[R-SIG-Mac] segfault with raster package

When I load the last version of raster package in MacOS, I get a segfault: This is similar to the problem described here: https://r.789695.n4.nabble.com/Raster-package-crash-with-segmentation-fault-td4759487.html or here https://github.com/rspatial/raster/issues/63 The last working version fo

Re: [R-SIG-Mac] Update of RcppParallel failed

rc Le 14/02/2018 à 14:58, Keith O'Hara a écrit : This looks like an issue to bring up with the Rcpp guys, not R… but can you provide a full printout of the error? I’m guessing this failed when compiling a C file, not C++. On Feb 14, 2018, at 8:43 AM, Marc Girondot via R-SIG-Mac wrote:

[R-SIG-Mac] Update of RcppParallel failed

This morning I had an update to apply for RcppParallel but it failed Here are some information: > update.packages() RcppParallel :  Version 4.3.20 installed in /Library/Frameworks/R.framework/Versions/3.5/Resources/library  Version 4.3.20.1 available at https://cran.r-project.org During i

Re: [R-SIG-Mac] rJava compilation on R 3.5 devel [SOLVED]

m.dylib libjvm.dylib And I can load rJava package in Rstudio also now. Thanks to everybody for your help ! Marc Le 01/02/2018 à 01:23, Kevin Ushey a écrit : What version of RStudio are you using? This particular issue should be fixed in v1.1.419 of RStudio. On Wed, Jan 31, 2018 at 11:48 AM,

Re: [R-SIG-Mac] rJava compilation on R 3.5 devel [NOt completely SOLVED]

e. Check those paths for libjvm.dylib On Jan 31, 2018, at 8:17 AM, Marc Girondot wrote: Sorry... bad news. It works only if R is ran as root. If R is ran as non-root user: library(rJava) Erreur : package or namespace load failed for ‘rJava’: .onLoad a échoué dans loadNamespace() pour

Re: [R-SIG-Mac] rJava compilation on R 3.5 devel [NOt completely SOLVED]

On Jan 31, 2018, at 8:17 AM, Marc Girondot wrote: Sorry... bad news. It works only if R is ran as root. If R is ran as non-root user: library(rJava) Erreur : package or namespace load failed for ‘rJava’: .onLoad a échoué dans loadNamespace() pour 'rJava', détails : appel : d

Re: [R-SIG-Mac] rJava compilation on R 3.5 devel [NOt completely SOLVED]

brary/Frameworks/R.framework/Versions/3.5/Resources/library/rJava/libs/rJava.so   Reason: image not found I will continue to investigate. Sorry for this wrong news ! Marc Le 31/01/2018 à 14:03, Marc Girondot via R-SIG-Mac a écrit : I have found a solution based on the proposition of Keith. Thank

Re: [R-SIG-Mac] rJava compilation on R 3.5 devel [SOLVED]

g-5.0.1? If you installed using MacPorts, then you might need to create a symbolic link to libomp in /usr/local/lib. Check if the following exists: /opt/local/lib/libomp/libomp.dylib On Jan 31, 2018, at 5:22 AM, Marc Girondot via R-SIG-Mac wrote: Dear Experts, I use now r-3.5 devel a

[R-SIG-Mac] rJava compilation on R 3.5 devel

Dear Experts, I use now r-3.5 devel as it is stable (from http://r.research.att.com , version (2018/01/30, r74185) ) but I have a problem with compilation of rJava package. In short (all the explanations are bellow): If I use clang 4.0.0 from here: http://r.research.att.com/libs/, I get thi

Re: [R-SIG-Mac] R 3.4.3 binaries

_ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac -- ______ Marc Girondot, Pr Laboratoire Ecologie, Systématique et Evolution Equipe de Conservation des Populations et des Communautés CNRS,

Re: [R-SIG-Mac] Install rJava produce an error

/Library/Frameworks/R.framework/Versions/3.4/Resources/library" It is not very elegant but until now it works. Marc Le 14/10/2017 à 17:01, Marc Girondot via R-SIG-Mac a écrit : I would be most interested to get a solution for my problem in rJava install. R 3.4.2 MacOSx 10.12.6, Sierra X

[R-SIG-Mac] Install rJava produce an error

I would be most interested to get a solution for my problem in rJava install. R 3.4.2 MacOSx 10.12.6, Sierra Xcode 9. If I install the rJava package, I get this error: ### > install.packages("rJava") essai de l'URL 'https://cran.r-project.org/src/contrib/rJava_0.9-9.tar.gz' Content type

[R-SIG-Mac] install RNetCDF_1.8-1.tar.gz failed

Dear experts... I try to install the lastest version of RNetCDF (1.8-1.tar.gz) on MacosX (El Capitan) but without success. I send you the precise procedure I have used and some tests: 1/ I have installed MacPort as described here: https://guide.macports.org And it seems to be ok: Marc-Girondot

Re: [R-SIG-Mac] Install RNetCDF_1.7-3.tar.gz

/conservation/Girondot/Publications/Blog_r/Entrees/2014/4/7_rgdal_and_other_packages_with_R_3.1.html Sincerely, Marc Le 12/06/2015 15:56, Marc Girondot a écrit : Dear list members, RNetCDF_1.7-3 binaries are not available for OS X Mavericks, so I try install it from sources. 1- Using MacPorts, I

[R-SIG-Mac] Install RNetCDF_1.7-3.tar.gz

Dear list members, RNetCDF_1.7-3 binaries are not available for OS X Mavericks, so I try install it from sources. 1- Using MacPorts, I installed netcdf, hdf5, udunits and udunits2 libraries. It seems that they are correctly installed with the lastest version: belinda:~ marc$ port installed

Re: [R-SIG-Mac] sh: convert: command not found

Look at here: http://max2.ese.u-psud.fr/epc/conservation/Girondot/Publications/Blog_r/Entrees/2014/7/6_Using_system()_in_MacOSX.html I think it is the solution. Sincerely, Marc Le 24/10/2014 06:22, Emma Sherratt a écrit : Dear Mac R community, I wonder if anyone else has come across this iss

Re: [R-SIG-Mac] ncdf4 not auto-building on Mavericks -- can't tell why

I was stuck very long with similar problem. I write a little tutorial to help to install this package: http://max2.ese.u-psud.fr/epc/conservation/Girondot/Publications/Blog_r/Entrees/2014/4/7_rgdal_and_other_packages_with_R_3.1.html Sincerely Marc Girondot Le 08/07/2014 15:56, David W. Pierce

Re: [R-SIG-Mac] Shell used within system()

But still a problem: When I run the software ncl_convert2nc (https://www.ncl.ucar.edu/Document/Tools/ncl_convert2nc.shtml) using a shell script from R.app, it works but the same within Rstudio, it freezes Rstudio. I will contact the team who develops RStudio. Thanks a lot. I progress very w

[R-SIG-Mac] Shell used within system()

: > system("echo $PATH") /usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin:/usr/texbin:/opt/local/bin The shell used in terminal is Marc-Girondot-MBA:Chlorophyle marc$ echo $SHELL /bin/bash Marc-Girondot-MBA:Chlorophyle marc$ echo $0 -bash whereas in R, it is sh: > system(

[R-SIG-Mac] Clean old instaled packages

Hi, In /Library/Frameworks/R.framework/Versions , I see the installed packages for all the R versions that I had: 2.132.142.153.03.1Current Is-it safe to remove all the previous instals and keep only 3.1 and the alias to Current ? I just put them in trash ? Thanks Marc _

[R-SIG-Mac] maptools in R 3.0.0

question. He gives me the trick that rgeos must be installed first: I do it from http://r.research.att.com/libs/ Then how to build maptools package ? I am lost. Thanks a lot. Marc -- __ Marc Girondot, Pr Laboratoire Ecologie, Systématique et