During the installation I had no problem,
I need to use this package but when loading it I have an error that does not allow me to use it properly
I have already tried the restart R trick but this persists; below the error:
> library(plotKML)
#Error: package or namespace load failed for ‘plotKML’ in get(Info[i, 1], envir = env):
#lazy-load database 'C:/Users/User/Documents/R/win-library/4.1/e1071/R/e1071.rdb' is corrupt
#In addition: Warning message:
#In get(Info[i, 1], envir = env) : internal error -3 in R_decompress1
I was using R version 4.1.0 and update to 4.1.1 in order to solve this but the problem persists
the platform is: i386-w64-mingw32 / i386 (32-bit)
I do it through Rstudio Version 1.0.153
Any idea how to fix it?
I am new at this :)
Dave2e thanks for your comentary, it really worked, only it gave me 2 errors similar to the one presented in the question and consecutive after reinstalling the package e1071:
#lazy-load database'C:/Users/User/Documents/R/win-library/4.1/aqp/R/aqp.rdb' is corrupt'
#lazy-load database'C:/Users/User/Documents/R/win-library/4.1/gstat/R/gstat.rdb' is corrupt'
sorry I did not copy the complete code as I was amused to find a way forward. and I'm sure the error lines on the console weren't 100% the same
to which, under the same logic, reinstall the "aqp" and "gstat" packages , restarting Rstudio between each installation, since when trying to load the plotKML package immediately in the same session the error persists
here the victory:
> library(plotKML)
plotKML version 0.8-1 (2021-04-12)
URL: https://github.com/Envirometrix/plotKML/
Warning message:
R graphics engine version 14 is not supported by this version of RStudio. The Plots tab will be disabled until a newer version of RStudio is installed.
Related
I've been trying to install the Sleuth package in R all morning and it keeps giving me errors. This is how I tried to install it:
if(!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DESeq2")
BiocManager::install ("rhdf5")
install.packages("devtools")
devtools:: install_github("pachterlab/sleuth")
I did use the library() command.
I get the following error messages:
Error: object 'h5write.default' is not exported by 'namespace:rhdf5'
Execution halted
ERROR: lazy loading failed for package 'sleuth'
removing 'C:/Users/31625/OneDrive/Documents/R/win-library/4.1/sleuth'
I was having the same issue and found that there's current an open issue on Github discussing this problem.
Currently there is a workaround which was shared in the same issue on Github:
Run git clone https://github.com/pachterlab/sleuth
Remove the last line in ./sleuth/NAMESPACE which is the h5write.default that raises the error during installation - ignore the warning in the first line
Then in R: devtools::install('./sleuth/')
It worked for me while using Linux - ZorinOS and R 4.1.2 but it should work on Windows as well.
Someone also opened a PR to fix the whole issue but it seems they are not updating the package anymore (unfortunately).
I am trying to install the forecast package which depends on uroot, which apparently have been written to require a GPU?
install.packages("uroot") yields the following error. Has anyone found this issue and may suggest a work around? I am using ubuntu 16.04.
I have the file in question located here: /usr/local/cuda-8.0/ and I added to my path export PATH=/usr/local/cuda-8.0/:$PATH
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/home/rstudio2/R/x86_64-pc-linux-gnu-library/3.2/uroot/libs/uroot.so':
libcudart.so.8.0: cannot open shared object file: No such file or directory
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/home/rstudio2/R/x86_64-pc-linux-gnu-library/3.2/uroot’
Warning in install.packages :
installation of package ‘uroot’ had non-zero exit status
Just in case this is useful for someone, I stumbled with the same problem trying to install "imputeTS" with R version 3.5.1 on Fedora 27 with CUDA 10.0 correctly installed an setted in PATH.
for me it just happened that I was running install.package("imputeTS") (which depends on forecast) in a R console as root, installing the packages to the user home solved the problem. It's seems that the libraries are searched in different places according to the user running the script, it's important to note that.
I just migrated to Linux. On an Ubuntu 18.04 setup, using install.packages with dependencies set to TRUE succeeded with no complaints. (No GPU on mu box.)
install.packages("forecast", dep=TRUE)
# there are quite a few dependencies and you happened to be missing one
packageDescription()
#-----------includes this line----------
Imports: colorspace, fracdiff, ggplot2 (>= 2.2.1), graphics, lmtest,
magrittr, nnet, parallel, Rcpp (>= 0.11.0), stats,
timeDate, tseries, urca, uroot, zoo
You can try to modify file "/etc/rstudio/rserver.conf", add "LD_LIBRARY_PATH" env, like:
rsession-ld-library-path=/usr/local/cuda/lib64
Actually, When you open session of "RStudio Server" from browser, the session does't get env from the ".bashrc".
I am using R version 3.3.1 on RStudio interface, and a Windows 10 OS. I was trying to install the 'quantreg' package for quantile regression, however I was getting the error message
Warning in install.packages :
InternetOpenUrl failed: 'The operation timed out'
Warning in install.packages :
downloaded length 180224 != reported length 1521162
Warning in install.packages :
package ‘quantreg’ is not available (for R version 3.3.1)
I repeated the process afterwards several times but got the last line of the above error all the time. Thinking it was due to using an older R version, I tried updating by installing the 'installr' package, but that too gave me the same error as above. I tried updating R from the Tools Menu, but it kept telling me that the current R version is the latest.
Also this is my first time here, so apologies if I've messed up the blockquoting.
You need to downgrade R.
Download an older version here (I recommend 3.2.5) and install.
Then (in R), go to Tools > Global Options > press the "Change" button.
Now simply select the version you want and restart R and try reinstalling the package.
I just started using R and downloaded ggplot2
install.packages("ggplot2")
I get the following warning:
Warning in install.packages:
unable to move temporary installation '\\CHI-FIlE-01\UserFolders$\naresh.kavuri\Documents\R\win-library\3.2\file27ac2d3b613c\ggplot' to '\\CHI-FILE-01\UserFolders$\naresh.kavuri\Documents\R\win-library\3.2\ggplot2'
This warning is followed up with this error:
Error: invalid version specification 'NA'
In addition: warning message:
In utils:::packageDescription(packageName, fields = "Version") :
no package 'knitr' was found
As anyone come across this problem before? Did I do something wrong in the setup?
If you have multiple versions of R running, and you try to update or reinstall a package in one version of R while it is loaded in another, then the old version of the package doesn't get completely removed.
Try closing down all instances of R, manually deleting the folder containing the package, then opening a single version of R and reinstalling.
As Pascal commented, antivirus file scans can also interfere with the installation process. Sometimes downloading the package zip/tar.gz file then installing from disk can circumvent the issue.
I am not able to work in swirl package in R. I am able to install the swirl
package correctly. But while giving the library("swirl") command the error comes up.I have tried every thing like I am not able to find the answer of this error on internet. I have reinstalled R complete. I have tried changing directory. But still this error message is coming. Please help.This is the error message:
library("swirl")
Error in get(Info[i, 1], envir = env) :
cannot open file
'C:/Users/Devender/Documents/R/win-library/3.2/httr/R/httr.rdb': No such
file or directory
Error: package or namespace load failed for ‘swirl’
Thanks alot in advance
Try installing httr package. I think it will solve your problem.
You did not say which R version you are using.
Some Swirl packages are not available for few R versions as 3.2.2. You cant even download any courses from Github repositories into the Swirl if Swirl was successfully loaded in R.
You may want to re-install a different version of R to avoid this Swirl issue, and try again.