I am having serious problems related with setwd. Just starting R session the first message I get (doing nothing) is:
Error in setwd(dir) : cannot change working directory
Then I had problems using specific libraries. For example with plotly, I can download the library but when I try to apply the funcion plot_ly I get the same error.
Now I am trying to use R Markdown so I need to install tinytex, when I execute tinytex::install_tinytex() I get this error:
Error in setwd(tempdir()) : cannot change working directory
I have been looking information about this issue but with not success. How can I solve this?
Related
I have installed h2o package(in R from RStudio console). Post h2o.init() I am trying to use the built in function upload_model()/upload_mojo() but I am getting following error.
h2o.upload_mojo()
Error in h2o.upload_mojo() : could not find function "h2o.upload_mojo"
h2o.upload_model()
Error in h2o.upload_model() : could not find function "h2o.upload_model"
I found work around to resolve this issue. Please find below the steps I followed:
Remove the package using: remove.packages("h2o")
Quit the current session and launch the new one.
Move out lock file for h2o from path where package was installed mostly under R with file name like - 00LOCK-h2o
Install new/latest version of package via RStudio console using install.packages()
It should now resolve this issue.
I have been running a very simple code in R for scraping a csv and saving it, and I am pretty sure it was working all fine until I updated R this morning.
My workspace clearly does contain folder 'reports/google'(), but I am getting a destination error. A code written as such:
download.file('https://www.file.csv',
destfile = paste0('reports/google/google_', today_date, '_report.csv'))
produces an 'Error in download.file("https://www.file.csv", :
cannot open destfile 'reports/google/google_2020-06-07_report.csv', reason 'No such file or directory'
This occurs despite the folders existing and csv being online. Is there a package which I missed installing during update for paste0? I would have thought it updated with R itself as it is a base suite package. Any advice would be welcome.
Edit: if I only paste0 as
destfile = paste0('google_', today_date, '_report.csv'))
it works just fine. But I would really like to save it to subfolder.
Strangely enough, restarting my PC resolved the issue, without any change in code, for future reference of anyone finding this problem after updates.
I tried to load data to my R working directory and receive this error:
Error: bad restore file magic number (file may be corrupted) -- no data loaded
In addition: Warning message:
file ‘classize.RData’ has magic number 'RDX3'
Use of save versions prior to 2 is deprecated
I googled it and tried many options, unsuccessfully.
My Rstudio version is: 1.2.5033 (The error was happening before updating as well)
I create a new project, in the new directory, I put the data file
The data file is "classize.RData"
I have another alternative which is "classize.RDS" with the sugesstion to use readRDS(file = "classize.RDS"). When using this command, I receive that error:
cannot read workspace version 3 written by R 3.6.1; need R 3.5.0 or newer
This is in the context of a statistical course at university and my teacher assistant is unable to help me out, and whitout resolving this issue, I cannot move forward in the resolution of the needed exrecices. So please, couly you help me resolve that problem.
ps: all the students have access to the same data, It's just for me that it's not working, therefore the file should not be corrupted.
installed.packages() command in R lists your installed packages. Mine was working for almost a year and then this command randomly started throwing an error. As this is a built-in command, I am not even sure how to "reinstall" it or address this. Any ideas how to fix the error and get the command working again?
> installed.packages()
Error in gzfile(file, mode) : cannot open the connection
In addition: Warning message:
In gzfile(file, mode) :
cannot open compressed file `'C:\Users\Mitch\AppData\Local\Temp\Rtmp6Dawpa/libloc_190_4464fd2b.rds', probable reason 'No such file or directory'`
One suggestion on here involved this in combination:
.libPaths()
installed.packages(lib.loc = 'my path')
The results of this produced yet another error as shown here. Looks like an issue with the installed file still but how to address is the question:
> installed.packages(lib.loc = 'C:/ProgramFilesCoders/R/R-3.3.2/library')
Error in gzfile(file, mode) : cannot open the connection
In addition: Warning message:
In gzfile(file, mode) :
cannot open compressed file 'C:\Users\Mitch\AppData\Local\Temp\Rtmp6Dawpa/libloc_190_4464fd2b.rds', probable reason 'No such file or directory'
>
That is odd.
What version of R are you running, standard R or Microsoft R? And did you recently update?
If you did recently update, perhaps your packages did not get copied over, hence the 'No such file or directory' statement.
If you haven't updated, I would install a newer version and see if it fixes the issue.
If your uncertain, you can always use the updateR function to check if you have the latest version and choose to install it or not.
library(installr)
updateR()
Good luck,
I think the issue lies in terms of the where the function is looking for the package information. installed.packages() needs an argument lib.loc.
From official documentation
lib.loc character vector describing the location of R library trees to search through
Looks like the function for some reason is looking in AppData\Local\Temp which is the download location and not the installed location.
Without looking at your R_Home and .libPaths() is difficult to nail down where the problem is, however running .libPaths() should give you one or more paths as shown in the below example. None of these should be temp locations.
>.libPaths()
[1] "C:/Users/UserName/Documents/R/win-library/3.4"
[2] "C:/Program Files/R/R-3.4.0/library"
If not, you can set the path within the .libPaths("your path") or pass the path of the library as part of installed.packages(lib.loc = 'your path') and try again.
Sometimes the most simple obvious solution is what works:
I closed my RStudio environment saving it to .RData
I re-opened RStudio and tried the command again
it worked
For the future, some good ideas got posted on here before I thought to try the above. Here are the suggestions that others included in case the above does not work if this problem is encountered by anyone in the future:
Use .libPaths() to find out proper path where this is installed, and then re-run the command with the path included in it like so: installed.packages(lib.loc = 'your path')
Try debugging it with: debug(installed.packages); Expectation is that we will likely find something wrong with .readPkgDesc(lib, fields) while stepping through debug. This was not tried yet so you may encounter things not written up here when you do try it.
Try Updating R in case it is out of date with these commands: library(installr) and updateR().
I have been using roxygen2::roxygenise quite successfully with my package to build exported and imported functions. However, I recently ran into this error which I am unable to resolve:
> roxygen2::roxygenise()
First time using roxygen2. Upgrading automatically...
Error: File file does not exist
This is not the first time I have used roxygen2 with this package. In addition, I am not quite sure what "File file does not exist" means. Has anyone else seen this and been able to resolve it?
I think you have to set the working directory of R to be the package folder
I got the same error when using:
roxygen2::roxygenise("mypackage")
But, I didn't get the error when I instead used:
library(roxygen2)
roxygenise()
I know this is no explanation and I can't comment upon whether this works beyond my case.