I'm trying to install the Homals package - library(homals), but keep getting this error message:
library(homals)
Error : .onLoad failed in loadNamespace() for 'rgl', details: call:
dyn.load(file, DLLpath = DLLpath, ...) error: unable to load shared
object
'/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rgl/libs/rgl.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rgl/libs/rgl.so,
6): Library not loaded: /opt/X11/lib/libGLU.1.dylib Referenced from:
/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rgl/libs/rgl.so
Reason: image not found Error: package or namespace load failed for
‘homals’
I have a couple of my colleagues to run the same code, the same thing happens. I have re-install R studio to the newest version.
install.packages("rgl")
install.packages("homals")
library(homals)
Any solutions for this? thank you.
I was able to successfully install on both Windows and Mac. I believe the root cause here is that you have R version 3.3 installed when you require at least v3.5.3 as per below:
library(homals)
Warning message:
package ‘homals’ was built under R version 3.5.3
Related
I tried to find solutions from previous posts, but they do not solve my problem.
I am using macOS High Sierra and have Java installed. Below is the error reported by Rstudio. Also, rJava, Mac, and R are really messy with each other. I found this post but still does not work.
https://github.com/MTFA/CohortEx/wiki/Run-rJava-with-RStudio-under-OSX-10.10,-10.11-(El-Capitan)-or-10.12-(Sierra)
///////////////////
library(RWeka)
Error: package or namespace load failed for ‘RWeka’:
.onLoad failed in loadNamespace() for 'rJava', details:
call: dyn.load(file, DLLpath = DLLpath, ...)
error: unable to load shared object '/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rJava/libs/rJava.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rJava/libs/rJava.so, 6): Library not loaded: #rpath/libjvm.dylib
Referenced from: /Library/Frameworks/R.framework/Versions/3.4/Resources/library/rJava/libs/rJava.so
Reason: image not found
In addition: Warning message:
package ‘RWeka’ was built under R version 3.4.4
I met the same question and I found this is helpful.
Cannot load R xlsx package on Mac OS 10.11
1.In terminal enter the following to relink Java correctly:
sudo R CMD javareconf
2.Back in R (or RStudio) install the rJava package from source:
install.packages("rJava",type='source')
Then
library(rJava)
and
library(RWeka)
should work.
After updating to the latest version of Rstudio (R version 3.4.1 (2017-06-30) -- "Single Candle") I cannot seem to get the XLConnect Package to load. This is the error message I get:
> library('XLConnect')
Loading required package: XLConnectJars
Error: package or namespace load failed for ‘XLConnectJars’:.onLoad failed in loadNamespace() for 'rJava', details:
call: dyn.load(file, DLLpath = DLLpath, ...)
error: unable to load shared object '/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rJava/libs/rJava.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rJava/libs/rJava.so, 6): Library not loaded: #rpath/libjvm.dylib
Referenced from: /Library/Frameworks/R.framework/Versions/3.4/Resources/library/rJava/libs/rJava.so
Reason: image not found
Error: package ‘XLConnectJars’ could not be loaded
R also throws a similar error message when I try to load the rJava package as well. I have tried uninstalling both Java and R and have scoured SO for answers, but nothing seems to work.
I am running macOS Sierra (10.12.6)
Would anyone be willing to offer any help?
The error suggests that there is an issue loading rJava. Try updating the Java configuration variables via R CMD javareconf or sudo R CMD javareconf.
When I try to install the bioconductor workflow 'highthroughputassays' as follows (and as described here):
> source("http://bioconductor.org/workflows.R")
> workflowInstall("highthroughputassays")
It installs a lot of dependent packages, but just before ending the installation it gives the following errors:
No man pages found in package ‘highthroughputassays’
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Error : .onLoad failed in loadNamespace() for 'rgl', details:
call: dyn.load(file, DLLpath = DLLpath, ...)
error: unable to load shared object '/Users/johansenkh/Library/R/3.3/library/rgl/libs/rgl.so':
dlopen(/Users/johansenkh/Library/R/3.3/library/rgl/libs/rgl.so, 6): Library not loaded: /opt/X11/lib/libGLU.1.dylib
Referenced from: /Users/johansenkh/Library/R/3.3/library/rgl/libs/rgl.so
Reason: image not found
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/Users/johansenkh/Library/R/3.3/library/highthroughputassays’
Warning in install.packages :
installation of package ‘highthroughputassays’ had non-zero exit status
The downloaded source packages are in
‘/private/var/folders/hb/sc3x6vtj0ys009qnyplbp2_h1g5hgm/T/RtmpDkWkRH/downloaded_packages’
Because of those errors, the workflow does not load;
library(flowStats)
gives a similar error after installing packages as described above.
I have tried it on 3 different Mac computers (all with the newest OS X, but one of them had the 3.3.1 version of R (The newest version is 3.3.2))
When trying library(rgl) I get the following error:
Error : .onLoad failed in loadNamespace() for 'rgl', details:
call: dyn.load(file, DLLpath = DLLpath, ...)
error: unable to load shared object '/Users/johansenkh/Library/R/3.3/library/rgl/libs/rgl.so':
dlopen(/Users/johansenkh/Library/R/3.3/library/rgl/libs/rgl.so, 6): Library not loaded: /opt/X11/lib/libGLU.1.dylib
Referenced from: /Users/johansenkh/Library/R/3.3/library/rgl/libs/rgl.so
Reason: image not found
Error: package or namespace load failed for ‘rgl’
I solved the problem as follows:
The problem was with loading 'rgl'.
By installing XQUARTZ (www.XQUARTZ.com) followed by restarting OS X (Log out and log in) the rgl-package worked. Thereafter the workflow installed as indicated above.
I'm trying to install an R package called ChemoSpec and am receiving the following error:
Error : .onLoad failed in loadNamespace() for 'rgl', details: call:
dyn.load(file, DLLpath = DLLpath, ...) error: unable to load shared
object
'/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rgl/libs/rgl.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rgl/libs/rgl.so,
6): Library not loaded: /opt/X11/lib/libGLU.1.dylib Referenced from:
/Library/Frameworks/R.framework/Versions/3.3/Resources/library/rgl/libs/rgl.so
Reason: image not found Error: package or namespace load failed for
‘ChemoSpec’
I'm running R version 3.3 using R Studio on OS X 10.10.5
Any help would be great! Thanks.
The problem is almost certainly that you do not have X11 installed. This in turn prevents rgl from installing, and in turn, ChemoSpec. Macs used to ship with X11 installed, but since OSX 10.6 they have not (info). You can install X11 from here. After that, try:
install.packages("rgl")
and if that is successful, do:
install.packages("ChemoSpec")
and you should be ready to go.
I just recently updated my Rstudio to the 0.98.1103 release and now I'm unable to load ggplot it keeps throwing the following error. Any ideas what is going on?
> library(ggplot2)
Error : .onLoad failed in loadNamespace() for 'tcltk', details:
call: dyn.load(file, DLLpath = DLLpath, ...)
error: unable to load shared object '/Library/Frameworks/R.framework/Versions/3.1/Resources/library/tcltk/libs/tcltk.so':
dlopen(/Library/Frameworks/R.framework/Versions/3.1/Resources/library/tcltk/libs/tcltk.so, 10): Library not loaded: /usr/X11/lib/libXft.2.dylib
Referenced from: /usr/local/lib/libtk8.6.dylib
Reason: image not found
Error: package or namespace load failed for ‘ggplot2
I tried removing the tcltk library and ggplot2 and reinstalling them now I'm getting a different set of errors:
> library(ggplot2)
Error : package ‘tcltk’ does not have a namespace
Error: package or namespace load failed for ‘ggplot2’
> library(tcltk)
Error in library(tcltk) : ‘tcltk’ is not a valid installed package
Seems like X11 is not installed on your system. Try installing xorg (if you're running Linux) or XQuartz if you're on OSX.