> Sys.info() sysname "Darwin" release "22.6.0" version "Darwin Kernel Version 22.6.0: Fri Sep 15 13:39:52 PDT 2023; root:xnu-8796.141.3.700.8~1/RELEASE_X86_64" nodename [deleted] machine "x86_64" login [deleted] user [deleted] effective_user [deleted]
My Makevars file: CPPFLAGS += -Xclang -fopenmp LDFLAGS += -lomp Using brew, I installed libomp data.table is not installed on my machine. In fresh R session: > install.packages("data.table", repos = "https://cran.r-project.org") Installing package into ‘/usr/local/lib/R/4.3/site-library’ (as ‘lib’ is unspecified) trying URL 'https://cran.r-project.org/src/contrib/data.table_1.14.8.tar.gz' Content type 'application/x-gzip' length 5338582 bytes (5.1 MB) ================================================== downloaded 5.1 MB * installing *source* package ‘data.table’ ... ** package ‘data.table’ successfully unpacked and MD5 sums checked ** using staged installation zlib 1.2.11 is available ok *** OpenMP not supported! data.table uses OpenMP to automatically *** parallelize operations like sorting, grouping, file reading, etc. *** For details on how to install the necessary toolchains on your OS see: *** https://github.com/Rdatatable/data.table/wiki/Installation *** Continuing installation without OpenMP support... ** libs using C compiler: ‘Homebrew clang version 17.0.1’ using SDK: ‘’ clang -I"/usr/local/Cellar/r/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/opt/gettext/include -I/usr/local/opt/readline/include -I/usr/local/opt/xz/include -I/usr/local/include -Xclang -fopenmp -fPIC -g -O2 -c assign.c -o assign.o [several lines deleted] clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/Cellar/r/4.3.1/lib/R/lib -L/usr/local/opt/gettext/lib -L/usr/local/opt/readline/lib -L/usr/local/opt/xz/lib -L/usr/local/lib -lomp -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o fsort.o fwrite.o fwriteR.o gsumm.o ijoin.o init.o inrange.o nafill.o nqrecreateindices.o openmp-utils.o quickselect.o rbindlist.o reorder.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -lz -L/usr/local/Cellar/r/4.3.1/lib/R/lib -lR -lintl -Wl,-framework -Wl,CoreFoundation ld: warning: -single_module is obsolete ld: warning: -multiply_defined is obsolete ld: warning: -single_module is obsolete ld: warning: -multiply_defined is obsolete ld: library 'omp' not found clang: error: linker command failed with exit code 1 (use -v to see invocation) make: *** [data.table.so] Error 1 ERROR: compilation failed for package ‘data.table’ * removing ‘/usr/local/lib/R/4.3/site-library/data.table’ The downloaded source packages are in ‘/private/var/folders/97/5377j5_d207fshvjz_pz7szw0000gn/T/RtmpjZgIo0/downloaded_packages’ Warning message: In install.packages("data.table", repos = "https://cran.r-project.org") : installation of package ‘data.table’ had non-zero exit status I delete above two lines from my Makevars fiie, which is now empty. Now reinstall data.table. > install.packages("data.table", repos = "https://cran.r-project.org") Installing package into ‘/usr/local/lib/R/4.3/site-library’ (as ‘lib’ is unspecified) trying URL 'https://cran.r-project.org/src/contrib/data.table_1.14.8.tar.gz' Content type 'application/x-gzip' length 5338582 bytes (5.1 MB) ================================================== downloaded 5.1 MB * installing *source* package ‘data.table’ ... ** package ‘data.table’ successfully unpacked and MD5 sums checked ** using staged installation zlib 1.2.11 is available ok R CMD SHLIB supports OpenMP without any extra hint ** libs using C compiler: ‘Homebrew clang version 17.0.1’ using SDK: ‘’ clang -I"/usr/local/Cellar/r/4.3.1/lib/R/include" -DNDEBUG -I/usr/local/opt/gettext/include -I/usr/local/opt/readline/include -I/usr/local/opt/xz/include -I/usr/local/include -fPIC -g -O2 -c assign.c -o assign.o [several lines deleted] clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/Cellar/r/4.3.1/lib/R/lib -L/usr/local/opt/gettext/lib -L/usr/local/opt/readline/lib -L/usr/local/opt/xz/lib -L/usr/local/lib -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o fsort.o fwrite.o fwriteR.o gsumm.o ijoin.o init.o inrange.o nafill.o nqrecreateindices.o openmp-utils.o quickselect.o rbindlist.o reorder.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -lz -L/usr/local/Cellar/r/4.3.1/lib/R/lib -lR -lintl -Wl,-framework -Wl,CoreFoundation ld: warning: -single_module is obsolete ld: warning: -multiply_defined is obsolete ld: warning: -single_module is obsolete ld: warning: -multiply_defined is obsolete PKG_CFLAGS = PKG_LIBS = -lz if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi installing to /usr/local/lib/R/4.3/site-library/00LOCK-data.table/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (data.table) > library(data.table) data.table 1.14.8 using 1 threads (see ?getDTthreads). Latest news: r-datatable.com ********** This installation of data.table has not detected OpenMP support. It should still work but in single-threaded mode. This is a Mac. Please read https://mac.r-project.org/openmp/. Please engage with Apple and ask them for support. Check r-datatable.com for updates, and our Mac instructions here: https://github.com/Rdatatable/data.table/wiki/Installation. After several years of many reports of installation problems on Mac, it's time to gingerly point out that there have been no similar problems on Windows or Linux. ********** > On Sep 25, 2023, at 4:06 AM, Carlos Ortega <cofo...@gmail.com> wrote: > > Hi, > > Yes, on Mac, it takes a while to even get the build to allow data.table to be > used on multithread. > > See this installation guide which has sections specially dedicated for Mac. > • https://github.com/Rdatatable/data.table/wiki/Installation > > You will see that you will most likely have to modify the "Makevars" file to > include the paths of different compilers. > > Thank you, > Carlos. > > On Mon, Sep 25, 2023 at 9:41 AM Ivan Krylov <krylov.r...@gmail.com> wrote: > On Sun, 24 Sep 2023 23:42:14 +0000 > Naresh Gurbuxani <naresh_gurbux...@hotmail.com> wrote: > > > Instruction on this site do not apply to Ventura 13.6 > > What happens whey you try to follow them? > > The data.table maintainers have prepared the following guide: > <https://github.com/Rdatatable/data.table/wiki/Support>. In particular, > in order to help us help you, you need to include your actions, their > expected and actual results. Without that, you're effectively asking > someone to write a personal tutorial for you, which is not a good use > of anyone's time. > > If you don't get an answer here and don't find anything useful on > StackOverflow when searching for [data.table], try > r-sig-...@r-project.org. > > -- > Best regards, > Ivan > > ______________________________________________ > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.