> On May 26, 2017, at 7:13 PM, Simon Urbanek <simon.urba...@r-project.org> > wrote: > > >> 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.
I did know that Apple had locked down /usr/ subdirectories. I'm not sure what your conclusion implies, however. I generally assume that an error message implies lack of success. Was the effort at installation of gmp from gmp-6.0.0-darwin.13-x86_64.tar.gz actually completed? (Which means my subsequent installation using gmp-6.1.2.tar.bz2 was not necessary, but I guessing also not harmful? Best; David. > > 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 > 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
