Dear Brian, I am sorry for the confusion - I was trying everything and so the mix-nmatch. My bad.
Thank you for your help though. Your suggestion worked and I now have gstat installed. Have not used it yet, but at least the library loaded fine. Cheers! Raphael. On 29/10/2014 8:33 pm, "Prof Brian Ripley" <[email protected]> wrote: >Come on, that's not the error you posted about a few minutes ago. > >This time you are using the wrong build of xts, one built for Snow >Leopard it seems using an earlier version of gfortran. > >You need to use either the Snow Leopard or Mavericks CRAN distribution >of R, and install all your packages under just that build. You cannot >mix-n-match. > > >On 29/10/2014 09:12, [email protected] wrote: >> Hello >> >> I am wondering if anyone else is having problems installing gstat in R >> 3.1.1 on yosemite (and also mavericks)? >> >> I looked for similar problems on the web but found very little on this. >> >> I also installed XCODE and then tried installing form source but then >> other errors. >> >> sessionInfo and errors below. >> >> HelpŠ. please? >> >> Raphael. >> >> >>> sessionInfo() >> R version 3.1.1 (2014-07-10) >> Platform: x86_64-apple-darwin13.1.0 (64-bit) >> >> locale: >> [1] en_AU.UTF-8/en_AU.UTF-8/en_AU.UTF-8/C/en_AU.UTF-8/en_AU.UTF-8 >> >> attached base packages: >> [1] stats graphics grDevices utils datasets methods base >> >> loaded via a namespace (and not attached): >> [1] tools_3.1.1 >> >> >> ##### BEFORE INSTALLING XCODE >> >>> install.packages('gstat',type="source", repos='http://cran.csiro.au/') >> Installing package into Œ/Users/vis010/Library/R/3.1/library¹ >> (as Œlib¹ is unspecified) >> trying URL 'http://cran.csiro.au/src/contrib/gstat_1.0-19.tar.gz' >> Content type 'application/x-gzip' length 2045717 bytes (2.0 Mb) >> opened URL >> ================================================== >> downloaded 2.0 Mb >> >> * installing *source* package Œgstat¹ ... >> ** package Œgstat¹ successfully unpacked and MD5 sums checked >> creating cache ./config.cache >> checking for gcc... gcc >> checking whether the C compiler (gcc ) works... no >> configure: error: installation or configuration problem: C compiler >>cannot >> create executables. >> ERROR: configuration failed for package Œgstat¹ >> * removing Œ/Users/vis010/Library/R/3.1/library/gstat¹ >> * restoring previous Œ/Users/vis010/Library/R/3.1/library/gstat¹ >> >> The downloaded source packages are in >> >> Œ/private/var/folders/zk/jzsww5w169g2zbl5hp260575y_7z7l/T/RtmpwsAqM6/dow >>nl >> oaded_packages¹ >> Warning message: >> In install.packages("gstat", type = "source", repos = >> "http://cran.csiro.au/";) : >> installation of package Œgstat¹ had non-zero exit status >> >> >> ###### AFTER INSTALLING XCODE >> Installing package into ‘/Users/vis010/Library/R/3.1/library’ >> (as ‘lib’ is unspecified) >> trying URL 'http://cran.csiro.au/src/contrib/gstat_1.0-19.tar.gz' >> Content type 'application/x-gzip' length 2045717 bytes (2.0 Mb) >> opened URL >> ================================================== >> downloaded 2.0 Mb >> >> * installing *source* package ‘gstat’ ... >> ** package ‘gstat’ successfully unpacked and MD5 sums checked >> creating cache ./config.cache >> checking for gcc... gcc >> checking whether the C compiler (gcc ) works... yes >> checking whether the C compiler (gcc ) is a cross-compiler... no >> checking whether we are using GNU C... yes >> checking whether gcc accepts -g... yes >> checking how to run the C preprocessor... gcc -E >> checking for AIX... no >> checking for minix/config.h... no >> checking for POSIXized ISC... no >> checking for ANSI C header files... yes >> checking for working const... yes >> checking whether time.h and sys/time.h may both be included... yes >> checking for 8-bit clean memcmp... yes >> checking for vprintf... yes >> checking for strstr... yes >> checking for strtod... yes >> checking for strtol... yes >> checking for drand48... yes >> checking for gettimeofday... yes >> checking whether byte ordering is bigendian... no >> checking for memory.h... yes >> checking for ANSI C header files... (cached) yes >> checking for gcc option to accept ANSI C... >> checking for function prototypes... yes >> checking for working const... (cached) yes >> checking for complex.h... yes >> checking for malloc.h... no >> checking for varargs.h... no >> checking for size_t... yes >> checking for working const... (cached) yes >> checking whether byte ordering is bigendian... (cached) no >> checking for u_int >> computing machine epsilon(s) >> gcc -o macheps ./src/meschach/dmacheps.c >> ./src/meschach/dmacheps.c:36:1: warning: type specifier missing, >>defaults >> to 'int' [-Wimplicit-int] >> main() >> ^~~~ >> 1 warning generated. >> gcc -o macheps ./src/meschach/fmacheps.c >> ./src/meschach/fmacheps.c:36:1: warning: type specifier missing, >>defaults >> to 'int' [-Wimplicit-int] >> main() >> ^~~~ >> 1 warning generated. >> computing M_MAX_INT >> gcc -o maxint maxint.c >> ./src/meschach/maxint.c:28:1: warning: type specifier missing, defaults >>to >> 'int' [-Wimplicit-int] >> main() >> ^~~~ >> 1 warning generated. >> checking char \0 vs. float zeros >> checking for bcopy... yes >> checking for bzero... yes >> checking for function prototypes >> checking for function prototypes in structures >> updating cache ./config.cache >> creating ./config.status >> creating makefile >> sed: ./makefile.in: No such file or directory >> creating src/config.h >> creating src/machine.h >> ** libs >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c block.c -o block.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c chfactor.c -o chfactor.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c copy.c -o copy.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c data.c -o data.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c direct.c -o direct.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c err.c -o err.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c fit.c -o fit.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c gcdist.c -o gcdist.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c getest.c -o getest.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c gls.c -o gls.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c glvars.c -o glvars.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c hsehldr.c -o hsehldr.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c init.c -o init.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c ivecop.c -o ivecop.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c lex.c -o lex.o >> lex.l:352:7: warning: 'tmpnam' is deprecated: This function is provided >> for compatibility reasons only. Due to security concerns inherent in >>the >> design of tmpnam(3), it is highly recommended that you use mkstemp(3) >> instead. [-Wdeprecated-declarations] >> fn = tmpnam(NULL); >> ^ >> >>/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Deve >>lo >> per/SDKs/MacOSX10.10.sdk/usr/include/stdio.h:276:7: note: 'tmpnam' has >> been explicitly marked deprecated here >> char *tmpnam(char *); >> ^ >> 1 warning generated. >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c lm.c -o lm.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c lufactor.c -o lufactor.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c machine.c -o machine.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c mapio.c -o mapio.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c matop.c -o matop.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c meminfo.c -o meminfo.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c memory.c -o memory.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c msim.c -o msim.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c norm.c -o norm.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c nsearch.c -o nsearch.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c parse.c -o parse.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c polygon.c -o polygon.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c pqueue.c -o pqueue.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c predict.c -o predict.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c pxop.c -o pxop.o >> pxop.c:279:22: warning: passing 'u_int *' (aka 'unsigned int *') to >> parameter of type 'int *' converts between pointers to integer types >>with >> different sign [-Wpointer-sign] >> numtransp = myqsort(px2->pe,px2->size); >> ^~~~~~~ >> 1 warning generated. >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c qrfactor.c -o qrfactor.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c random.c -o random.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c read.c -o read.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c reml.c -o reml.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c s.c -o s.o >> s.c:89:19: warning: unused variable 'VarName' [-Wunused-const-variable] >> static const char VarName[] = "(R Data)"; >> ^ >> 1 warning generated. >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c select.c -o select.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c sem.c -o sem.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c sim.c -o sim.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c solve.c -o solve.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c sparse.c -o sparse.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c sprow.c -o sprow.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c stat.c -o stat.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c submat.c -o submat.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c userio.c -o userio.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c utils.c -o utils.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c vario.c -o vario.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c vario_fn.c -o vario_fn.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c vario_io.c -o vario_io.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c vecop.c -o vecop.o >> clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG >> -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include >> -fPIC -Wall -mtune=core2 -g -O2 -c version.c -o version.o >> clang -dynamiclib -Wl,-headerpad_max_install_names -undefined >> dynamic_lookup -single_module -multiply_defined suppress >>-L/usr/local/lib >> -o gstat.so block.o chfactor.o copy.o data.o direct.o err.o fit.o >>gcdist.o >> getest.o gls.o glvars.o hsehldr.o init.o ivecop.o lex.o lm.o lufactor.o >> machine.o mapio.o matop.o meminfo.o memory.o msim.o norm.o nsearch.o >> parse.o polygon.o pqueue.o predict.o pxop.o qrfactor.o random.o read.o >> reml.o s.o select.o sem.o sim.o solve.o sparse.o sprow.o stat.o submat.o >> userio.o utils.o vario.o vario_fn.o vario_io.o vecop.o version.o >> -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework >> -Wl,CoreFoundation >> installing to /Users/vis010/Library/R/3.1/library/gstat/libs >> ** R >> ** data >> ** demo >> ** inst >> ** preparing package for lazy loading >> Error in dyn.load(file, DLLpath = DLLpath, ...) : >> unable to load shared object >> '/Users/vis010/Library/R/3.1/library/xts/libs/xts.so': >> dlopen(/Users/vis010/Library/R/3.1/library/xts/libs/xts.so, 6): >>Library >> not loaded: >> >>/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgfortran.2. >>dy >> lib >> Referenced from: /Users/vis010/Library/R/3.1/library/xts/libs/xts.so >> Reason: image not found >> ERROR: lazy loading failed for package ‘gstat’ >> * removing ‘/Users/vis010/Library/R/3.1/library/gstat’ >> * restoring previous ‘/Users/vis010/Library/R/3.1/library/gstat’ >> >> The downloaded source packages are in >> >> ‘/private/var/folders/zk/jzsww5w169g2zbl5hp260575y_7z7l/T/RtmpwsAqM6/dow >>nl >> oaded_packages’ >> Warning message: >> In install.packages("gstat", type = "source") : >> installation of package ‘gstat’ had non-zero exit status >> >> >> >> >> >> _______________________________________________ >> R-SIG-Mac mailing list >> [email protected] >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >> > > >-- >Brian D. Ripley, [email protected] >Emeritus Professor of Applied Statistics, University of Oxford >1 South Parks Road, Oxford OX1 3TG, UK _______________________________________________ R-SIG-Mac mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-mac
