Re: minor bug in babel with silent output and remote R session

[Thomas Alexander Gerds <tag@biostat.ku.dk>]

yes, I am quite sure. here is the org code
,----
| 
| #+BEGIN_SRC R :results silent :exports results  :session *ssh gauss* :cache yes 
| a=1
| 1
| #+END_SRC
| 
| #+BEGIN_SRC R :results output :exports results  :session *ssh gauss* :cache yes 
| a=1
| 1
| #+END_SRC
| 
| #+RESULTS[<2013-03-13 17:26:16> 4d5d8eeab67e30060345cd66f44466bd168af55a]:
| : [1] 1
`----

and here the contents of the *ssh gauss* buffer

,----
| 
| Last login: Wed Mar 13 08:41:53 2013 from 10.128.132.66
| IFSV default server Policy.
| NFS monteret home under /home/ifsv
| $ R
| WARNING: ignoring environment value of R_HOME
| 
| R version 2.15.2 (2012-10-26) -- "Trick or Treat"
| Copyright (C) 2012 The R Foundation for Statistical Computing
| ISBN 3-900051-07-0
| Platform: x86_64-unknown-linux-gnu (64-bit)
| 
| R is free software and comes with ABSOLUTELY NO WARRANTY.
| You are welcome to redistribute it under certain conditions.
| Type 'license()' or 'licence()' for distribution details.
| 
|   Natural language support but running in an English locale
| 
| R is a collaborative project with many contributors.
| Type 'contributors()' for more information and
| 'citation()' on how to cite R or R packages in publications.
| 
| Type 'demo()' for some demos, 'help()' for on-line help, or
| 'help.start()' for an HTML browser interface to help.
| Type 'q()' to quit R.
| 
| options(STERM='iESS', str.dendrogram.last="'", editor='emacsclient', show.error.locations=TRUE)
| [Previously saved workspace restored]
| 
| > > > [1] 1
| > Warning message:
| In file.rename(tfile, transfer.file) :
|   cannot rename file '/tmp/RtmpLkxWKf/file8bd75fb3ce' to '/tmp/babel-8270IwX/R-8270vVe', reason 'No such file or directory'
| > a=1
| 1
| 'org_babel_R_eoe'
| a=1
| > 1
| [1] 1
| > 'org_babel_R_eoe'
| [1] "org_babel_R_eoe"
| > 
`----

cheers Thomas


Eric Schulte <schulte.eric@gmail.com> writes:

> Thomas Alexander Gerds <tag@biostat.ku.dk> writes:
>
>> Using the silent option together with a remote R session block
>> (started via ssh.el and ess-remote), like this:
>> #+BEGIN_SRC R :results silent :exports results :session *ssh gauss*
>> :cache yes a=1 1 #+END_SRC
>> produces:
>> ,----
>> | > > > [1] 1 Warning message:
>> | In file.rename(tfile, transfer.file) : cannot rename file
>> | /tmp/RtmpQwlyCf/file7c9b78867f6c' to
>> | /tmp/babel-4977UIT/R-4977ucf', reason 'No such file or directory'
>> | >
>> `----
>> and emacs freezes. No big deal because C-g gets me out of it, but
>> slightly annoying.
>> with `:results output' instead of `:results: silent' everything
>> works fine.
>>
>
> Are you sure this problem is related to the ":results silent" header
> argument?  I would expect this problem to arise *any* time results are
> requested from a remove R session.  This is because R and Emacs use
> the file system to hand results back and forth, and when the R session
> refers to a remote file system, this communication fails.
>
> One possible solution would be to use the :dir header argument to
> specify to the code block the machine on which the execution is taking
> place.
>
> Best,
>
>>
>> best, Thomas
>>