I was trying to install the devtools package in Rstudio by install.packages("devtools") but failed. The error messages are:
* installing *source* package ‘xml2’ ...
** package ‘xml2’ successfully unpacked and MD5 sums checked
Package libxml-2.0 was not found in the pkg-config search path.
Perhaps you should add the directory containing `libxml-2.0.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libxml-2.0' found
Package libxml-2.0 was not found in the pkg-config search path.
Perhaps you should add the directory containing `libxml-2.0.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libxml-2.0' found
Could not find libxml2. Please install libxml2-devel (rpm) or libxml2-dev (deb).
ERROR: configuration failed for package ‘xml2’
* removing ‘/home/xwang/R/x86_64-pc-linux-gnu-library/3.1/xml2’
Warning in install.packages :
installation of package ‘xml2’ had non-zero exit status
ERROR: dependency ‘xml2’ is not available for package ‘rversions’
* removing ‘/home/xwang/R/x86_64-pc-linux-gnu-library/3.1/rversions’
Warning in install.packages :
installation of package ‘rversions’ had non-zero exit status
ERROR: dependency ‘rversions’ is not available for package ‘devtools’
* removing ‘/home/xwang/R/x86_64-pc-linux-gnu-library/3.1/devtools’
Warning in install.packages :
installation of package ‘devtools’ had non-zero exit status
The downloaded source packages are in
‘/tmp/RtmpYccDpT/downloaded_packages’
Looks like it has trouble finding libxml-2.0. Does anyone know an easy fix to this? I'm using R version 3.1.2.
Eventually I fixed the problem by:
sudo apt-get install libxml2-dev
Then another problems popped up:
Error : object ‘curl_fetch_memory’ is not exported by 'namespace:curl'
which can be solved by installing the curl package:
install.packages("curl")
You just need to update to the newest version of R (R version 3.2.1)
It require some developer libraries (sources): curl developer, xml2 developer as dependecy.
so install it with the package repository (yum, dnf, apt-get) and retry to install the devtools package in R.
Related
I have been trying to install the SDMTools package from github, using devtools, and have also tried to install from the Cran archive, below is the code for installing through github:
devtools::install_github("jjvanderwal/SDMTools")
this is then the code to try and install from Cran archive:
install.packages("https://cran.r-project.org/src/contrib/Archive/SDMTools/SDMTools_1.1-221.2.tar.gz", repos = NULL, type="source")
Both of these produce the same error,
* installing *source* package 'SDMTools' ...
** package 'SDMTools' successfully unpacked and MD5 sums checked
** using staged installation
** libs
Warning in system(cmd) : 'make' not found
ERROR: compilation failed for package 'SDMTools'
* removing 'C:/Users/micha/AppData/Local/R/win-library/4.2/SDMTools'
Warning in install.packages :
installation of package ‘C:/Users/micha/AppData/Local/Temp/Rtmps1CvqJ/downloaded_packages/SDMTools_1.1-221.2.tar.gz’ had non-zero exit status
If anyone would be able to help with any suggestions of what to try or any alternative methods, would be greatly appreciated!
I am currently working on version 4.2.1, (have also tried this on version 4.1.3).
hi i am trying to install package for experiment designs like this
install.packages("daewr", dependencies = T)
but it returns the following
configure: error: GNU MP not found, or not 4.1.4 or up, see http://gmplib.org
ERROR: configuration failed for package ‘gmp’
* removing ‘/home/yeferson/R/x86_64-pc-linux-gnu-library/4.0/gmp’
Warning in install.packages :
installation of package ‘gmp’ had non-zero exit status
ERROR: dependency ‘gmp’ is not available for package ‘partitions’
* removing ‘/home/yeferson/R/x86_64-pc-linux-gnu-library/4.0/partitions’
Warning in install.packages :
installation of package ‘partitions’ had non-zero exit status
ERROR: dependency ‘partitions’ is not available for package ‘DoE.base’
* removing ‘/home/yeferson/R/x86_64-pc-linux-gnu-library/4.0/DoE.base’
Warning in install.packages :
installation of package ‘DoE.base’ had non-zero exit status
ERROR: dependency ‘DoE.base’ is not available for package ‘FrF2’
* removing ‘/home/yeferson/R/x86_64-pc-linux-gnu-library/4.0/FrF2’
Warning in install.packages :
installation of package ‘FrF2’ had non-zero exit status
ERROR: dependency ‘FrF2’ is not available for package ‘daewr’
* removing ‘/home/yeferson/R/x86_64-pc-linux-gnu-library/4.0/daewr’
Warning in install.packages :
installation of package ‘daewr’ had non-zero exit status
The downloaded source packages are in
‘/tmp/RtmpB1bSe0/downloaded_packages’
so i decided to download the file from https://cran.r-project.org/web/packages/daewr/index.html
after trying to install it returns me
also installing the dependencies ‘gmp’, ‘partitions’, ‘DoE.base’, ‘FrF2.catlg128’
I try to install the first one but it asks for a Bessel package and it still gives me problems
I solved it by installing dependency one by one, many answer you install the dependencies but they do not say how I will explain them for the new ones in linux and in R to install the daerw package with the aforementioned problems, install the following in the linux console
sudo apt-get install libgsl-dev
with that install libraries now I can open R and install
install.packages('gsl')
then I opened the linux console again and installed
sudo apt-get install libgmp-dev
I go back to R and install
install.packages("gmp", dependencies = T)
now I can install the package without problems
install.packages("daewr", dependencies = T)
library(daewr)
I hope that any comment is welcome.
system: ubuntu 18.04
Rstudio version 3.4.4
Whenever i try to install tidyverse this error comes up, how do i add the directory containing the lib-curl to the package configuration search path?
installing source package ‘curl’ ...
package ‘curl’ successfully unpacked and MD5 sums checked
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libcurl' found
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libcurl' found
Using PKG_CFLAGS=
Using PKG_LIBS=-lcurl
.
.
.
.
ERROR: configuration failed for package ‘xml2’
removing ‘/home/javed/R/x86_64-pc-linux-gnu-library/3.4/xml2’
Warning in install.packages :
installation of package ‘xml2’ had non-zero exit status
ERROR: dependencies ‘curl’, ‘openssl’ are not available for package ‘httr’
* removing ‘/home/javed/R/x86_64-pc-linux-gnu-library/3.4/httr’
Warning in install.packages :
installation of package ‘httr’ had non-zero exit status
ERROR: dependencies ‘xml2’, ‘httr’ are not available for package ‘rvest’
* removing ‘/home/javed/R/x86_64-pc-linux-gnu-library/3.4/rvest’
Warning in install.packages :
installation of package ‘rvest’ had non-zero exit status
ERROR: dependencies ‘httr’, ‘rvest’, ‘xml2’ are not available for package ‘tidyverse’
* removing ‘/home/javed/R/x86_64-pc-linux-gnu-library/3.4/tidyverse’
Warning in install.packages :
installation of package ‘tidyverse’ had non-zero exit status
Install these missing dependencies before installing R packages:
sudo apt install libcurl4-openssl-dev libssl-dev libxml2-dev
Source: https://blog.zenggyu.com/en/post/2018-01-29/installing-r-r-packages-e-g-tidyverse-and-rstudio-on-ubuntu-linux/
Quit R and open up a command window and confirm that libcurl is indeed not installed on Ubuntu
apt list --installed | grep libcurl
You should see no results.
Install the package
sudo apt update
sudo apt install libcurl4-openssl-dev
Open up R and reinstall tidyverse.
If you still get error messages in R, you might have to install additional missing Linux packages by repeating similar steps.
I'm running R 3.4.2 and R Studio 1.0.153. I want to install the prob package in R. The prob package in an archived file. It is located here. I am trying to install the prob_1.0-0.tar.gz package. I have no problem downloading and opening the package archive file. The code is below, it seems I need to install the fAsianOptions package.
ERROR: dependency 'fAsianOptions' is not available for package 'prob'
* removing 'C:/Users/blake_000/Documents/R/win-library/3.4/prob' Warning in install.packages : running command
'"C:/PROGRA~1/R/R-34~1.2/bin/x64/R" CMD INSTALL -l
"C:\Users\blake_000\Documents\R\win-library\3.4"
"C:/Users/BLAKE_~1/GOOGLE~1/Life/CSUEB/FALL20~1/6204-P~1/RCODE~1/prob_1.0-0.tar.gz"'
had status 1 Warning in install.packages : installation of package
‘C:/Users/BLAKE_~1/GOOGLE~1/Life/CSUEB/FALL20~1/6204-P~1/RCODE~1/prob_1.0-0.tar.gz’
had non-zero exit status
Unfortunately, the fAsianOptions package is also archived. It is located here and I downloaded version fAsianOptions_3010.79.tar.gz. There were a number of dependencies but I installed the required packages (timeDate, timeSeries, etc.)
However, the fAsianOptions package is not installing. The error code reads as follows:
install.packages("C:/Users/blake_000/Google Drive/Life/CSUEB/Fall
2017/6204- Probability/R Code/fAsianOptions_3010.79.tar.gz", repos =
NULL, type = "source") Installing package into
‘C:/Users/blake_000/Documents/R/win-library/3.4’ (as ‘lib’ is
unspecified)
* installing source package 'fAsianOptions' ...
** package 'fAsianOptions' successfully unpacked and MD5 sums checked
** libs
*** arch - i386 Warning: running command 'make -f "Makevars" -f "C:/PROGRA~1/R/R-34~1.2/etc/i386/Makeconf" -f
"C:/PROGRA~1/R/R-34~1.2/share/make/winshlib.mk"
SHLIB="fAsianOptions.dll" SHLIB_LIBADD='$(FLIBS)'
OBJECTS="EBMAsianOptions.o GammaFunctions.o
HypergeometricFunctions.o"' had status 127 ERROR: compilation failed
for package 'fAsianOptions'
* removing 'C:/Users/blake_000/Documents/R/win-library/3.4/fAsianOptions' Warning
in install.packages : running command
'"C:/PROGRA~1/R/R-34~1.2/bin/x64/R" CMD INSTALL -l
"C:\Users\blake_000\Documents\R\win-library\3.4"
"C:/Users/BLAKE_~1/GOOGLE~1/Life/CSUEB/FALL20~1/6204-P~1/RCODE~1/fAsianOptions_3010.79.tar.gz"'
had status 1 Warning in install.packages : installation of package
‘C:/Users/BLAKE_~1/GOOGLE~1/Life/CSUEB/FALL20~1/6204-P~1/RCODE~1/fAsianOptions_3010.79.tar.gz’
had non-zero exit status
I'm hoping that someone can help me to install the fAsianOptions dependency so I can install the prob package. Or, if there's an easier way, please let me know!
I had the same problem. I solved it by installing lower version of R -2.9. prob is available in repository for this version.
I am trying to install the R package "colorspace" in Ubuntu Linux from local repository as follows:
install.packages("/home/colorspace_1.2-4.tar.gz", repos = NULL, type="source")
This throws the following error:
Installing package into '/home/vertica/R/x86_64-unknown-linux-gnu-library/3.0'
(as 'lib' is unspecified)
* installing *source* package 'colorspace' ...
** package 'colorspace' successfully unpacked and MD5 sums checked
** libs
sh: make: command not found
ERROR: compilation failed for package 'colorspace'
* removing '/home/vertica/R/x86_64-unknown-linux-gnu-library/3.0/colorspace'
Warning message:
In install.packages("/home/colorspace_1.2-4.tar.gz", :
installation of package '/home/colorspace_1.2-4.tar.gz' had non-zero exit
status
Could someone help me with this issue?
Thank you.
Ravi
Its saying it can't find "make", which makes me think you don't have all the compilers and so on that you need to build packages from source.
Install the "build-essential" package, something like:
sudo apt-get install build-essential
from your command line (not from R!)