* [babel] [bug] bug in R-specific header argument for graphics driver
@ 2012-03-15 12:24 Rainer M Krug
0 siblings, 0 replies; 5+ messages in thread
From: Rainer M Krug @ 2012-03-15 12:24 UTC (permalink / raw)
To: emacs-orgmode; +Cc: Eric Schulte
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Hash: SHA1
When giving the header argument :title: the graph is not produced in a file:
* This works
Display boxplot of spread of Mff over time for each release strategy
:PROPERTIES:
:results: graphics
:file: SpreadOverTime.pdf
:width: 4
:height: 8
:pointsize: 8
:END:
#+begin_src R
plot(runif(100))
#+end_src
* This doesn't
Display boxplot of spread of Mff over time for each release strategy
:PROPERTIES:
:results: graphics
:file: test.pdf
:width: 4
:height: 8
:pointsize: 8
:title: "test"
:END:
#+begin_src R
plot(runif(100))
#+end_src
Error message:
Error in pdf(file = "test.pdf", width = 4, height = 8, pointsize = 8, :
object 'test' not found
Calls: <Anonymous> -> <Anonymous> -> pdf
Execution halted
Cheers,
Rainer
- --
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys.
(Germany)
Centre of Excellence for Invasion Biology
Stellenbosch University
South Africa
Tel : +33 - (0)9 53 10 27 44
Cell: +33 - (0)6 85 62 59 98
Fax : +33 - (0)9 58 10 27 44
Fax (D): +49 - (0)3 21 21 25 22 44
email: Rainer@krugs.de
Skype: RMkrug
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^ permalink raw reply [flat|nested] 5+ messages in thread
* [babel] [bug] bug in R-specific header argument for graphics driver
@ 2012-03-19 8:55 Rainer M Krug
2012-03-19 14:17 ` Eric Schulte
0 siblings, 1 reply; 5+ messages in thread
From: Rainer M Krug @ 2012-03-19 8:55 UTC (permalink / raw)
To: emacs-orgmode; +Cc: Eric Schulte
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Hash: SHA1
I did not get any response so far, so I hope that the email did not went out...
Rainer
- -----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1
When giving the header argument :title: the graph is not produced in a file:
* This works
Display boxplot of spread of Mff over time for each release strategy
:PROPERTIES:
:results: graphics
:file: SpreadOverTime.pdf
:width: 4
:height: 8
:pointsize: 8
:END:
#+begin_src R
plot(runif(100))
#+end_src
* This doesn't
Display boxplot of spread of Mff over time for each release strategy
:PROPERTIES:
:results: graphics
:file: test.pdf
:width: 4
:height: 8
:pointsize: 8
:title: "test"
:END:
#+begin_src R
plot(runif(100))
#+end_src
Error message:
Error in pdf(file = "test.pdf", width = 4, height = 8, pointsize = 8, :
object 'test' not found
Calls: <Anonymous> -> <Anonymous> -> pdf
Execution halted
Cheers,
Rainer
- - --
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys.
(Germany)
Centre of Excellence for Invasion Biology
Stellenbosch University
South Africa
Tel : +33 - (0)9 53 10 27 44
Cell: +33 - (0)6 85 62 59 98
Fax : +33 - (0)9 58 10 27 44
Fax (D): +49 - (0)3 21 21 25 22 44
email: Rainer@krugs.de
Skype: RMkrug
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Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/
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^ permalink raw reply [flat|nested] 5+ messages in thread
* Re: [babel] [bug] bug in R-specific header argument for graphics driver
2012-03-19 8:55 [babel] [bug] bug in R-specific header argument for graphics driver Rainer M Krug
@ 2012-03-19 14:17 ` Eric Schulte
2012-03-19 14:35 ` Rainer M Krug
0 siblings, 1 reply; 5+ messages in thread
From: Eric Schulte @ 2012-03-19 14:17 UTC (permalink / raw)
To: R.M.Krug; +Cc: emacs-orgmode
Hi Rainer,
I see you CC'd me on this email. I personally do not know anything
about how the graphics header argument to R code blocks works. I would
recommend looking deeper into the behavior using the following tools
- Look at the expanded code block body using org-babel-expand-src-block
- Run the code block in a session, and then look into the session buffer
to see what R code is being generated by Babel, then try to debug the
R as you would normally
- look into the temporary R scripts generated during execution, which
will live in a directory with a name like /tmp/babel-XXXXXX
If you are able to isolate a bug in Babel then I can help fix that bug
in the elisp code.
Thanks and sorry I can't be of more immediate,
Rainer M Krug <r.m.krug@gmail.com> writes:
> I did not get any response so far, so I hope that the email did not went out...
>
> Rainer
>
>
> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA1
>
> When giving the header argument :title: the graph is not produced in a file:
>
> * This works
> Display boxplot of spread of Mff over time for each release strategy
> :PROPERTIES:
> :results: graphics
> :file: SpreadOverTime.pdf
> :width: 4
> :height: 8
> :pointsize: 8
> :END:
> #+begin_src R
> plot(runif(100))
> #+end_src
>
> * This doesn't
> Display boxplot of spread of Mff over time for each release strategy
> :PROPERTIES:
> :results: graphics
> :file: test.pdf
> :width: 4
> :height: 8
> :pointsize: 8
> :title: "test"
> :END:
> #+begin_src R
> plot(runif(100))
> #+end_src
>
> Error message:
>
> Error in pdf(file = "test.pdf", width = 4, height = 8, pointsize = 8, :
> object 'test' not found
> Calls: <Anonymous> -> <Anonymous> -> pdf
> Execution halted
>
> Cheers,
>
> Rainer
>
> - --
> Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys.
> (Germany)
>
> Centre of Excellence for Invasion Biology
> Stellenbosch University
> South Africa
>
> Tel : +33 - (0)9 53 10 27 44
> Cell: +33 - (0)6 85 62 59 98
> Fax : +33 - (0)9 58 10 27 44
>
> Fax (D): +49 - (0)3 21 21 25 22 44
>
> email: Rainer@krugs.de
>
> Skype: RMkrug
> -----BEGIN PGP SIGNATURE-----
> Version: GnuPG v1.4.11 (GNU/Linux)
> Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/
>
> iEYEARECAAYFAk9h34AACgkQoYgNqgF2egpEAgCfWUPrimW6av6/m7PU+KgBnNu+
> BegAn2ZWnAhWvflhDKw8225qt9vCkqJg
> =4gNf
> -----END PGP SIGNATURE-----
--
Eric Schulte
http://cs.unm.edu/~eschulte/
^ permalink raw reply [flat|nested] 5+ messages in thread
* Re: [babel] [bug] bug in R-specific header argument for graphics driver
2012-03-19 14:17 ` Eric Schulte
@ 2012-03-19 14:35 ` Rainer M Krug
2012-03-19 14:48 ` Eric Schulte
0 siblings, 1 reply; 5+ messages in thread
From: Rainer M Krug @ 2012-03-19 14:35 UTC (permalink / raw)
To: Eric Schulte; +Cc: emacs-orgmode
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1
On 19/03/12 15:17, Eric Schulte wrote:
> Hi Rainer,
>
> I see you CC'd me on this email. I personally do not know anything about how the graphics
> header argument to R code blocks works.
Sorry - I thought it was part of babel, and when I hear "babel", I think "eric knows it"...
> I would recommend looking deeper into the behavior using the following tools
>
> - Look at the expanded code block body using org-babel-expand-src-block - Run the code block in
> a session, and then look into the session buffer to see what R code is being generated by
> Babel, then try to debug the R as you would normally - look into the temporary R scripts
> generated during execution, which will live in a directory with a name like /tmp/babel-XXXXXX
Good idea - I'll look into it and give you feedback.
>
> If you are able to isolate a bug in Babel then I can help fix that bug in the elisp code.
Thanks - I still haven't managed to get into (e)lisp...
>
> Thanks and sorry I can't be of more immediate,
No problem,
Cheers,
Rainer
>
> Rainer M Krug <r.m.krug@gmail.com> writes:
>
>> I did not get any response so far, so I hope that the email did not went out...
>>
>> Rainer
>>
>>
> When giving the header argument :title: the graph is not produced in a file:
>
> * This works Display boxplot of spread of Mff over time for each release strategy :PROPERTIES:
> :results: graphics :file: SpreadOverTime.pdf :width: 4 :height: 8 :pointsize: 8 :END:
> #+begin_src R plot(runif(100)) #+end_src
>
> * This doesn't Display boxplot of spread of Mff over time for each release strategy
> :PROPERTIES: :results: graphics :file: test.pdf :width: 4 :height: 8 :pointsize: 8 :title:
> "test" :END: #+begin_src R plot(runif(100)) #+end_src
>
> Error message:
>
> Error in pdf(file = "test.pdf", width = 4, height = 8, pointsize = 8, : object 'test' not
> found Calls: <Anonymous> -> <Anonymous> -> pdf Execution halted
>
> Cheers,
>
> Rainer
>
>
- --
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys.
(Germany)
Centre of Excellence for Invasion Biology
Stellenbosch University
South Africa
Tel : +33 - (0)9 53 10 27 44
Cell: +33 - (0)6 85 62 59 98
Fax : +33 - (0)9 58 10 27 44
Fax (D): +49 - (0)3 21 21 25 22 44
email: Rainer@krugs.de
Skype: RMkrug
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^ permalink raw reply [flat|nested] 5+ messages in thread
* Re: [babel] [bug] bug in R-specific header argument for graphics driver
2012-03-19 14:35 ` Rainer M Krug
@ 2012-03-19 14:48 ` Eric Schulte
0 siblings, 0 replies; 5+ messages in thread
From: Eric Schulte @ 2012-03-19 14:48 UTC (permalink / raw)
To: R.M.Krug; +Cc: emacs-orgmode
Rainer M Krug <r.m.krug@gmail.com> writes:
> On 19/03/12 15:17, Eric Schulte wrote:
>> Hi Rainer,
>>
>> I see you CC'd me on this email. I personally do not know anything about how the graphics
>> header argument to R code blocks works.
>
> Sorry - I thought it was part of babel, and when I hear "babel", I think "eric knows it"...
>
It is part of Babel, but Dan Davison is the author of much of the R
code, and in general there are increasingly language-specific authors
who know more about support particular to a specific language than do I.
>
>
>> I would recommend looking deeper into the behavior using the following tools
>>
>> - Look at the expanded code block body using org-babel-expand-src-block - Run the code block in
>> a session, and then look into the session buffer to see what R code is being generated by
>> Babel, then try to debug the R as you would normally - look into the temporary R scripts
>> generated during execution, which will live in a directory with a name like /tmp/babel-XXXXXX
>
> Good idea - I'll look into it and give you feedback.
>
Great, Thanks,
>
>>
>> If you are able to isolate a bug in Babel then I can help fix that bug in the elisp code.
>
> Thanks - I still haven't managed to get into (e)lisp...
>
>>
>> Thanks and sorry I can't be of more immediate,
>
> No problem,
>
> Cheers,
>
> Rainer
>
>>
>> Rainer M Krug <r.m.krug@gmail.com> writes:
>>
>>> I did not get any response so far, so I hope that the email did not went out...
>>>
>>> Rainer
>>>
>>>
>> When giving the header argument :title: the graph is not produced in a file:
>>
>> * This works Display boxplot of spread of Mff over time for each release strategy :PROPERTIES:
>> :results: graphics :file: SpreadOverTime.pdf :width: 4 :height: 8 :pointsize: 8 :END:
>> #+begin_src R plot(runif(100)) #+end_src
>>
>> * This doesn't Display boxplot of spread of Mff over time for each release strategy
>> :PROPERTIES: :results: graphics :file: test.pdf :width: 4 :height: 8 :pointsize: 8 :title:
>> "test" :END: #+begin_src R plot(runif(100)) #+end_src
>>
>> Error message:
>>
>> Error in pdf(file = "test.pdf", width = 4, height = 8, pointsize = 8, : object 'test' not
>> found Calls: <Anonymous> -> <Anonymous> -> pdf Execution halted
>>
>> Cheers,
>>
>> Rainer
>>
>>
--
Eric Schulte
http://cs.unm.edu/~eschulte/
^ permalink raw reply [flat|nested] 5+ messages in thread
end of thread, other threads:[~2012-03-19 14:48 UTC | newest]
Thread overview: 5+ messages (download: mbox.gz follow: Atom feed
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2012-03-19 8:55 [babel] [bug] bug in R-specific header argument for graphics driver Rainer M Krug
2012-03-19 14:17 ` Eric Schulte
2012-03-19 14:35 ` Rainer M Krug
2012-03-19 14:48 ` Eric Schulte
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2012-03-15 12:24 Rainer M Krug
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