Getting error while setting up new R environment in "Code Envs" in DSS 4.2.3

Question

Hi, 

 

I m getting this error when i try to create R environment in DSS. I was able to create python 2.7 and 3.6 environment. I have R installed in my linux terminal. Can you please tell me why i am getting this error and how i can solve it.

In install.packages(toInstall, "/home/dataiku/dss_data/code-envs/R/env_R/lib/R/library",  :  installation of package ‘RJSONIO’ had non-zero exit statusExecution halted

Comments

Hi, Did you solve your issue?

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Hi
I downloaded the log and got this in the error. Do i need to install these packages in R in terminal.

No version requested for dplyr considering installed version OK:0.7.5
Package not installed: httr
No version requested for gtools considering installed version OK:3.5.0
No version requested for IRkernel considering installed version OK:0.8.9
Error: at least one package failed to install required version
In addition: Warning messages:
1: In install.packages(toInstall, "/home/dataiku/dss_data/code-envs/R/env_R/R.lib",  :
  installation of package ‘curl’ had non-zero exit status
2: In install.packages(toInstall, "/home/dataiku/dss_data/code-envs/R/env_R/R.lib",  :
  installation of package ‘httr’ had non-zero exit status
Execution halted

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What version of R is installed on your system? Are you using Anaconda?

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my R version is -> R version 3.4.4.

I am not using anaconda for R

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Hi,

I am experiencing the same error. I use R 3.5.1 with no anaconda. I replayed the R integration script as proposed. Unfortunately, the error still occurs. Here are the last few lines of the log output:

Package not installed: dplyr
No version requested for httr considering installed version OK:1.4.0
No version requested for gtools considering installed version OK:3.8.1
Package not installed: IRkernel
Error: at least one package failed to install required version
In addition: Warning messages:
1: In install.packages(toInstall, "/home/dataiku/dss/code-envs/R/R_test2/R.lib",  :
  installation of package ‘pillar’ had non-zero exit status
2: In install.packages(toInstall, "/home/dataiku/dss/code-envs/R/R_test2/R.lib",  :
  installation of package ‘htmltools’ had non-zero exit status
3: In install.packages(toInstall, "/home/dataiku/dss/code-envs/R/R_test2/R.lib",  :
  installation of package ‘tidyselect’ had non-zero exit status
4: In install.packages(toInstall, "/home/dataiku/dss/code-envs/R/R_test2/R.lib",  :
  installation of package ‘tibble’ had non-zero exit status
5: In install.packages(toInstall, "/home/dataiku/dss/code-envs/R/R_test2/R.lib",  :
  installation of package ‘repr’ had non-zero exit status
6: In install.packages(toInstall, "/home/dataiku/dss/code-envs/R/R_test2/R.lib",  :
  installation of package ‘dplyr’ had non-zero exit status
7: In install.packages(toInstall, "/home/dataiku/dss/code-envs/R/R_test2/R.lib",  :
  installation of package ‘IRkernel’ had non-zero exit status
Execution halted

Also, when I try to remove the coding environment, I get a warning:
"Jupyter support removal failed
ERR_CODEENV_JUPYTER_SUPPORT_REMOVAL_FAILED
Couldn't find kernel spec(s): r-dku-venv-r_test2"

Any other Idea besides replaying the R integration script?

Thanks

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Hi, Does your server have internet access? Could you post the entire log output of the ./bin/dssadmin install-R-integration command?

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Hi,

yes it has Internet access. A screenshot of the log output can be found here:
https://imgur.com/a/MO14ppe (I'm not able to post images in the replies)

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Thanks, the R integration script ran successfully. Could you restart DSS (./bin/dss restart) and then try to create a brand new R code environment from the UI (https://doc.dataiku.com/dss/latest/code-envs/operations-r.html)? If you get another error, please paste the whole log output  to this thread.

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Did it in exact the same way before (except I used ./bin/dss stop and start instead of restart) and got the error above. But now it worked. Thank you!

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Awesome! Have fun with R!

Answer 1

Can you replay the R integration script and then try again to create the code env?

Comments

What do you mean by "Replay the R integration script" ? Can you explain in details

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https://doc.dataiku.com/dss/latest/installation/r.html