I recently upgraded my intel MacBook from Catalina to Monterey (Darwin release 21.1.0) I also upgraded R from 4.0.1 to 4.1.1 via home-brew. I have reinstalled the majority of packages necessary for my work, however, ran into issues with mapview. It failed to install due to an issue with a dependency - systemfonts. I attempted to install systemfonts directly from CRAN and after that failed from GitHub which also failed with these messages:
/bin/sh: I/usr/local/Cellar/r/4.1.1_1/lib/R/include: No such file or directory
make: [mac/FontManagerMac.o] Error 127 (ignored)
and
clang: error: no such file or directory: 'mac/FontManagerMac.o'
make: *** [systemfonts.so] Error 1
ERROR: compilation failed for package ‘systemfonts’
* removing ‘/usr/local/lib/R/4.1/site-library/systemfonts’
Warning message:
In i.p(...) :
installation of package ‘/var/folders/85/56q39hqj2_gf31m9mbln7hhw0000gn/T//RtmpJGiNgA/file324134b404c/systemfonts_1.0.3.9000.tar.gz’ had non-zero exit status
I'd appreciate any thoughts on this issue. I may open an issue on GitHub r-lib/systemfonts as this may be related to some sort of incompatibility between the package and the updated OS however, thought I should start here.
Thanks
The solution listed in the issue from #Kevin_Cazelles linked to worked on my computer. Seems like it has something to do with gcc and R's call for the compiler.
This worked for me:
brew reinstall gcc
brew link --overwrite gcc
and then this in R-studio terminal
withr::with_makevars(c(OBJCXX = "gcc"), install.packages('systemfonts'))
In the bash shell:
sudo apt install libfontconfig1-dev
in RStidio
install.packages("systemfonts", dependencies = TRUE)
I would like to know if anyone has the solution for the following SP package installation error in Linux Mint 19? Here's the error message.
/bin/bash: line 2: g++: command not found
/usr/share/R/share/make/shlib.mk:6: recipe for target 'sp.so' failed
make: *** [sp.so] Error 127
ERROR: compilation failed for package ‘sp’
Thanks, Kaio.
It seems you don’t have the g++ compiler.
Open a terminal window and try
sudo apt-get install g++
The other alternative which includes some common build libraries is
sudo apt-get install build-essencial
Then try to reinstall the R package.
I'am not able to install the R package gmum.r. It says compilation failed. I have installed all supporting packages.
/bin/bash: g++: command not found
make: *** [svm/libsvm_runner.o] Error 127
ERROR: compilation failed for package ‘gmum.r’
* removing ‘/home/XXX/R/x86_64-pc-linux-gnu-library/3.2/gmum.r’
It got worked using the following command,
sudo apt-get install r-base-dev
Errors fixed !
I am trying to install Rmpfr in a Ubuntu machine. But I kept getting the following error.
configure: error: Header file mpfr.h not found; maybe use --with-mpfr-include=INCLUDE_PATH
ERROR: configuration failed for package ‘Rmpfr’
Could anyone help me with this, please? Thank you.
You need mpfr.h which you get from
sudo apt-get install libmpfr-dev
This recipe is generic: you need the (Linux) -dev package for compilation against a (Linux) library which is what the (R) package does here.
I am trying to install the package mvoutlier but following error occurs during installation:
install.packages("mvoutlier")
configure: error: missing required header GL/gl.h
ERROR: configuration failed for package ‘rgl’
* removing ‘/home/sam/R/x86_64-pc-linux-gnu-library /2.15/rgl’
ERROR: dependency ‘rgl’ is not available for package ‘compositions’
* removing ‘/home/sam/R/x86_64-pc-linux-gnu-library/2.15/compositions’
ERROR: dependency ‘compositions’ is not available for package ‘mvoutlier’
* removing ‘/home/sam/R/x86_64-pc-linux-gnu-library/2.15/mvoutlier’
After that I have install the rgl package successfully, then I tried to install the compositions package then the again same error occurs. Then I have again tried to install the mvoutlier package the same error occurs.
Can anyone let me know how I can resolve this problem. Thanking you in advance.
I suspect you are running Ubuntu 12.04.I think you're going to find that this works for the GL/gl.h problem:
install these at the regular old terminal, ie pretend R doesn't exist for now:
libglu1-mesa-dev freeglut3-dev mesa-common-dev
You might get the following error later (in R) because of a tcl b****/gripe/complaint:
Error in structure(.External(.C_dotTcl, ...), class = "tclObj") :
[tcl] can't find package BWidget.
To fix this problem, if you have it:
sudo apt-get install bwidget
These are not R problems. They are OS problems!
I ran into the same issue in between others on a Ubuntu based Linux distro (Linux Mint). Here I will share the worklog I'd done to fix it.
The full fix was:
apt-get install libx11-dev mesa-common-dev libglu1-mesa-dev
Worklog
The first error was related to missing devel libraries of X11:
configure: error: X11 not found but required, configure aborted.
I fixed it installing:
apt-get install libx11-dev
However, after fix the issue, I felt into a new one like this one:
configure: error: missing required header GL/gl.h
ERROR: configuration failed for package ‘rgl’
I checked the library on the repository:
# dpkg -S /usr/include/GL/gl.h
dpkg-query: no path found matching pattern /usr/include/GL/gl.h
To fix this issue, install :
apt-get install mesa-common-dev
Then, I was prompt by a new error:
configure: error: missing required header GL/glu.h
To fix the issue, install the libglu1 devel libraries:
apt-get install libglu1-mesa-dev
configure: error: missing required header GL/gl.h
normally means you haven't installed the -dev version of a package, in this case GL.
On my system, GL/gl.h is owned by mesa-common-dev
$ dpkg -S /usr/include/GL/gl.h
mesa-common-dev: /usr/include/GL/gl.h
which would have been installed with apt-get install mesa-common-dev or via some GUI magic.
On Ubuntu 16.04, I solved this problem (during rgl package installation) with sudo apt-get install libglu1-mesa-dev
the current fedora package manager will fail to find these libraries as shown. Instead you need to do
sudo dnf install mesa-libGL-devel mesa-libGLU-devel
Based on the work breakdown by 3manuek, I figured only the libglu1-mesa-dev library was needed in ubuntu 16.04 LTS, and it worked.
On, RHEL, sudo yum install mesa-libGLU-devel worked.
I encountered an equivalent problem when testing a package that required 'rgl' on Travis. The problem is that the operating system lacks the necessary GL files on which the 'rgl' package draws.
A thread at R-forge offers the ingenious solution of running apt-get install r-cran-rgl, which will pull in any of the GL dependencies not already present on the operating system. This seems simpler than second-guessing which specific dependency is missing, and it remains possible to install a more recent version of 'rgl' if required.