R Studio Crashed

[vivekmishra]

I was using one package on R version 3.4.2, but suddenly my R Studio started showing error: "R code execution error". Then, I tried reinstalling the same version of R but now I am unable to use the same package because it's showing the following error:

Error in readRDS(pfile) : **
** cannot read workspace version 3 written by R 3.6.0; need R 3.5.0 or newer

Please suggest how to fix this problem.

[andresrcs]

I am unable to use the same package because it's showing the following error:

Reinstall the package under your current R version.

[vivekmishra]

I removed the package and reinstalled it but I am getting the same error.

[pieterjanvc]

Hi,

I found a similar post here:

cannot read workspace version 3 written by R 3.6.0; need R 3.5.0 or newer

I am getting the same error. I will follow the steps and report back if it works or not. Error in readRDS(pfile) : cannot read workspace version 3 written by R 3.6.1; need R 3.5.0 or newer Calls: source ... library -> find.package -> lapply -> FUN -> readRDS BTW This is really a misleading error message. EDIT: I have re-installed R 3.3.3 for windows, because I am running SQL Server 2017. It seems working, but I got conflicting dependency errors.... EDIT 2: After I downloaded dependent packages for version 3.3.3 from https://cran.r-project.org/bin/windows/contrib/3.3/ and installed them to SQL Server 2017, it finally worked!

Apart from reinstalling the package, people also suggest reinstalling dependencies and checking the paths.

Hope this helps,
PJ

[jim89]

I'm going to guess that the error in reading version 3 files is due to this change in R 3.6.0 (https://cran.r-project.org/doc/manuals/r-release/NEWS.html):

Serialization format version 3 becomes the default for serialization and saving of the workspace ( save() , serialize() , saveRDS() , compiler::cmpfile() ). Serialized data in format 3 cannot be read by versions of R prior to version 3.5.0. Serialization format version 2 is still supported and can be selected by version = 2 in the save/serialization functions. The default can be changed back for the whole R session by setting environment variables R_DEFAULT_SAVE_VERSION and R_DEFAULT_SERIALIZE_VERSION to 2 . For maximal back-compatibility, files ‘vignette.rds’ and ‘partial.rdb’ generated by R CMD build are in serialization format version 2, and resave by default produces files in serialization format version 2 (unless the original is already in format version 3).

I'm guessing your on a version of R older than 3.6.0, and are trying to read a serialised file written by 3.6.0 (e.g. a workspace). What version of R are you using?

[vivekmishra]

I am using R version 3.4.2

[mara]

In that case, you will not be able to read in workspaces made from R 3.6. See my answer, below, with links to relevant changes:

Error listing packages, Error in readRDS(pfile): cannot read workspace version 3 written by R 3.6.0

What version of R are you running? The default serialization format for R changed in May 2018, such that new default format (version 3) for workspaces saved can no longer be read by versions of R older than 3.5 (you can see relevant commits in the CRAN mirror below) R 3.5 was a major update that required new installations of all packages (see post below) All of which is to say that I would recommend updating your version of R.

[vivekmishra]

Not solved yet. Don't know what to do. Tried several things:

1. Uninstalled new version of R 3.6.1, then tried to install a package on R 3.4.2, getting the following error.
   

   

2. Installed new version (R 3.6.1) after removing all old version, still not working and showing the following error:

Error: package or namespace load failed for ‘SWATHtoMRM’:
** package ‘SWATHtoMRM’ was installed by an R version with different internals; it needs to be reinstalled for use with this R version**

PS: the package is different but the error is the same.

[mara]

If you look at the links from the prior post two main things are true:

1. You can't load a workspace that was saved from R 3.6.1 with R 3.4.2
2. You need to reinstall all packages when you update to R >= 3.5

So, if you're using R 3.6.1 you can't use packages installed with R 3.4.2. In this case, you'd need to install SWATHtoMRM.

[andresrcs]

1. Installed new version (R 3.6.1) after removing all old version, still not working and showing the following error:

Error: package or namespace load failed for ‘SWATHtoMRM’:
** package ‘SWATHtoMRM’ was installed by an R version with different internals; it needs to be reinstalled for use with this R version*

After updating R to 3.6.1 version, run this command

update.packages(repos='http://cran.rstudio.com/', ask=FALSE, checkBuilt=TRUE)

[vivekmishra]

I ran the command, and I got following error: