> On May 16, 2017, at 4:01 PM, David Winsemius <dwinsem...@comcast.net> wrote: > > >> On Apr 24, 2017, at 11:49 PM, catalin roibu <catalinro...@gmail.com> wrote: >> >> Dear all, >> >> I have a problem with the newest R version. I'm trying to install a >> specific package dplR who need the gpm package and I have this error on my >> macbook (OS Sierra): > > Generally one reads the error messages. Often, and this is one of those > cases, the first error message tells what the problem might be. You either do > not have the system package GMP or it is installed in a location where the R > package 'gmp' cannot find it. > > I had difficulties attempting to test the advice I found by (re-)installing > the GNU GMP package from CRAN/r.research.att.com: > > http://r.research.att.com/libs/gmp-6.0.0-darwin.13-x86_64.tar.gz > > I got: > ~ davidwinsemius$ sudo tar fvxz ~/gmp-6.0.0-darwin.13-x86_64.tar.gz -C / > x usr/: Can't set user=0/group=0 for usrCan't update time for usr > x usr/local/ > x usr/local/include/ > x usr/local/lib/ > x usr/local/share/ > x usr/local/share/info/ > x usr/local/share/info/dir > x usr/local/share/info/gmp.info > x usr/local/share/info/gmp.info-1 > x usr/local/share/info/gmp.info-2 > x usr/local/lib/libgmp.a > x usr/local/lib/libgmp.la > x usr/local/include/gmp.h > tar: Error exit delayed from previous errors. > > Search on the "Can't update time for usr"-error brought up a bunch of stuff > about 'XSAN' that I didn't really understand fully but did not seem terribly > relevant ... >
FWIW that simply tells you that macOS is refusing even root to modify permissions and time for /usr which is deliberate by Apple for security reasons. Since El Capitan even root doesn't have privileges to modify /usr and its subdirectories other than /usr/local. So, yes, that error is beign. Cheers, Simon > .... but the package 'gmp-6.1.2.tar.bz2' at gmplib.org expanded and compiled > without difficulty usign the switches recommended at the bottom of: > > http://r.research.att.com/libs/ > > davidwinsemius$ sudo tar fvxz > /Users/davidwinsemius/Downloads/gmp-6.1.2.tar.bz2 -C / > > (I'm not on Sierra, since Apple has classified my MacPro as "obsolete".) > > -- > > David > [R.app GUI 1.70 (7338) x86_64-apple-darwin15.6.0] > >> > > >>> install.packages("dplR") >> also installing the dependency ‘gmp’ >> >> Packages which are only available in source form, and may >> need compilation of C/C++/Fortran: ‘gmp’ ‘dplR’ >> Do you want to attempt to install these from sources? >> y/n: y >> installing the source packages ‘gmp’, ‘dplR’ >> >> trying URL 'https://cran.rstudio.com/src/contrib/gmp_0.5-13.1.tar.gz' >> Content type 'application/x-gzip' length 131321 bytes (128 KB) >> ================================================== >> downloaded 128 KB >> >> trying URL 'https://cran.rstudio.com/src/contrib/dplR_1.6.5.tar.gz' >> Content type 'application/x-gzip' length 1672999 bytes (1.6 MB) >> ================================================== >> downloaded 1.6 MB >> >> * installing *source* package ‘gmp’ ... >> ** package ‘gmp’ successfully unpacked and MD5 sums checked >> creating cache ./config.cache >> checking for __gmpz_ui_sub in -lgmp... no >> configure: error: GNU MP not found, or not 4.1.4 or up, see >> http://gmplib.org >> ERROR: configuration failed for package ‘gmp’ >> * removing ‘/Library/Frameworks/R.framework/Versions/3.4/ >> Resources/library/gmp’ >> Warning in install.packages : >> installation of package ‘gmp’ had non-zero exit status >> ERROR: dependency ‘gmp’ is not available for package ‘dplR’ >> * removing ‘/Library/Frameworks/R.framework/Versions/3.4/ >> Resources/library/dplR’ >> Warning in install.packages : >> installation of package ‘dplR’ had non-zero exit status >> >> The downloaded source packages are in >> ‘/private/var/folders/c5/6g4vbk5x55586m8ky2v_6pbc0000gn/T/RtmprYzSE8/ >> downloaded_packages’ >> >> >> All the other packages work in good conditions. >> Please help me to solve this annoying situation. >> >> Best regards! >> >> CR >> >> >> -- >> >> - >> - >> Catalin-Constantin ROIBU >> >> Lecturer PhD, Forestry engineer >> Forestry Faculty of Suceava >> Str. Universitatii no. 13, Suceava, 720229, Romania >> office phone +4 0230 52 29 78, ext. 531 >> mobile phone +4 0745 53 18 01 >> FAX: +4 0230 52 16 64 >> silvic.usv.ro <http://www.usv.ro/> >> >> >> >> <https://mailtrack.io/> Sent with Mailtrack >> <https://mailtrack.io/install?source=signature&lang=en&referral=catalinro...@gmail.com&idSignature=22> >> <#> >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> R-SIG-Mac mailing list >> R-SIG-Mac@r-project.org >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac > > David Winsemius > Alameda, CA, USA > > _______________________________________________ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
