Issues with devtools::install_github()

[Danilo Freire]

Hello everyone,

I'm really happy with RRO 8, but I'm having some issues when I try to install any package from Github. I'm using Ubuntu 14.04

An example: 

> library(devtools)
> devtools::install_github("twitter/BreakoutDetection")
Downloading github repo twitter/BreakoutDetection@master
Error in system(full, intern = quiet, ignore.stderr = quiet, ...) : 
  error in running command

> install_github("rasmusab/beepr")
Downloading github repo rasmusab/beepr@master
Error in system(full, intern = quiet, ignore.stderr = quiet, ...) : 
  error in running command

> Sys.info()
                                      sysname 
                                      "Linux" 
                                      release 
                          "3.13.0-37-generic" 
                                      version 
"#64-Ubuntu SMP Mon Sep 22 21:28:38 UTC 2014" 
                                     nodename 
                              "Inspiron-3520" 
                                      machine 
                                     "x86_64" 
                                        login 
                                    "unknown" 
                                         user 
                                      "sussa" 
                               effective_user 
                                      "sussa" 

Any suggestion or ideas? Thanks!

Best,
Danilo

[Andrie de Vries]

Hi, Danilo

Thank you for trying RRO and I'm glad you like it.

I tried your code in a Ubuntu 14.04 virtual machine and both packages installed without a problem, using the code you provided.

It seems unlikely to be the cause of your problem, but I had to install some Linux system dependencies first. Specifically, devtools requires RCurl, and RCurl depends on the linux libcurl-dev library.

To install this, I used the following in Linux:

sudo apt-get update

sudo apt-get install libcurl4-openssl-dev

Then devtools installed without a problem and my github packages installed.

It's a shot in the dark, but let me know what you find.

Regards

Andrie

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[Danilo Freire]

Hello, Andrie

Thanks a lot for the reply. Unfortunately, your tips didn't solve the problem. I updated my system, but both libcurl4-openssl-dev and RCurl were already installed. I reinstalled them, but I still cannot download the packages using devtools. 

Is there any other information that I can provide which might be of help? 

Thanks again,

Danilo

[Danilo Freire]

Hey there,

Sorry for bugging you guys again, but unfortunately I couldn't find a solution to the issue. It seems that other users also have the problem: https://github.com/twitter/BreakoutDetection/issues/6

Thanks again,

Danilo

[Andrie de Vries]

Hi, Danilo

I have opened a bug report at https://github.com/RevolutionAnalytics/RRO/issues/31

Your previous link indicates that the other user is working on a different locale.

Can you please provide the results of sessionInfo() so we can see your locale settings?

Andrie

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[Chris Mosetick]

Hi Danilo,

Where ever you are running RRO on Ubuntu 14.04, please make sure that system package g++ is installed:

apt-get install g++

Then you can use devtools to install BreakoutDetection with success.

cheers,

Chris

[Andrie de Vries]

Hi, Danilo

One of our system engineers tried to reproduce your problem using Ubuntu-14.04 (https://github.com/RevolutionAnalytics/RRO/issues/31#issuecomment-62703364)

The packages (and their dependencies) you are trying to install require the g++ compiler

Please try 

apt-get install g++

Then try to install from github again, and let us know what happens.

Andrie

[fl...@tiscalinet.it]

I got the same error by trying to install the package "rvest" with

> install_github("hadley/rvest")

My system is very similar to Danilo's (ubuntu 14.04, RRO 8, etc.). Then I tried:
 
> install_git("git://github.com/hadley/rvest")

and everything went fine!

Regards,
Antonio.

[Taavi Päll]

Hi,

I installed Revolution R Open 8.0 beta under ubuntu 12.04 and started to receive error with install_github(), fortunately install_git() works.

Best regards,

Taavi

> devtools::install_github("smbache/magrittr", ref = "dev")
Downloading github repo smbache/magrittr@dev

Error in system(full, intern = quiet, ignore.stderr = quiet, ...) : 
  error in running command

> devtools::install_git("git://github.com/smbache/magrittr.git", branch = "dev")

> sessionInfo()
R version 3.1.1 (2014-07-10)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C               LC_TIME=en_US.UTF-8       
 [4] LC_COLLATE=en_US.UTF-8     LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                  LC_ADDRESS=C              
[10] LC_TELEPHONE=C             LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
[1] devtools_1.6.1 httr_0.5       RCurl_1.95-4.3 stringr_0.6.2  tools_3.1.1   

[Danilo Freire]

Hi everyone,

Thank you so much for all your replies. I was out of town for the last days, so sorry for taking so long to write back.

Chris and Andries, thanks for the suggestion. However, I already had g++ installed, so apparently that was not the main problem.

Curiously, I followed Taavi's and Antonio's advice and everything works great now. Using install_git() instead of install_github() has solved my problem. Don't ask me why, but it does work :-) 

Once again, I'd like to thank you guys for your support.

Best,

Danilo

By the way, here's my sessionInfo() after I installed the package successfully. It's probably not relevant now, but anyway... :-)

> sessionInfo()
R version 3.1.1 (2014-07-10)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_GB.UTF-8       LC_NUMERIC=C               LC_TIME=en_GB.UTF-8       
 [4] LC_COLLATE=en_GB.UTF-8     LC_MONETARY=en_GB.UTF-8    LC_MESSAGES=en_GB.UTF-8   
 [7] LC_PAPER=en_GB.UTF-8       LC_NAME=C                  LC_ADDRESS=C              
[10] LC_TELEPHONE=C             LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] devtools_1.6

loaded via a namespace (and not attached):
[1] digest_0.6.4    htmltools_0.2.6 httr_0.5        RCurl_1.95-4.3  rmarkdown_0.3.3
[6] stringr_0.6.2   tools_3.1.1     yaml_2.1.13   

[David Smith]

Thanks for all the helpful reports everyone. We're looking into this problem, and you can track our progress at:

https://github.com/RevolutionAnalytics/RRO/issues/37

In the meantime, it appears the workaround is to use install_git instead of install_github,

Cheers,
# David Smith

-- 

David M Smith <da...@revolutionanalytics.com>
Chief Community Officer, Revolution Analytics  http://blog.revolutionanalytics.com
Tel: +1 (650) 646-9523 (Chicago IL, USA)

Twitter: @revodavid

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[Alexander Gedranovich]

options(unzip = 'internal') worked for me.

[Mahendra Bhandari]

> library(devtools)

> devtools::install_github("twitter/BreakoutDetection")
Downloading github repo twitter/BreakoutDetection@master
Error in system(full, intern = quiet, ignore.stderr = quiet, ...) : 
  error in running command

> install_github("rasmusab/beepr")
Downloading github repo rasmusab/beepr@master
Error in system(full, intern = quiet, ignore.stderr = quiet, ...) : 
  error in running command

Mine was similar error was able to resolve via

devtools::install_git("https://github.com/ramnathv/htmlwidgets.git", branch = "master")

devtools::install_git("https://github.com/smartinsightsfromdata/rpivotTable.git", branch = "master") 

This is htmlwidgets and rPivot table 

Thanks

Mahendra

[Madhavan Sriram]

I am facing the same issue (but with Windows though). Both install_github() and install_git() are not working

Stackoverflow link : http://stackoverflow.com/questions/31311872/error-while-using-install-github-devtools-timeout-issue

[Mahendra Bhandari]

please provide complete R command
Mahendra

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[Madhavan Sriram]

> install_github("hadley/httr")
Downloading github repo hadley/httr@master
Error in curl::curl_fetch_memory(url, handle = handle) : 
  Timeout was reached

> traceback()
13: .Call(R_curl_fetch_memory, url, handle)
12: curl::curl_fetch_memory(url, handle = handle)
11: request_fetch.write_memory(req$output, req$url, handle)
10: request_fetch(req$output, req$url, handle)
9: request_perform(req, hu$handle$handle)
8: httr::HEAD(src_submodules, , auth)
7: github_has_remotes(x, auth)
6: remote_download.github_remote(remote, quiet = quiet)
5: remote_download(remote, quiet = quiet)
4: FUN(X[[1L]], ...)
3: vapply(remotes, install_remote, ..., FUN.VALUE = logical(1))
2: install_remotes(remotes, ...)
1: install_github("hadley/httr")

> devtools::install_git("https://github.com/ropensci/plotly.git", branch = "master")
Downloading git repo https://github.com/ropensci/plotly.git
Error in git2r::clone(x$url, bundle, progress = FALSE) : 
  Error in 'git2r_clone': failed to send request: The operation timed out

Warm Regards,

Madhavan R Sriram

[David Smith]

Thanks for reporting the issue, Mahendra. Do you know if the issue is specific to Revolution R Open, i.e. have you tried it with CRAN R and found that the problem does not occur there?

Also, can you please let us know what operating system (which version of Windows) this occurs with? You might try running the command:

options(download.file.method = "wininet")

and trying install_github again and see if that resolves the issue.

Thanks,

# David Smith

[Madhavan Sriram]

That was brilliant David. It worked as soon as i put the options(download.file.method = "wininet") 

Thanks,

Madhavan

Warm Regards,

Madhavan R Sriram

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