Multiple --> Error: package or namespace load failed

[Jason.C]

Greetings,

I ran update packages via RStudio earlier tonight and now several packages no longer work, including:

• #tidyverse
• #ez
• #fuzzyjoin
• #dplyr
• #ggplot2
• #doBy
• #Hmisc
• #modelr
• #readr
• #plotly
• #factoextra

As my code no longer works, any help is greatly appreciated by an #rstatsnewbie

Software information:
RStudio Version 1.1.463
R version 3.5.3 (2019-03-11)

Cheers,
Jason

# title: "reprex_tidyverse"
# author: "Jason"
# date: 14/05/2019

library(tidyverse)
#> Error: package or namespace load failed for 'tidyverse':
#>  .onLoad failed in loadNamespace() for 'pillar', details:
#>   call: NULL
#>   error: .onLoad failed in loadNamespace() for 'vctrs', details:
#>   call: get(genname, envir = envir)
#>   error: object 'type_sum' not found

library(ez)
#>    Error: package or namespace load failed for ‘ez’:
#> 	.onLoad failed in loadNamespace() for 'pillar', details:
#> 	call: NULL
#>    error: .onLoad failed in loadNamespace() for 'vctrs', details:
#>    call: get(genname, envir = envir)
#>    error: object 'type_sum' not found

library(fuzzyjoin)
#>   Error: package or namespace load failed for ‘fuzzyjoin’:
#> 	.onLoad failed in loadNamespace() for 'pillar', details:
#> 	call: NULL
#>   error: .onLoad failed in loadNamespace() for 'vctrs', details:
#> 	call: get(genname, envir = envir)
#>     error: object 'type_sum' not found

^{Created on 2019-05-14 by the reprex package (v0.2.1)}

[mara]

Hi Jason,

Could you try installing pillar on its own? It also looks like your vctrs installation has something odd going on, so you might try re-installing that as well.

install.packages("pillar")

[Jason.C]

Thanks for the suggestion. I reinstalled both, and that seems to have helped with some of the other packages. However, #tidyverse and #plotly still don't work.

# title: "reprex_tidyverse"
# author: "Jason"
# date: 15/05/2019

library(tidyverse)
#> Error: package or namespace load failed for 'tidyverse' in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
#>  namespace 'vctrs' 0.1.0 is being loaded, but >= 0.1.0.9003 is required
library(plotly)
#> Loading required package: ggplot2
#> Error: package or namespace load failed for 'plotly' in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
#>  namespace 'vctrs' 0.1.0 is being loaded, but >= 0.1.0.9003 is required

^{Created on 2019-05-15 by the reprex package (v0.2.1)}

[Jason.C]

I’ve updated my jdk (see below) and reinstalled/updated all of the packages that weren't working. As of now, #tabulizer seems to be the only one not working. It also seems to be looking for jdk 11which I don't have so I'm not sure what to do at this point. Any suggestions?

Cheers,
Jason
#rstatsnewbie

java version "12.0.1" 2019-04-16
Java(TM) SE Runtime Environment (build 12.0.1+12)
Java HotSpot(TM) 64-Bit Server VM (build 12.0.1+12, mixed mode, sharing)

library(tabulizer)
#> Error: package or namespace load failed for 'tabulizer':
#>  .onLoad failed in loadNamespace() for 'tabulizerjars', details:
#>   call: NULL
#>   error: .onLoad failed in loadNamespace() for 'rJava', details:
#>   call: dyn.load(file, DLLpath = DLLpath, ...)
#>   error: unable to load shared object '/Library/Frameworks/R.framework/Versions/3.5/Resources/library/rJava/libs/rJava.so':
#>   dlopen(/Library/Frameworks/R.framework/Versions/3.5/Resources/library/rJava/libs/rJava.so, 6): Library not loaded: /Library/Java/JavaVirtualMachines/jdk-11.0.1.jdk/Contents/Home/lib/server/libjvm.dylib
#>   Referenced from: /Library/Frameworks/R.framework/Versions/3.5/Resources/library/rJava/libs/rJava.so
#>   Reason: image not found

^{Created on 2019-05-15 by the reprex package (v0.2.1)}

[mara]

I think the rJava issue is separate from from the others, so if you could open a new thread for this, that'd be great.

Thanks

[lionel]

Have you installed the development version of tidyr per chance? Could you reinstall tidyr please, to see if that fixes it?

[lionel]

Reinstalling vctrs and then tidyr from CRAN fixed the error for this user: https://github.com/tidyverse/dplyr/issues/4367

[Jason.C]

Thanks for the information. I’ve reinstalled all the packages and everything except tabulizer seems to be working. I am using the pivot_wider command in the development version of tidyr. However, after reinstalling the development version this seems to be working as well, but I had use the development version of vctrs (0.1.0.900) to get everything running smoothly. I will open another thread about the tabulizer issue.

Cheers,
Jason #rstatsnewbie