I am trying to run this simple code.
library("RSelenium")
checkForServer()
startServer() #Default server
remDr <- remoteDriver$new()
remDr$open(silent = TRUE) #Opens a browser
But I am getting this error:
Error: Summary: UnknownError
Detail: An unknown server-side error occurred while processing the command.
class: org.openqa.selenium.WebDriverException
How can I fix this?
Diagnosis
sessionInfo()
R version 3.2.3 (2015-12-10)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.11.3 (El Capitan)
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] RSelenium_1.3.5 XML_3.98-1.3 RJSONIO_1.3-0 RCurl_1.95-4.7 bitops_1.0-6 dplyr_0.4.3
[7] rvest_0.3.1 xml2_0.1.2
loaded via a namespace (and not attached):
[1] Rcpp_0.12.3 assertthat_0.1 R6_2.1.2 DBI_0.3.1 magrittr_1.5
[6] httr_1.1.0 curl_0.9.6 tools_3.2.3 parallel_3.2.3 rsconnect_0.4.1.11
[11] caTools_1.17.1
system("java -version")
java version "1.7.0_79"
Java(TM) SE Runtime Environment (build 1.7.0_79-b15)
Java HotSpot(TM) 64-Bit Server VM (build 24.79-b02, mixed mode)
Related
When I open Rstudio I get this error message in my console
Error: evaluation nested too deeply: infinite recursion / options(expressions=)?
It happens when I open any script or Rproject. I couldn't find any info on this error and how to address it. I've tried uninstalling R and installing it again but the problem persists. Any ideas on how to solve this?
Here is my session Info
> sessionInfo()
R version 3.6.2 (2019-12-12)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18362)
Matrix products: default
locale:
[1] LC_COLLATE=Portuguese_Brazil.1252 LC_CTYPE=Portuguese_Brazil.1252
[3] LC_MONETARY=Portuguese_Brazil.1252 LC_NUMERIC=C
[5] LC_TIME=Portuguese_Brazil.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] geobr_1.2.1
loaded via a namespace (and not attached):
[1] compiler_3.6.2 magrittr_1.5 class_7.3-15
[4] DBI_1.1.0 tools_3.6.2 units_0.6-5
[7] Rcpp_1.0.3 KernSmooth_2.23-16 grid_3.6.2
[10] e1071_1.7-3 classInt_0.4-2 sf_0.8-0
I'm using RBioFormats for image processing purposes with R. I'm not able to load RBioFormats library when my computer has not internet connection.
R's console throught the error message:
Error: package or namespace load failed for 'RbioFormats':
.onLoad failed in loadNamespace() for 'RBioFormats', details:
call: NULL
error: failed to download Bio-Formats Java library
Check your internet connection
I'm using GNU/Linux OS. Firstly, I thought it was due to the version 11 of java environment installed. I've noticed the v11 is a develper version. After installing java environment v8, result in the same error output. The result is that I cannot use RBioFormats library when I have not internet connection.
> sessionInfo()
R version 3.6.0 (2019-04-26)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Anarchy Linux
Matrix products: default
BLAS: /usr/lib/libblas.so.3.8.0
LAPACK: /usr/lib/liblapack.so.3.8.0
locale:
[1] LC_CTYPE=es_ES.UTF-8 LC_NUMERIC=C LC_TIME=es_ES.UTF-8 LC_COLLATE=es_ES.UTF-8 LC_MONETARY=es_ES.UTF-8
[6] LC_MESSAGES=es_ES.UTF-8 LC_PAPER=es_ES.UTF-8 LC_NAME=es_ES.UTF-8 LC_ADDRESS=es_ES.UTF-8 LC_TELEPHONE=es_ES.UTF-8
[11] LC_MEASUREMENT=es_ES.UTF-8 LC_IDENTIFICATION=es_ES.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] RBioFormats_0.0.54 rJava_0.9-11
loaded via a namespace (and not attached):
[1] Rcpp_1.0.1 locfit_1.5-9.1 lattice_0.20-38 png_0.1-7 fftwtools_0.9-8 digest_0.6.19 bitops_1.0-6 tiff_0.1-5
[9] grid_3.6.0 EBImage_4.26.0 tools_3.6.0 htmlwidgets_1.3 RCurl_1.95-4.12 jpeg_0.1-8 abind_1.4-5 parallel_3.6.0
[17] compiler_3.6.0 BiocGenerics_0.30.0 htmltools_0.3.6
Since RBioFormats version 0.057, is not required Internet connection on startup anymore. Link to commit
I've error while trying to call ez library for rAnova, the issue that I cannot found pbkrtest package while I executed with success install.packages("ez"). library(ez) return to me the following error :
Error in loadNamespace (j <- i [[1L]], c (lib.loc, .libPaths ()) = vI VERSIONCHECK [[j]]): no package named 'pbkrtest' is found
In addition: Warning message: package 'ez' was compiled with version 3.2.5 R Error: loading the package or namespace failed for 'ez'
How can I properly use this library ? Thanks
EDIT : Sessioninfo()
R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 8 x64 (build 9200)
locale:
[1] LC_COLLATE=French_France.1252 LC_CTYPE=French_France.1252
[3] LC_MONETARY=French_France.1252 LC_NUMERIC=C
[5] LC_TIME=French_France.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] devtools_1.12.0
loaded via a namespace (and not attached):
Error in x[["Version"]] : index out of limits
De plus : Warning messages:
1: In FUN(X[[i]], ...) :
The file DESCRIPTION of the package 'digest' is missing or incorrect
2: In FUN(X[[i]], ...) :
The file DESCRIPTION of the package 'nlme' is missing or incorrect
EDIT 2: Sessioninfo() after restarting machine and R
R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 8 x64 (build 9200)
locale:
[1] LC_COLLATE=French_France.1252 LC_CTYPE=French_France.1252
[3] LC_MONETARY=French_France.1252 LC_NUMERIC=C
[5] LC_TIME=French_France.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] MASS_7.3-45 Matrix_1.2-7.1 tools_3.2.2 mgcv_1.8-15
[5] nnet_7.3-12 nlme_3.1-121 grid_3.2.2 lattice_0.20-34
but still the same error (above) when tape library(ez).
So it seems that was a question of R version. As noticed in the error and as I understood 'ez' was compiled with version 3.2.5 R. So now i'm under 3.3.1 and I intalled EZ with success and can load the library and use the function. The more complicated is to reinstall R and all packages that seems painful, but thanks to this great post that allow me to store all my packages in a temp folder and to reinstall them in the newest version
For information if it could help someone else, my Sessioninfo() returns :
R version 3.3.1 (2016-06-21)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 8.1 x64 (build 9600)
locale:
[1] LC_COLLATE=French_France.1252 LC_CTYPE=French_France.1252 LC_MONETARY=French_France.1252
[4] LC_NUMERIC=C LC_TIME=French_France.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] ez_4.3
loaded via a namespace (and not attached):
[1] Rcpp_0.12.7 magrittr_1.5 splines_3.3.1 MASS_7.3-45 munsell_0.4.3
[6] colorspace_1.2-6 lattice_0.20-33 minqa_1.2.4 stringr_1.1.0 car_2.1-3
[11] plyr_1.8.4 tools_3.3.1 nnet_7.3-12 parallel_3.3.1 pbkrtest_0.4-6
[16] grid_3.3.1 nlme_3.1-128 gtable_0.2.0 mgcv_1.8-12 quantreg_5.29
[21] MatrixModels_0.4-1 lme4_1.1-12 Matrix_1.2-6 nloptr_1.0.4 reshape2_1.4.1
[26] ggplot2_2.1.0 stringi_1.1.2 scales_0.4.0 SparseM_1.72
>
I am trying to run a standard corpus loading method in the mallet R package and more specifically
instance <- mallet.import(names(txt$CELEX), txt$TEXT, stoplist.file = "stopwords.en.txt", token.regexp = "\\p{L}[\\p{L}\\p{P}]+\\p{L}")
Then I get the following error
Error in .jcall("RJavaTools", "Ljava/lang/Object;", "invokeMethod", cl, :
java.lang.NullPointerException
which seems to me more like an rJava error more than anything else. My sysinfo follows:
R version 3.3.0 (2016-05-03)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1
locale:
[1] LC_COLLATE=Danish_Denmark.1252 LC_CTYPE=Danish_Denmark.1252 LC_MONETARY=Danish_Denmark.1252
[4] LC_NUMERIC=C LC_TIME=Danish_Denmark.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] mallet_1.0 XLConnect_0.2-12 XLConnectJars_0.2-12 quanteda_0.9.6-9 rJava_0.9-8
[6] topicmodels_0.2-4
loaded via a namespace (and not attached):
[1] Rcpp_0.12.5 lattice_0.20-33 slam_0.1-35 chron_2.3-47 grid_3.3.0 stats4_3.3.0
[7] stringi_1.1.1 data.table_1.9.6 NLP_0.1-9 ca_0.64 Matrix_1.2-6 tools_3.3.0
[13] parallel_3.3.0 tm_0.6-2 modeltools_0.2-21
I use Java 8 in case it matters. I read somewhere that rJava is not playing well with Java 8
That's not the usual error from rJava problems, which seem to have settled down.
One possible problem could be that the stoplist file does not exist or is not in the right place.
I am getting an error when trying to start h2o. Running the following start-up commands:
library(h2o)
localH2O = h2o.init(ip = "localhost", port = 54321, startH2O = TRUE)
Gives the following error:
Error in system2(command, "-version", stdout = TRUE, stderr = TRUE) : '""' not found
It's not particularly enlightning. Does anyone have a hint as to what is the problem? Java is installed on the system, but unlike the question here I do not get any Java warnings.
Running system("java -version") gives:
java version "1.8.0_65"
Java(TM) SE Runtime Environment (build 1.8.0_65-b17)
Java HotSpot(TM) 64-Bit Server VM (build 25.65-b01, mixed mode)
Here is the output of sessionInfo():
R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows Server 2008 R2 x64 (build 7601) Service Pack 1
locale:
[1] LC_COLLATE=Danish_Denmark.1252 LC_CTYPE=Danish_Denmark.1252 LC_MONETARY=Danish_Denmark.1252
[4] LC_NUMERIC=C LC_TIME=Danish_Denmark.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] h2o_3.6.0.8 statmod_1.4.22 deepnet_0.2
[4] TTR_0.23-0 selectiveInference_1.1.1 intervals_0.15.1
[7] lars_1.2 glmnet_2.0-2 foreach_1.4.3
[10] Matrix_1.2-2 wq_0.4.4 zoo_1.7-12
[13] skm_1.0.2 stringi_1.0-1 devtools_1.9.1
loaded via a namespace (and not attached):
[1] Rcpp_0.12.2 rstudioapi_0.3.1 magrittr_1.5 MASS_7.3-43 munsell_0.4.2
[6] colorspace_1.2-6 lattice_0.20-33 stringr_1.0.0 plyr_1.8.3 xts_0.9-7
[11] tools_3.2.2 grid_3.2.2 gtable_0.1.2 iterators_1.0.8 digest_0.6.8
[16] reshape2_1.4.1 ggplot2_1.0.1 bitops_1.0-6 codetools_0.2-14 RCurl_1.95-4.7
[21] memoise_0.2.1 scales_0.3.0 jsonlite_0.9.17 proto_0.3-10
I had the same problem. You not only need to install the java client but also the java SDK software.
See also logged issue with H2O