On Monday 12 July 2010 11:07:23 lI wrote: > On Monday 12 July 2010 10:29:30 lI wrote: > > Greetings, > > > > I have a computer with the following setup: > > 1)cblfs (pure 64-bit (amd64) linux), kernel2.6.34 gcc4.4.2 > > 2)R-2.11.1 > > > > I compiled R with BLAS and lapack using the switched ( --with-blas="- > > lpthread -latlas -lfptf77blas" > > --with-lapack="-llapack -lcblas" ). > > (( http://cran.r-project.org/doc/manuals/R-admin.html#Linear-algebra) ) > > > > Prior to compiling R-2.11.1 > > sh conigure --help gave options including the following > > SHLIB_LD command for linking shared libraries > > which contain object files from a C or Fortran compiler > > only SHLIB_LDFLAGS special flags used by SHLIB_LD > > SHLIB_CXXLDFLAGS special flags used by SHLIB_CXXLD > > SHLIB_FCD command for linking shared libraries which contain object > > files from the Fortran 95 compiler > > SHLIB_FCLDFLAGS special flags used by SHLIB_FCLD > > > > > > I did not know what to set for these and accepted whatever the defaults > > were. I ended up with shared-libraries which are as follows:- > > > > $R_HOME/lib/{libRblas.so,libRlapack.so } i.e. with the prefix 'lib' > > and the following shared-libraries without the 'lib' prefix. > > > > $R_HOME/modules/{R_X11.so,internet.so,lapack.so,vfonts.so } > > $R_HOME/library/cluster/libs/cluster.so > > $R_HOME/library/foreign/libs/foreign.so > > $R_HOME/library/grDevices/libs/grDevices.so > > $R_HOME/library/grid/libs/grid.so > > $R_HOME/library/KernSmooth/libs/KernSmooth.so > > $R_HOME/library/lattice/libs/lattice.so > > $R_HOME/library/MASS/libs/MASS.so > > $R_HOME/library/Matrix/libs/Matrix.so > > $R_HOME/library/methods/libs/methods.so > > $R_HOME/library/mgcv/libs/mgcv.so > > $R_HOME/library/nlme/libs/nlme.so > > $R_HOME/library/nnet/libs/nnet.so > > $R_HOME/library/rpart/libs/rpart.so > > $R_HOME/library/spatial/libs/spatial.so > > $R_HOME/library/splines/libs/splines.so > > $R_HOME/library/stats/libs/stats.so > > $R_HOME/library/survival/libs/survival.so > > $R_HOME/library/tools/libs/tools.so > > > > > > In linux builds the linker usually looks for libs with the 'lib' > > prefix. In this installation all the libraries > > ---in $R_HOME/modules > > ---in $R_HOME/library/patha/to/whatevr > > > > do not have the 'lib' prefix. > > > > QUESTION: > > A) does any on list know SHLIB_LD SHLIB_LDFLAGS SHLIB_CXXLDFLAGS > > SHLIB_FCD SHLIB_FCLDFLAGS settings for compiling R and do these > > result in so libs with the 'lib' prefix? > > B) If all of A) is negative what is there to be done to to enable > > generation libraries in $R_HOME/modules $R_HOME/library/~ with the > > 'lib' prefix? > > I forgot to add my configure/make options. These were:- > ######################## > export BUILD64="-m64" > sh configure \ > CC="gcc $BUILD64" \ > CXX="g++ $BUILD64" \ > F77="gfortran $BUILD64" \ > FC="gfortran $BUILD64" \ > JAVA_HOME=$JAVA_HOME \ > LIBnn=lib64 \ > CPPFLAGS="-I$ATLAS_HOME/include -I/opt/acml4.4.0/gfortran64_mp/include - > I/opt/acml4.4.0/gfortran64/include -I/usr/local/numerics/include" \ > LDFLAGS="-L$ATLAS_HOME/lib -L/opt/acml4.4.0/gfortran64_mp/lib - > L/usr/local/numerics/lib -L/usr/lib" \ > --prefix=/opt/TEST/R-2.11.1 \ > --x-includes=$XORG_PREFIX/include \ > --x-libraries=$XORG_PREFIX/lib \ > --with-tcl-config=/usr/lib \ > --with-tk-config=/usr/lib \ > --with-system-zlib=/usr \ > --with-system-bzlib=/usr \ > --with-system-pcre=/usr \ > --with-x \ > --with-libpth-prefix=/usr \ > --with-libintl-prefix=/usr \ > --with-blas="-lpthread -latlas -lfptf77blas" \ > --with-lapack="-llapack -lcblas" \ > --enable-R-shlib \ > --enable-BLAS-shlib > ################ > > The sources compiled trouble-free. with 'make' as normal user. > I then ran 'make install' as super-user and int installed in the prefix > as set.. > > A reply to the following questions would be much appreciateed:- > QUESTION: > A) does any on list know SHLIB_LD SHLIB_LDFLAGS SHLIB_CXXLDFLAGS > SHLIB_FCD SHLIB_FCLDFLAGS settings for compiling R and do these > result in so libs with the 'lib' prefix? > B) If all of A) is negative what is there to be done to enable > generation of shared-libraries in $R_HOME/modules/ and > $R_HOME/library/~ directories/sub-directories with the 'lib' prefix? > > thanks everyone for the help in clarifying what were share-libraries and otherwise.
As stated above I used two switches --enable-R-shlib \ --enable-BLAS-shlib in the configure options of the downloaded R-2.11.1 source prior to compilation. I am compiling R-2.11.1 as an optional dependency of kdeedu-4.4.5. This asks for R-shlib )which I noticed it is disable by the default in the configure script.) After compile and install of R-2.11.1, I am only able to start R from the command line when I move the generated libRblas.so to libRblas.soDUFF and symlink libacml.so to libRblas.so and update $R_HOME/etc/ldpaths accordingly. I am unable to start R with the compiled-in $R_HOME/libR.so and $R_HOME/libRblas.so. QUESTIONS: A) How does one start R with the the generated libR.so and libRblas.so? B) is the generated libR.so interchangable with libRblas.so (i.e. R library without blas enhanced algebra capabilities?) advice welcomed ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
