.framework/Versions/1.9.0/Resources/bin/R.bin  
> Undefined symbols:
> _lsame_
> Error in library(AnalyzeFMRI) : .First.lib failed
>
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac at stat.math.ethz.ch
> https://www.stat.math.ethz.ch/mailman/listinfo/r-sig-mac
>

More information about the R-SIG-Mac mailing list