I've installed the rJava pack successfully. However, when I run the command library(rJava), I get the following error.
> library(rJava) Error : .onLoad failed in loadNamespace() for 'rJava', details: call: fun(libname, pkgname) error: JAVA_HOME
cannot be determined from the Registry Error: package or namespace
load failed for ‘rJava’
How can I solve this issue?
I had this problem running XLConnect as well. It turned out that my instance of R was unable to see the Jave Virtual Machine on my 64 bit Windows computer at work. I simply found the 64 bit version of my jvm.dll file in the folder where it lives.
You can just at the path to that .dll file to your library or require() function and it should undo the madness, although, in my case, I had to update Java completely because it was too old and set this at the beginning of my script to point to the JAVA home.
Sys.setenv(JAVA_HOME="yourpathhere")
See if that works.
Related
I am having difficulty installing the zenplots package in R. For some odd reason when I use install.packages('zenplots') on my machine (Mac OS Catalina V-10.15.7) it installs fine... but when I try and install it on my second machine (also Mac OS Catalina V-10.15.7) and if I try and install it on my institutes server I get the following error:
Warning in fun(libname, pkgname) : couldn't connect to display ":0"
Error : package or namespace load failed for ‘loon’: .onLoad failed
in loadNamespace() for 'loon', details: call:
structure(.External(.C_dotTcl, ...), class = "tclObj") error: [tcl]
couldn't connect to display ":0".
Error: unable to load R code in package ‘zenplots’ Execution halted
I have also tried to install directly from GitHub using remotes::install_github('great-northern-diver/zenplots', force = T) but I get the same error as above.
I have even tried using install.packages("zenplots", repos="http://R-Forge.R-project.org") which works but unfortunatley this version doesn't contain all the functions found in zenplots.
My R version is above version 3.4.0, which is required for zenplots and as per the documentation I have already installed the graph package from BioConductor.
Any suggestions as to what might be the issue here?
I would guess that the R on your server was compiled without some feature required by the library. My guess: it is missing either tcltk or X11 support. To check do the following:
capabilities()
And see which features return FALSE, meaning they are not enabled.
Here's the error I get:
> library(rJava)
Error: package or namespace load failed for ‘rJava’:
.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
I see this is by no means a unique problem.. I've tried the solutions here, here and here. No success.
Some more details: I'm using R GUI, but I also can't load rJava through R terminal. I also didn't have any issue with rJava on R 3.3.s
You have two options here:
get older release of R and use precompiled version of rJava
get rJava sources and compile it for yourself
Note that rJava (most recent sources) require some features that are not embedded inside XCode and clang that is available via AppStore. You will need to do some low level stuff when it comes to building rJava package.
You can find detailed instruction here: http://www.owsiak.org/r-3-4-rjava-macos-and-even-more-mess/
If you decide to use older release of R, it's still a struggle to get it working, but way less to do: http://www.owsiak.org/r-java-rjava-and-macos-adventures/
JAVA_HOME path is different for different version of MAC OS.
In some cases there is /jre folder and in some cases it is not after /Home director manually go towards /server folder with CD command in terminal and using pwd copy the entire path use that to set the java.home then you can easily load rJava library. This is how I was able to fix the issue
options("java.home"="/Library/Java/JavaVirtualMachines/jdk-9.0.1.jdk/Contents/Home/lib")
Sys.setenv(LD_LIBRARY_PATH='$JAVA_HOME/server')
dyn.load('/Library/Java/JavaVirtualMachines/jdk-9.0.1.jdk/Contents/Home/lib/server/libjvm.dylib')
library(rJava)
While loading rJava package, I receive this error:
Error : .onLoad failed in loadNamespace() for 'rJava', details:
call: inDL(x, as.logical(local), as.logical(now), ...)
error: unable to load shared object 'C:/Users/ankitagarwal5/Documents/R/win-library/3.2/rJava/libs/x64/rJava.dll':
LoadLibrary failure: %1 is not a valid Win32 application.
In addition: Warning message:
package ‘rJava’ was built under R version 3.2.3
Error: package or namespace load failed for ‘rJava’
I referred various posts on StackOverflow and tried to make changes accordingly, but nothing worked. These are the various steps I followed to resolve the issue:
if (Sys.getenv("JAVA_HOME")!="")
Sys.setenv(JAVA_HOME="")
library(rJava)
This didn't work.
Then I tried this:
options(java.home="C:\\Program Files\\Java\\jre1.8.0_91\\")
library(rJava)
This didn't work either.
My jvm.dll is at this location in my Windows 7 64 bit OS - C:\Program Files (x86)\Java\jre1.8.0_91\bin\client
I also added C:\Program Files (x86)\Java\jre1.8.0_91\bin\client to my PATH variable in my Environment variables and restarted RStudio and tried to install and load rJava again. That also didn't work.
I would really appreciate if someone could please help me resolve this issue.
Thanks guys!
This worked for me -
This error is often resolved by installing a Java version (i.e. 64-bit Java or 32-bit Java) that fits to the type of R version that you are using (i.e. 64-bit R or 32-bit R). This problem can easily effect Windows 7 users, since they might have installed a version of Java that is different than the version of R they are using.
Note that it is necessary to ‘manually download and install’ the 64 bit version of JAVA. By default, the download page gives a 32 bit version .
You can pick the exact version of Java you wish to install from this link. If you might (for some reason) work on both versions of R, you can install both version of Java (Installing the “Java Runtime Environment” is probably good enough for your needs).
(Source: Uwe Ligges)
Other possible solutions is trying to re-install rJava.
If that doesn’t work, you could also manually set the directory of your Java location by setting it before loading the library:
Sys.setenv(JAVA_HOME='C:\\Program Files\\Java\\jre7') # for 64-bit version
Sys.setenv(JAVA_HOME='C:\\Program Files (x86)\\Java\\jre7') # for 32-bit version
library(rJava)
Refer this link - http://www.r-bloggers.com/how-to-load-the-rjava-package-after-the-error-java_home-cannot-be-determined-from-the-registry/
I encountered the same problem. Be sure to check the file path for Java. To solve the error I needed to download 64bit Java version. However the following code in R did not work as the folder was incorrect for the latest version for Java:
Sys.setenv(JAVA_HOME='C:\\Program Files\\Java\\jre7') # for 64-bit version
Instead I changed the name to:
Sys.setenv(JAVA_HOME='C:\\Program Files\\Java\\jre1.8.0_144')
Hope that helps
I have noticed in different fresh installations of R, RStudio and rJava in WIndows, that what fixes the error is:
Uninstall R
Reinstall R but only selecting one architecture. Example, x64, or x86, but not both. That tends to confuse R or RStudio when they are compiling.
In my case, I fixed the message
Error : .onLoad failed in loadNamespace() for 'rJava', details:
call: inDL(x, as.logical(local), as.logical(now), ...)
error: unable to load shared object 'C:/Users/ankitagarwal5/Documents/R/win-library/3.2/rJava/libs/x64/rJava.dll':
LoadLibrary failure: %1 is not a valid Win32 application.
Following steps 1 and 2 above.
I tried what the other have said to not avail. For me the solution was to eliminate the old folders and shortcuts of R version 32 bit on my computer that remained there even after uninstalling.
This happened to me when Java was updated to a 32-bit, but R required a 64-bit version.
The solution:
Simply download the 64-bit version of Java
install it.
Restart RStudio
Everything should work
Where to download 64-bit java:
I guess your OS architecture and R architecture are not matching. If they are matching, the following might be the problem
It worked for me after i added the R library path to the environment variables list on my windows 7.
So,
Add 'C:/Users/Rohan-PC/Documents/R/win-library/3.1' this path to the Path variables list under System variables list(not to be confused with the PATH variable under User variables). Restart R and try loading the library. It works!!!!!
If you have both 64-bit R and 32-bit R versions installed, try from each one.
For me it worked on R 64bits but not R 32bits.
But of course that depends on your java version (64-bit Java vs 32-bit Java).
I am using 64 bit windows 7 & 64 bit R 3.2.0. I have downloaded rJava package, but it is giving an error as follows.
Error : .onLoad failed in loadNamespace() for 'rJava', details:
call: dirname(this$RuntimeLib) error: a character vector argument
expected In addition: Warning message: package ‘rJava’ was built under
R version 3.2.2 Error: package or namespace load failed for ‘rJava’
I searched stackoverflow for answers, and did the following:
1) Added the jvm.dll file to my PATH variable, i.e. in the following directory:
C:\Program Files\Java\jdk1.8.0_25\jre\bin\
2) I am using 64 bit R 3.2.0 & checked if the JVM version was 64 bit or not, typing the following on the command line:
java -d64 -version
It gave the following output:
C:\Users\xyz> java -d64 -version
java version "1.8.0_25"
Java(TM) SE Runtime Environment (build 1.8.0_25-b18)
Java HotSpot(TM) 64-Bit Server VM (build 25.25-b02, mixed mode)
So at least the JVM matches with R.
So what more needs to be done to make rJava work? I also checked my PATH variable and it seems okay.
I know this is way too late, but did you try switching R versions as a diagnostic step?
For RStudio 1.0.136: Tools -> Global Options... -> General: R version: Change - Choose 32 bit.
Changing versions worked for me and prompted me to revisit my java installation. (Ended up just using R32)
Got the same error with R64:
Loading required package: XLConnectJars
Error : .onLoad failed in loadNamespace() for 'rJava', details:
call: dirname(this$RuntimeLib)
error: a character vector argument expected
Error: package ‘XLConnectJars’ could not be loaded
Was running RStudio on Windows 10 using machine's default R64.
Ya must specify where the jdk is. For example:
Sys.setenv(JAVA_HOME='C:\\Program Files\\Java\\jdk1.8.0_161')
then it should work.
I wish to load rJava in R x64 3.1.2.
OS- Windows 8.1 64 bit
Though installation seems to work fine:
> install.packages("rJava")
Installing package into ‘C:/Users/sony/Documents/R/win-library/3.1’
(as ‘lib’ is unspecified)
--- Please select a CRAN mirror for use in this session ---
trying URL 'http://cran.utstat.utoronto.ca/bin/windows/contrib/3.1/rJava_0.9-6.zip'
Content type 'application/zip' length 758898 bytes (741 Kb)
opened URL
downloaded 741 Kb
package ‘rJava’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\sony\AppData\Local\Temp\RtmpamYUH7\downloaded_packages
I get an error while loading the package:
library(rJava)
Error in get(Info[i, 1], envir = env) :
lazy-load database 'C:/Users/sony/Documents/R/win-library/3.1/rJava/R/rJava.rdb' is corrupt
In addition: Warning message:
In get(Info[i, 1], envir = env) : internal error -3 in R_decompress1
Error: package or namespace load failed for ‘rJava’
I know that I am working on R-64 bit and at same time the environment variable Path is set to:
C:\Program Files\Java\jdk1.7.0_51\bin;C:\Program Files\Java\jre7\bin\server;
also, so the Java version is 64 bit too. I don't understand the reason behind the error.
On manually setting through R:
options(java.home="C:\\Program Files\\Java\\jdk1.7.0_51\\bin")
library(rJava)
I get this error:
Error : .onLoad failed in loadNamespace() for 'rJava', details:
call: inDL(x, as.logical(local), as.logical(now), ...)
error: unable to load shared object 'C:/Users/sony/Documents/R/win-library/3.1/rJava/libs/x64/rJava.dll':
LoadLibrary failure: The specified module could not be found.
Error: package or namespace load failed for ‘rJava’
Any advice? The error seems to have cropped up after I uninstalled some old version of Java.
OTHERS:
Also just to add, I do not set JAVA_HOME as a environment variable.
Uninstalling and Reinstalling R also doesn't seem to fix the problem.
Removing older java versions is too of no help.
Use:
Sys.setenv(JAVA_HOME='...path to JRE...')
e.g.
Sys.setenv(JAVA_HOME='C:\\Program Files\\Java\\jdk1.7.0_51\\jre')
Your environment variable is wrong.
I got a similar error:
> library(rJava)
Error : .onLoad failed in loadNamespace() for 'rJava', details:
call: inDL(x, as.logical(local), as.logical(now), ...)
error: unable to load shared object 'C:/program files/R/R-3.1.2/library/rJava/libs/x64/rJava.dll':
LoadLibrary failure: The specified module could not be found.
My JAVA_HOME was pointing to JDK, rather than JRE.
> Sys.getenv("JAVA_HOME")
[1] "c:\\java\\jdk1.7.0_55"
> Sys.setenv(JAVA_HOME="c:\\java\\jdk1.7.0_55\\jre")
I could now load rJava and xlsx in R.
I've met a similar problem and spent an entire day to get it fixed.
Although my computer, windows7, and Rstudio are 64 bit, but my Java is 32 bit(!) Once I realized that, I download a 64 bit Java. I have to manually download, the automatic download will lead to the 32 bit version because my chrome browser is 32 bit. 64 bit Java will be automatically installed in
C:\Program Files\Java, however, 32 bit Java will be automatically
installed in C:\Program Files (x86) \Java.
This is an important indicator telling me my Java is 64 bit or 32 bit.
After installing the 64 bit Java, everything works perfect!
Faced similar error message.
Tried a few steps listed here.
Set Env. Variable, JAVA_HOME. => Didn't work.
Tried to install rJava +> Didn't work
Steps 3,4,5 worked..
Updated my Java 64 bit version 8.xx (latest available)
install.packages(rJava) ==> Success
install.packages(RWeka) ==> Success
I get this error every time Java sneaks an update onto my PC. When I go:
Sys.getenv("Path")
I find something in the output which looks like
C:\\Program Files \\Java\\jre1.8.0_112\\bin\\server\\
where the last few digits of the jre subfolder are outdated.
To fix this everywhere, you might want to edit the Windows environment variable. Do this by going WINDOWS + X key, selecting Command Prompt (Admin) from the menu, and typing
rundll32.exe sysdm.cpl,EditEnvironmentVariables
in the command box. This will call up this dialog box with edit rights for the PATH variable (and other system variables):
The Windows interface for editing long environment variables is a bit unwieldy, so after I click Edit... I like to copy-paste the resulting mess of paths to Notepad.exe, do the work there, and copy-paste back.
Had the same issue:
I was running 64-bit R you can check which version by closing and re-openning RStudio. It should be at the top.
I had 32-bit java installed i.e. Java folder was within C:\Program Files (x86).
I simply went on to Java.com and downloaded the 64-bit Java and added it's location at the end of the PATH in System variables and I can load rJava now. (The installation asked me to get rid of the old version which I did)
It is probably the issue with the setting with the JAVA_HOME pointer. In case you do not have JDK but JRE, here is you might have to do:
Sys.setenv(JAVA_HOME='C:\\Program Files\\Java\\jre1.8.0_161')
Remember to change the numbers after "jre" based on what you have on your computer. Here is a link that explains the difference between JDK and JRE.
Try downloading the RStudio daily build: http://dailies.rstudio.com
It worked for me on the second try after I tried everything else (updated R, Rstudio, Java, reinstalled rJava a million times, and followed all the stackoverflow advice).
The tip came from the RStudio support forums:
RStudio is indeed failing to read some of the start-up information normally provided by R here...
We have a potential fix for this in the latest daily builds of
RStudio -- if you're willing, you can try downloading and testing from
http://dailies.rstudio.com
I tried the above alternatives but it didnt work for me.
I found the solution here. Simply setting the JAVA_HOME allowed the rJava library to be loading fine.
Sys.getenv("JAVA_HOME")
Sys.setenv(JAVA_HOME="")
library(rJava)