Re: [O] Difference between eval and export

2014-09-30 Thread Johannes Rainer
I tried to make an example that does not need a lot of input data but without 
success. never mind, it works if I run the code on a single cpu, or if I run it 
on a linux machine.

On 30 Sep 2014, at 01:32, Grant Rettke g...@wisdomandwonder.com wrote:

 How painful would it be to pare it down to the minimal example of the 
 behavior?
 
 On Mon, Sep 29, 2014 at 6:14 AM, Johannes Rainer
 johannes.rai...@gmail.com wrote:
 I checked the environment variables in Emacs and also in R (using 
 Sys.getenv). all environment variables are set correctly (I am now also 
 using “exec-path-from-shell” to make sure that Emacs is reading system 
 environment variables).
 It is absolutely strange. I only get the error when I export the org file, 
 but not if I execute R code chunk by code chunk sequentially.
 
 best, jo
 
 On 26 Sep 2014, at 21:58, Grant Rettke g...@wisdomandwonder.com wrote:
 
 On Fri, Sep 26, 2014 at 1:44 PM, Rainer M Krug rai...@krugs.de wrote:
 Grant Rettke g...@wisdomandwonder.com writes:
 My eye is on you post about that topic because I would also like to know.
 
 As you are using R, and if you are using sessions, what about setting
 them from within R[1]?
 
 Footnotes:
 [1]  http://stat.ethz.ch/R-manual/R-devel/library/base/html/Sys.setenv.html
 
 Yes indeed. I am quite interested in the general mechanism of how the
 environment exists for when exports occur and in particular whether or
 not it is different somehow. Right now I've delegated things between
 [1] and .Renviron.
 
 
 
 
 -- 
 Grant Rettke
 g...@wisdomandwonder.com | http://www.wisdomandwonder.com/
 “Wisdom begins in wonder.” --Socrates
 ((λ (x) (x x)) (λ (x) (x x)))
 “Life has become immeasurably better since I have been forced to stop
 taking it seriously.” --Thompson




[O] ox-odt doesn't honor :anchor page

2014-09-30 Thread Martin Gürtler
Hi,

I'm using Org-mode version 8.2.7c (8.2.7c-74-gd2ecbe-elpa, org-plus-contrib
package).

I am writing a documentation in org mode with the intent of exporting it to
libreoffice (using libreoffice 4.2.6.3 on ubuntu 12.04).

This works in general very well.

I have a minor problem with image anchors.

I think I followed the docs when writing

#+ATTR_ODT: :width 17 :anchor page
#+CAPTION: Some text.
#+LABEL:   fig:figureLabel
[[file:someFig.png]]

The :anchor statement seems to be ignored in the export process, I always
get images anchored to the paragraph.

When using Jambunathan's version of ox-odt I get images anchored to the
page, but there seem to be problems if there are two images on one page,
images covering each other when both are anchored to the page..

One of the few cases where doc is ahead of implementation?


Regards 

Martin




Re: [O] ox-odt doesn't honor :anchor page

2014-09-30 Thread Christian Moe

Confirmed, but it seems to be a documentation error, not a bug. 

It works if you leave out the quotation marks:

#+ATTR_ODT: :anchor page

The docs do indeed unequivocally require quotation marks, but I don't
think there is any need for them.

Yours,
Christian


Martin Gürtler writes:

 Hi,

 I'm using Org-mode version 8.2.7c (8.2.7c-74-gd2ecbe-elpa, org-plus-contrib
 package).

 I am writing a documentation in org mode with the intent of exporting it to
 libreoffice (using libreoffice 4.2.6.3 on ubuntu 12.04).

 This works in general very well.

 I have a minor problem with image anchors.

 I think I followed the docs when writing

 #+ATTR_ODT: :width 17 :anchor page
 #+CAPTION: Some text.
 #+LABEL:   fig:figureLabel
 [[file:someFig.png]]

 The :anchor statement seems to be ignored in the export process, I always
 get images anchored to the paragraph.

 When using Jambunathan's version of ox-odt I get images anchored to the
 page, but there seem to be problems if there are two images on one page,
 images covering each other when both are anchored to the page..

 One of the few cases where doc is ahead of implementation?


 Regards 

 Martin




Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Rainer M Krug
Eric Brown br...@fastmail.fm writes:

 Dear List:

 It is possible to embed SQL code as a string to be evaluated in R. I am
 interested in formatting the SQL code in its own source code block, with
 its own syntax highlighting and editing mode (C-c ').

This sounds very interesting, and I would be interested in doing thia as
well. Up to now, I was writing the sql statements in R, which is a pain
(paste, paste0, ...). But editing them in org and passing them to an R
source block as a variable sounds interestin, but I don't think this
will work. What might work is using noweb expansion, but I never used
it.

Check out the worg [1] Simple Literate Programming Example (Noweb
syntax)

From the page:

,
| In the Org-mode file:
| 
| #+name: hello-world-prefix
| #+begin_src sh :exports none
|   echo /---\\
| #+end_src
| HTML export of code: In the Org-mode file
| 
| #+name: hello-world-postfix #+begin_src sh :exports none echo
| \---/
| #+end_src
| 
| HTML export of code: The third code block does have a tangle header
| argument indicating the name of the file to which the tangled source
| code will be written. It also has Noweb style references to the two
| previous code blocks. These references will be expanded during
| tangling to include them in the output file as well.
| 
| In the Org-mode file:
| 
| #+name: hello-world
| #+begin_src sh :tangle hello :exports none :noweb yes
|   hello-world-prefix
|   echo |   hello world |
|   hello-world-postfix
| #+end_src
|
| HTML export of code: Calling org-babel-tangle will result in the following
| shell source code being written to the hello.sh file:
| 
| #!/usr/bin/env sh
| 
| # [[file:~/org/temp/index.org::*Noweb%20test][hello-world]]
| 
| echo /---\\
| echo |   hello world |
| echo \---/
| # hello-world ends here
|
| In addition, the following syntax can be used to insert the results of
| evaluating a code block, in this case one named example-block.
| 
| # example-block()
`

I guess this should work - and I will try it out - learned something.

Thanks for the question,

Rainer


 The first time I run the code, I am prompted for R starting directory,
 but I get an error:

 ---
 load ESSR: + + + Error: unexpected string constant in:
 source('~/.emacs.d/elpa/ess-20140913.1153/etc/ESSR/R/.load.R',
 local=TRUE) #define load.ESSR
 load.ESSR('
 ---

 and the console locks.  I can C-g to get out of it, and then
 re-evaluate, and the code prints what I expect -- the text of the SQL
 command.

 Is this the right way to go about this?  Have I discovered a bug, or
 perhaps accidentally a wrong way to get the right answer?

 Is this an ESS problem, and not an orgmode problem, per se?  My ESS
 normally starts up fine, so I thought I would ask on this list first.

 A minimal example (first failing, second evaluation giving expected
 output) follows.

 Best regards,

 Eric

 Debian GNU/Linux (jessie)
 Emacs 24.3.93
 Org current from org repo
 ESS from MELPA (ca. 14.09)
 R 3.1.1 compiled from source



 - SESSION -
 #+TITLE: Test SQL Code
 #+AUTHOR: Eric Brown  
 #+EMAIL: br...@fastmail.fm
 #+PROPERTY: session *R*   
 #+PROPERTY: cache no

 #+name: sqlsource
 #+begin_src sql :engine postgresql :eval yes :noweb-ref sqlsrc :exports code 
 :results none
   select 
 * 
   from 
 t 
   limit 
 10
 #+end_src

 #+name: rsource
 #+begin_src R :noweb yes :results output :exports both
   input - '
   sqlsrc
   '
   cat(input)
   # dbGetQuery(connectionHandle, input)
 #+end_src

 #+RESULTS: rsource
 : 
 : select 
 :   * 
 : from 
 :   t 
 : limit 
 :   10
 -






Footnotes: 
[1]  http://orgmode.org/worg/org-contrib/babel/intro.html

-- 
Rainer M. Krug
email: Raineratkrugsdotde
PGP: 0x0F52F982


pgpXC643zqQEC.pgp
Description: PGP signature


Re: [O] [patch, ox] #+INCLUDE resolves links

2014-09-30 Thread Nicolas Goaziou
Hello,

Rasmus ras...@gmx.us writes:

 Thanks for the comments.  I hope I addressed the previous comments and
 did not introduce new reasons bugs.
 I added tests.

Great.

 Just out of curiosity, what is an example of a element that can be
 named and does not have a :contents-begin?

  #+name: empty-drawer
  :DRAWER:
  :END:

 Okay, there's a lot of improvements in that suggestion.  However, it
 misses this case which created using only official shortcuts

  * head
  SCHEDULED: 2014-09-28 sun
  :LOGBOOK:
  - Note taken on [2014-09-28 sat 12:21] \\
a drawer
  :END:
  :PROPERTIES:
  :CUSTOM_ID: h
  :END:

This was done on purpose, anticipating a patch I'm working on. Anyway,
it doesn't matter much. I'll revert it once my work is ready.

 +elements.}.  If the @code{:only-contents} property is non-nil, only the
 +contents of the requested element will be included, omitting any
 +property-drawers, planning-lines, attributes, captions etc.  The

properties (or property) drawer, planning line.

Do you think it's worth specifying that captions and attributes will be
ignored? It seems pretty obvious to me as they do not belong to contents
(unlike to planning and properties drawers).

 +  (only-contents
 +   (and (string-match :only-contents +\\([^: \r\t\n]\\S-*\\) 
 value)
 +(prog1 (org-not-nil (match-string 1 value))
 +  (setq value (replace-match  nil nil value)

Why do you need to remove match from VALUE? AFAICT, the only match that
needs to be removed is the file name. Others are regular.

 + ;; skip planning line and property-drawer.  If a normal drawer
 + ;; precedes a property-drawer both will be included.
 + ;; Remaining property-drawers are removed as needed in
 + ;; `org-export--prepare-file-contents'

  ;; Skip planning line and properties drawer.

 +  ;; If only-contents is non-nil only include contents of element
 +  (should
 +   (equal
 +body\n
 +(org-test-with-temp-text
 + (format #+INCLUDE: \%s/examples/include.org::*Heading\ 
 :only-contents t org-test-dir)
 +  (org-export-expand-include-keyword)

[...]

 +  ;; Properties should be dropped, drawers should not be
 +  (should
 +   (equal
 +:LOGBOOK:\ndrawer\n:END:\ncontent\n
 +(org-test-with-temp-text
 + (format #+INCLUDE: \%s/examples/include.org::#dh\ :only-contents t 
 org-test-dir)
 +  (org-export-expand-include-keyword)
 +  (buffer-string)

Mind the 80th column in your tests, and full stop at end of comments.

Besides the minor issues above, it looks good. Feel free to push it
whenever you want.

Thank you for that work.


Regards,

-- 
Nicolas Goaziou



[O] Image collisions (was Re: ox-odt doesn't honor :anchor page)

2014-09-30 Thread Martin Gürtler
Hi,

thanks for the fast response.

Am 30.09.2014 um 09:58 schrieb Christian Moe:
 
 Confirmed, but it seems to be a documentation error, not a bug. 
 It works if you leave out the quotation marks:
 #+ATTR_ODT: :anchor page

This indeed helped. Unfortunately, it turns out that the anchoring is of limited
use, because I get collisions (images at same position). Well, org-mode export
is not LateX - there is probably no way to control that within the org mode 
file..


Regards,

Martin
-- 
Dr. Martin Gürtler
Phone: +49-341-2254303
Mobile: +49-1578-4469069




Re: [O] Image collisions (was Re: ox-odt doesn't honor :anchor page)

2014-09-30 Thread Christian Moe

Martin Gürtler writes:

 Hi,

 thanks for the fast response.

 Am 30.09.2014 um 09:58 schrieb Christian Moe:
 
 Confirmed, but it seems to be a documentation error, not a bug. 
 It works if you leave out the quotation marks:
 #+ATTR_ODT: :anchor page

 This indeed helped. Unfortunately, it turns out that the anchoring is of 
 limited
 use, because I get collisions (images at same position). Well, org-mode export
 is not LateX - there is probably no way to control that within the org mode 
 file..

Not currently, as far as I'm aware. LibreOffice lacks Latex's ability to
decide for itself where best to place an image on the page, and Org-mode
shouldn't even try. 

It's no doubt technically possible to add a feature to specify image
coordinates in the ATTR_ODT line, but I don't know if there would be a
point. In very many cases, it will probably be easier to fix stuff
manually in LibreOffice afterwards than specifying coordinates in Org.

Yours,
Christian





Re: [O] org-export - was :input-buffer removed from the communication channel?

2014-09-30 Thread Thorsten Jolitz
Nicolas Goaziou m...@nicolasgoaziou.fr writes:

Hello,

 Thorsten Jolitz tjol...@gmail.com writes:

 Hi Nicolas,

 for exporting a buffer w/o buffer-file, sometimes ago you added property
 :input-buffer to the communication channel (on my feature request), so
 this used to work (one of the two vars was always non-nil):

 #+BEGIN_SRC emacs-lisp
   (let ((input-file (plist-get info :input-file))
 (input-buffer (plist-get info :input-buffer))) ...)
 #+END_SRC

 But now the :input-buffer property seems to have disappeared from the
 'info' plist again. If so, its a real pity, since crucial info is missing
 whenever 'buffer-file-name' is nil. 

 It should be back in 39f5f03.

Thanks!

-- 
cheers,
Thorsten




[O] [patch] org-sbe doc

2014-09-30 Thread Rasmus
Hi,

Cf. Charles Berry's post to a similarly named post there's a bug in
the documentation of org-sbe.  This patch corrects it.

Thanks,
Rasmus

-- 
Together we'll stand, divided we'll fall
From 0f320a044cef4974be40b351da72729045a56ca6 Mon Sep 17 00:00:00 2001
From: rasmus ras...@pank.eu
Date: Tue, 30 Sep 2014 11:53:36 +0200
Subject: [PATCH] ob-table: Updated documentation.

* ob-table.el (org-sbe): Updated documentation.
---
 lisp/ob-table.el | 10 --
 1 file changed, 8 insertions(+), 2 deletions(-)

diff --git a/lisp/ob-table.el b/lisp/ob-table.el
index 6658313..46be551 100644
--- a/lisp/ob-table.el
+++ b/lisp/ob-table.el
@@ -47,7 +47,10 @@
 ;; |7 ||
 ;; |8 ||
 ;; |9 ||
-;; #+TBLFM: $2='(org-sbe 'fibbd (n $1))
+;; #+TBLFM: $2='(org-sbe fibbd (n $1))
+
+;; NOTE: The quotes around the function name, 'fibbd' in this case,
+;; are optional.
 
 ;;; Code:
 (require 'ob-core)
@@ -69,7 +72,7 @@ string of its value.
 
 So this `org-sbe' construct
 
- (org-sbe 'source-block (n $2) (m 3))
+ (org-sbe \source-block\ (n $2) (m 3))
 
 is the equivalent of the following source code block:
 
@@ -77,6 +80,9 @@ is the equivalent of the following source code block:
  results
  #+end_src
 
+NOTE: The quotes around 'source-block', the function name, are
+optional.
+
 NOTE: By default, string variable names are interpreted as
 references to source-code blocks, to force interpretation of a
 cell's value as a string, prefix the identifier a \$\ (e.g.,
-- 
2.1.1



Re: [O] [patch, ox] #+INCLUDE resolves links

2014-09-30 Thread Rasmus
Nicolas Goaziou m...@nicolasgoaziou.fr writes:

 Just out of curiosity, what is an example of a element that can be
 named and does not have a :contents-begin?

   #+name: empty-drawer
   :DRAWER:
   :END:

Thanks. 

 Okay, there's a lot of improvements in that suggestion.  However, it
 misses this case which created using only official shortcuts

  * head
  SCHEDULED: 2014-09-28 sun
  :LOGBOOK:
  - Note taken on [2014-09-28 sat 12:21] \\
a drawer
  :END:
  :PROPERTIES:
  :CUSTOM_ID: h
  :END:

 This was done on purpose, anticipating a patch I'm working on. Anyway,
 it doesn't matter much. I'll revert it once my work is ready.

Okay.  If you discussed on the list I missed it.

 +elements.}.  If the @code{:only-contents} property is non-nil, only the
 +contents of the requested element will be included, omitting any
 +property-drawers, planning-lines, attributes, captions etc.  The

 properties (or property) drawer, planning line.

 Do you think it's worth specifying that captions and attributes will be
 ignored? It seems pretty obvious to me as they do not belong to contents
 (unlike to planning and properties drawers).

It's two extra words and maybe it's helpful to make the concept clear
to people unfamilar with org-element.  The statement contents of the
requested element, while technically clear, is only barely
comprehensible for the uninvited.

However, it's only tweo extra words, so I'm happy to remove them if
you have strong feeling about this.


 + (only-contents
 + (and (string-match :only-contents +\\([^: \r\t\n]\\S-*\\) value)
 +   (prog1 (org-not-nil (match-string 1 value))
 + (setq value (replace-match  nil nil value)

 Why do you need to remove match from VALUE? AFAICT, the only match that
 needs to be removed is the file name. Others are regular.

I don't know what you mean with regular.  Anyway, my reasoning is that
this INCLUDE-command

#+INCLUDE: /tmp/test0.org :my-random-prop foo

Will give me something like:

\#+\textsc{begin}\(_{\text{my}}\)-random-prop
\section{test0}
\label{sec-2}
1
\#+\textsc{end}\(_{\text{my}}\)-random-prop

In casual testing similar stuff happened when I did not remove the
match.  It could have been it was a bit too casual and that I
misspelling the property.  I will test this properly later.

 Mind the 80th column in your tests, and full stop at end of comments.

OK, I'll fix it.

 Besides the minor issues above, it looks good. Feel free to push it
 whenever you want.

Don't have push.

—Rasmus

-- 
Lasciate ogni speranza o voi che entrate: siete nella mani di'machellaio







Re: [O] Image collisions (was Re: ox-odt doesn't honor :anchor page)

2014-09-30 Thread Martin Gürtler
hi,

Am 30.09.2014 um 11:30 schrieb Christian Moe:
 
 Martin Gürtler writes:
 
 Hi,

 thanks for the fast response.

 Am 30.09.2014 um 09:58 schrieb Christian Moe:

 Confirmed, but it seems to be a documentation error, not a bug. 
 It works if you leave out the quotation marks:
 #+ATTR_ODT: :anchor page

 This indeed helped. Unfortunately, it turns out that the anchoring is of 
 limited
 use, because I get collisions (images at same position). Well, org-mode 
 export
 is not LateX - there is probably no way to control that within the org mode 
 file..
 
 Not currently, as far as I'm aware. LibreOffice lacks Latex's ability to
 decide for itself where best to place an image on the page, and Org-mode
 shouldn't even try. 
 
 It's no doubt technically possible to add a feature to specify image
 coordinates in the ATTR_ODT line, but I don't know if there would be a
 point. In very many cases, it will probably be easier to fix stuff
 manually in LibreOffice afterwards than specifying coordinates in Org.

True. Probably the cleanest solution is to stick to paragraph anchors and move
images physically. Should be stable enough if there are enough forced page
breaks, eg for each chapter.

Thanks again,

Martin
-- 




Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Grant Rettke
On Tue, Sep 30, 2014 at 3:05 AM, Rainer M Krug rai...@krugs.de wrote:
 Eric Brown br...@fastmail.fm writes:

Like Rainier mentioned you might want to use [noweb] to tangle both
for output tangling and execution. My system is set up to tangle for
both eg:

This
## ✂✂
#+name: query
#+begin_src sql
select
*
from
table
where
x  10
#+end_src

#+begin_src R :tangle output.R
input - '
«query»
'
#+end_src
## ✂✂
produces this
## ✂✂
input - '
select
*
from
table
where
x  10
'
## ✂✂
and

this
## ✂✂
#+name: msg
#+begin_src sql
Hello, world.
#+end_src

#+begin_src R :eval yes
print(«msg»)
#+end_src

#+NAME:
#+begin_example
[1] Hello, world.
#+end_example
## ✂✂

produces this

## ✂✂
╭
│ Hello, world.
╰

╭
│ print(«msg»)
╰

╭
│ [1] Hello, world.
╰
## ✂✂

http://orgmode.org/manual/noweb.html#noweb


Re: [O] [patch, ox] #+INCLUDE resolves links

2014-09-30 Thread Nicolas Goaziou
Rasmus ras...@gmx.us writes:

 It's two extra words and maybe it's helpful to make the concept clear
 to people unfamilar with org-element.  The statement contents of the
 requested element, while technically clear, is only barely
 comprehensible for the uninvited.

 However, it's only tweo extra words, so I'm happy to remove them if
 you have strong feeling about this.

I have no strong feeling. Though, I admit the etc these two words
imply annoys me. Anyway, you will be the final judge.

 I don't know what you mean with regular.  Anyway, my reasoning is that
 this INCLUDE-command

 #+INCLUDE: /tmp/test0.org :my-random-prop foo

 Will give me something like:

 \#+\textsc{begin}\(_{\text{my}}\)-random-prop
 \section{test0}
 \label{sec-2}
 1
 \#+\textsc{end}\(_{\text{my}}\)-random-prop

 In casual testing similar stuff happened when I did not remove the
 match.  It could have been it was a bit too casual and that I
 misspelling the property.  I will test this properly later.

OK. I wait for your report.


Regards,



Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Charles Berry
Eric Brown brown at fastmail.fm writes:

 
 Dear List:
 
 It is possible to embed SQL code as a string to be evaluated in R. I am
 interested in formatting the SQL code in its own source code block, with
 its own syntax highlighting and editing mode (C-c ').
 
 The first time I run the code, I am prompted for R starting directory,
 but I get an error:
 
 ---
 load ESSR: + + + Error: unexpected string constant in:
 source('~/.emacs.d/elpa/ess-20140913.1153/etc/ESSR/R/.load.R',
 local=TRUE) #define load.ESSR
 load.ESSR('
 ---
 
 and the console locks.  I can C-g to get out of it, and then
 re-evaluate, and the code prints what I expect -- the text of the SQL
 command.


[rest deleted]

Hmmm. Maybe the bug that was fixed by commit

 0fd29a5ee7d14c3695b22998196373b9a3637413

about two weeks back? Make sure ob-R.el is up to date and compiled (or
that ob-R.elc is deleted).


Anyway, your code works as expected for me - first time.

---

FWIW, I prefer to use :var headers to import strings, but it takes some
setup:


--8---cut here---start-8---

#+BEGIN_SRC emacs-lisp
  (defun grab-src (name)
(save-excursion
  (org-babel-goto-named-src-block name)
  (nth 1 (org-babel-get-src-block-info 'light
#+END_SRC

#+BEGIN_SRC R :var y=(grab-src sqlsource) :results output :exports both
  y
#+END_SRC

#+RESULTS:
: [1] select \n  * \nfrom \n  t \nlimit \n  10

--8---cut here---end---8---



HTH,

Chuck




Re: [O] ox-odt doesn't honor :anchor page

2014-09-30 Thread Achim Gratz
Martin Gürtler writes:
 I'm using Org-mode version 8.2.7c (8.2.7c-74-gd2ecbe-elpa, org-plus-contrib
 package).

That doesn't seem to be the case, the org-plus-contrib package would
advertise itself with the -elpaplus suffix.


Regards,
Achim.
-- 
+[Q+ Matrix-12 WAVE#46+305 Neuron microQkb Andromeda XTk Blofeld]+

Factory and User Sound Singles for Waldorf Blofeld:
http://Synth.Stromeko.net/Downloads.html#WaldorfSounds




Re: [O] sortable columns in html tables

2014-09-30 Thread Michael Brand
Hi David

On Tue, Sep 30, 2014 at 1:44 AM, David Arroyo Menendez davi...@gnu.org wrote:
 How can I make sortable columns in tables? I would be useful to edit or
 export to html.

 Some experiences?

 Thanks!

As I understand you this pointer might be of interest:
http://lists.gnu.org/archive/html/emacs-orgmode/2012-11/msg00809.html

Michael



Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Eric Brown
Thanks Rainer and Grant for your suggestions.  A couple of things:

1) My current code does what I want, the second time. Its advantage is
that everything is kept inside of one .org file.  Also, I am wondering
if it is an R/ESS issue.

2) Grant, I tried your code, but there seem to be some missing headers.
Do you have a complete minimal example that exhibits the behavior that
you have demonstrated?



Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Eric Brown
Charles Berry ccbe...@ucsd.edu writes:

 Hmmm. Maybe the bug that was fixed by commit

  0fd29a5ee7d14c3695b22998196373b9a3637413

 about two weeks back? Make sure ob-R.el is up to date and compiled (or
 that ob-R.elc is deleted).


 Anyway, your code works as expected for me - first time.

 ---

 FWIW, I prefer to use :var headers to import strings, but it takes some
 setup:



 #+BEGIN_SRC emacs-lisp
   (defun grab-src (name)
 (save-excursion
   (org-babel-goto-named-src-block name)
   (nth 1 (org-babel-get-src-block-info 'light
 #+END_SRC

 #+BEGIN_SRC R :var y=(grab-src sqlsource) :results output :exports both
   y
 #+END_SRC

 #+RESULTS:
 : [1] select \n  * \nfrom \n  t \nlimit \n  10


In fact M-x R before evaluation did fix things.  I will try to get the
org source going, which contains the fix.  Otherwise, I might be content
to wait for the fix to make its way into org ELPA.  (I'm on .emacs
complexity overload)

Great idea about the grab-src function! Worked like a charm.

Thanks again,
Eric



Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Grant Rettke
On Tue, Sep 30, 2014 at 9:32 AM, Eric Brown br...@fastmail.fm wrote:
 2) Grant, I tried your code, but there seem to be some missing headers.
 Do you have a complete minimal example that exhibits the behavior that
 you have demonstrated?

Sorry for omitting that key point:

✂✂
#+name: msg
#+begin_src sql
Hello, world.
#+end_src

#+begin_src R :eval yes
print(«msg»)
#+end_src

#+NAME:
[1] Hello, world.
#+end_example

#+begin_src emacs-lisp
(print emacs-version)
(print org-version)
(print org-babel-default-header-args)
(print org-babel-default-inline-header-args)
#+end_src

#+NAME:
#+begin_example

24.3.1

8.2.7c

((:eval . always) (:noweb . no-export) (:exports . both)
(:results . output) (:comments . no) (:session . none) (:cache .
no) (:hlines . no) (:tangle . no))

((:results . value replace) (:eval . always) (:session . none)
(:exports . results))
#+end_example
✂✂



[O] clock-in and clock-out columns for clock-table

2014-09-30 Thread Paul Rudin

Is there a way to coerce a clock table to include the clock in and clock
out information?

TIA.




Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Nick Dokos
Eric Brown br...@fastmail.fm writes:

 2) Grant, I tried your code, but there seem to be some missing headers.
 Do you have a complete minimal example that exhibits the behavior that
 you have demonstrated?

Add :noweb yes. Also Grant seems to have gone non-standard and replaced
the noweb markup with guillemots. Using the default markers,
it should read:

--8---cut here---start-8---
#+name: query
#+begin_src sql
select
*
from
table
where
x  10
#+end_src

#+begin_src R :noweb yes :tangle output.R
input - '
query
'
#+end_src
## ✂✂
produces this
## ✂✂
input - '
select
*
from
table
where
x  10
'
--8---cut here---end---8---

Nick






Re: [O] Adding new table rows/cols in a formula update

2014-09-30 Thread Dima Kogan
Dima Kogan li...@dima.secretsauce.net writes:

 Suppose I have this .org file:

  |   |
  #+TBLFM: @1$2=5

 It's a 1x1 table with a formula. The formula sets a cell that's out of
 bounds in the table, so evaluating this formula results in an error. How
 set-in-stone is this behavior? I haven't dug too deeply into the code,
 but are there fundamental assumptions here? Would a patch that extends
 the table before applying such a formula be too naive in some way?

Here's a tiny patch that adds the columns (not rows) as needed. Is this
reasonable?

From 93e9927dd49d100036853963e899c8b6af5325de Mon Sep 17 00:00:00 2001
From: Dima Kogan d...@secretsauce.net
Date: Tue, 30 Sep 2014 12:27:26 -0700
Subject: [PATCH] org-table: field formulas can now create new columns as
 needed

---
 lisp/org-table.el | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/lisp/org-table.el b/lisp/org-table.el
index 7607ead..31365ad 100644
--- a/lisp/org-table.el
+++ b/lisp/org-table.el
@@ -3125,7 +3125,7 @@ known that the table will be realigned a little later anyway.
   (while (setq eq (pop eqlname1))
 	(message Re-applying formula to field: %s (car eq))
 	(org-goto-line (nth 1 eq))
-	(org-table-goto-column (nth 2 eq))
+	(org-table-goto-column (nth 2 eq) nil 'force)
 	(org-table-eval-formula nil (nth 3 eq) 'noalign 'nocst
 'nostore 'noanalysis))
 
-- 
2.0.0



Re: [O] sortable columns in html tables

2014-09-30 Thread Cook, Malcolm
Hi,

The syntax for much of this has changed since that post.

Instead of
#+style:
you will want
#+HTML_HEAD:

And, attaching a class to an exported html table is handled differently too.

Instead of 
#+attr_html: class=sortable
you want
#+attr_html: :class sortable

Such declarations also work for exported tables if placed between code blocks 
that export tables and the result tables (i.e. immediately after the 
`#+end_src`)

Also, if you want ALL tables to have a class of sortable, you _can_ eval the 
following

(plist-put org-html-table-default-attributes :class sortable)

i.e. by putting it in your emacs init.el 

Or, on a per-buffer basis, which is probably better,  you can put this in your 
.org file

#+BIND: org-html-table-default-attributes (:border 2 :cellspacing 0 
:cellpadding 6 :rules groups :frame hsides  :class sortable)

By the way, I don't use sortable, I use dataTable, but the method for getting 
the class attribute on the html table is the same.

~malcolm_cook

 -Original Message-
 From: emacs-orgmode-bounces+mec=stowers@gnu.org 
 [mailto:emacs-orgmode-bounces+mec=stowers@gnu.org] On
 Behalf Of Michael Brand
 Sent: Tuesday, September 30, 2014 1:12 PM
 To: David Arroyo Menendez
 Cc: Org Mode
 Subject: Re: [O] sortable columns in html tables
 
 Hi David
 
 On Tue, Sep 30, 2014 at 1:44 AM, David Arroyo Menendez davi...@gnu.org 
 wrote:
  How can I make sortable columns in tables? I would be useful to edit or
  export to html.
 
  Some experiences?
 
  Thanks!
 
 As I understand you this pointer might be of interest:
 http://lists.gnu.org/archive/html/emacs-orgmode/2012-11/msg00809.html
 
 Michael



Re: [O] Adding new table rows/cols in a formula update

2014-09-30 Thread Subhan Michael Tindall
I would include a customization variable to control this behavior, defaulting 
to whatever the current behavior is:
IE:
(setq org-calc-extend-file nil) default system behavior
(setq org-calc-extend-file t) always silently extend rows
(setq org-calc-extend-file warn) issue warning in message buffer that line 
was extended
(setq org-calc-extend-file prompt) prompt user y/n on whether or not to 
extend column



 -Original Message-
 From: emacs-orgmode-bounces+subhant=familycareinc@gnu.org
 [mailto:emacs-orgmode-bounces+subhant=familycareinc@gnu.org] On
 Behalf Of Dima Kogan
 Sent: Tuesday, September 30, 2014 12:28 PM
 To: emacs-orgmode@gnu.org
 Subject: Re: [O] Adding new table rows/cols in a formula update
 
 Dima Kogan li...@dima.secretsauce.net writes:
 
  Suppose I have this .org file:
 
   |   |
   #+TBLFM: @1$2=5
 
  It's a 1x1 table with a formula. The formula sets a cell that's out of
  bounds in the table, so evaluating this formula results in an error.
  How set-in-stone is this behavior? I haven't dug too deeply into the
  code, but are there fundamental assumptions here? Would a patch that
  extends the table before applying such a formula be too naive in some
 way?
 
 Here's a tiny patch that adds the columns (not rows) as needed. Is this
 reasonable?


This message is intended for the sole use of the individual and entity to which 
it is addressed and may contain information that is privileged, confidential 
and exempt from disclosure under applicable law. If you are not the intended 
addressee, nor authorized to receive for the intended addressee, you are hereby 
notified that you may not use, copy, disclose or distribute to anyone the 
message or any information contained in the message. If you have received this 
message in error, please immediately advise the sender by reply email and 
delete the message.  Thank you.




Re: [O] Improved way to include some headlines from an external org file

2014-09-30 Thread Andrea Rossetti
Xavier Garrido xavier.garr...@gmail.com writes:
 Is there a way ...
...
 to write something like that
...
 #+BEGIN_SRC org
 #+INCLUDE: ./base.org :headline First base chapter
 ,* A more personal chapter
 #+INCLUDE: ./base.org :headline Second base chapter
 ,* Another personal chapter
 #+END_SRC

Hi! today I crossed into Sacha's weekly links
( http://sachachua.com/blog/#post-27515 ).

One of the proposed link suggests a solution not too far
from your initial question:

http://endlessparentheses.com/updating-org-mode-include-statements-on-the-fly.html?source=rss

Kindest regards, 

  Andrea



Re: [O] orgmode in drupal

2014-09-30 Thread David Arroyo Menendez

Thanks

Christian Moe m...@christianmoe.com writes:

 Thanks for this -- definitely interesting, but I'll have no time to try
 it out for a while.

 Yours,
 Christian

 David Arroyo Menendez writes:

 Hello,

 Perhaps in this mailing list there are some drupal admin who wants
 upload his files to drupal. I've a project to make it :)
 https://www.drupal.org/node/1977240. 

 Regards.



[O] behavior of org-image-actual-size with units in attr_* :width

2014-09-30 Thread John Kitchin
I have set this in my init file

(setq org-image-actual-width '(600))

It works great, unless I use:
#+attr_latex: :width 4in

This makes my images 4 inches wide in LaTeX, but it sets my images to
approximately 4 pixels wide!

I feel like it is worth modifying the regexp that gets the width to
catch these cases and fall back on the variable value when they
exist. Any thoughts?


-- 
---
John Kitchin
http://kitchingroup.cheme.cmu.edu




Re: [O] [patch, ox] #+INCLUDE resolves links

2014-09-30 Thread Rasmus
Hi,

Changes are one sentence in the documentations, casing, and I changed
the regexp so that :only-contents is valid (it's nil).

Nicolas Goaziou m...@nicolasgoaziou.fr writes:

 Rasmus ras...@gmx.us writes:

 It's two extra words and maybe it's helpful to make the concept clear
 to people unfamilar with org-element.  The statement contents of the
 requested element, while technically clear, is only barely
 comprehensible for the uninvited.

 However, it's only tweo extra words, so I'm happy to remove them if
 you have strong feeling about this.

 I have no strong feeling. Though, I admit the etc these two words
 imply annoys me. Anyway, you will be the final judge.

Is it better now?

 I don't know what you mean with regular.  Anyway, my reasoning is that
 this INCLUDE-command

 #+INCLUDE: /tmp/test0.org :my-random-prop foo

 Will give me something like:

 \#+\textsc{begin}\(_{\text{my}}\)-random-prop
 \section{test0}
 \label{sec-2}
 1
 \#+\textsc{end}\(_{\text{my}}\)-random-prop

 In casual testing similar stuff happened when I did not remove the
 match.  It could have been it was a bit too casual and that I
 misspelling the property.  I will test this properly later.

 OK. I wait for your report.

Block sucks up whatever remains, so the match must be removed:

(block (and (string-match (\\S-+\\)\\ value)
 (match-string 1 value)))


I want to discuss one more important potential issue before having the
patch applied.  Currently, location is ignored if the included part is
not an env (line 3381) and not a block (3392).  I'm not sure this is
right.  I could do one of the following:

   1. Nothing (current state)
   2. Throw an error if location and env or block are combined.
   3. Try to use location even if block is set.  Recall, though, that
  location is resolved using org-mode. 
   4. Let location be a general regexp if env or block is non-nil.
  But then we are breaking with the org file-link idea.
   5. Make location work for org files when env or block, otherwise
  throw an error.

WDYT?

Less important.  Should the I speedkey (I don't know if that's the
right term) prompt for a location, or change the cursor position to
after the filename?

—Rasmus

-- 
Governments should be afraid of their people
From 44e20962a3c16e1f79a2d5bbc8420f00f93db637 Mon Sep 17 00:00:00 2001
From: Rasmus ras...@gmx.us
Date: Sun, 28 Sep 2014 21:05:17 +0200
Subject: [PATCH] ox: Allow file-links with #+INCLUDE-keyword

* org.el (org-edit-special): Handle file-links for INCLUDE.
* ox.el (org-export--prepare-file-contents): Handle links and
add option no-heading.
* ox.el (org-export-expand-include-keyword): Resolve headline
links and add option :only-contents.
* orgguide.texi (Include files)
org.texi (Include files): Updated.
* testing/examples/include.org: New examples.
* test-ox.el (test-org-export/expand-include): New tests.
---
 doc/org.texi |  17 +++
 doc/orgguide.texi|   9 +++-
 lisp/org.el  |   9 ++--
 lisp/ox.el   | 117 +++
 testing/examples/include.org |  25 +
 testing/lisp/test-ox.el  |  59 +-
 6 files changed, 220 insertions(+), 16 deletions(-)

diff --git a/doc/org.texi b/doc/org.texi
index 7d98d51..296e289 100644
--- a/doc/org.texi
+++ b/doc/org.texi
@@ -10008,6 +10008,23 @@ to use the obvious defaults.
 #+INCLUDE: ~/.emacs :lines 10-@r{Include lines from 10 to EOF}
 @end example
 
+Finally, you may use a file-link, see @ref{search option in file links}, to
+extract an object as matched by @code{org-link-search}@footnote{Note that
+@code{org-link-search-must-match-exact-headline} is locally bound to non-nil.
+Therefore, @code{org-link-search} only matches headlines and named
+elements.}.  If the @code{:only-contents} property is non-nil, only the
+contents of the requested element will be included, omitting properties
+drawer and planning-line if present.  The @code{:lines} keyword
+operates locally with respect to the requested element.  Some examples:
+
+@example
+#+INCLUDE: ./paper.org::#theory :only-contents t
+   @r{Include the body of the heading with the custom id @code{theory}}
+#+INCLUDE: ./paper.org::mytable  @r{Include named element.}
+#+INCLUDE: ./paper.org::*conclusion :lines 1-20
+   @r{Include the first 20 lines of the headline named conclusion.}
+@end example
+
 @table @kbd
 @kindex C-c '
 @item C-c '
diff --git a/doc/orgguide.texi b/doc/orgguide.texi
index ca8e052..4feeaca 100644
--- a/doc/orgguide.texi
+++ b/doc/orgguide.texi
@@ -2264,8 +2264,13 @@ include your @file{.emacs} file, you could use:
 The optional second and third parameter are the markup (i.e., @samp{example}
 or @samp{src}), and, if the markup is @samp{src}, the language for formatting
 the contents.  The markup is optional, if it is not given, the text will be
-assumed to be in Org mode format and will be processed normally. @kbd{C-c '}
-will 

[O] Solution for very long hyperlinks when exporting to latex?

2014-09-30 Thread Martin Weigele
Hi,

very happy with orgmode but rather desperate these days trying to get very 
long url hyperlinks in footnotes to typeset as line-broken-up links after 
latex export. I have tried the hints available on texstack etc., but none of 
the proposed latex methods work. Not even manual \- produces a reasonable 
result. I have tried with hyperref switched on and off in the emacs org 
exporter configuration, and with the linebreak option of hyperref which is 
not even accepted depending on the exporter setting.

I am using org-version 8.2.4, emacs 24.3.1, texlive 2014, scrbook (added this 
style to .emacs which works fine otherwise). I am not sure if it has to do 
with the exporter or with latex/koma script only, or maybe all three of them.

Surely someone must have come across this problem and may be able to provide a 
hint? 

Thanks, Martin



Re: [O] [patch, ox] Unnumbered headlines

2014-09-30 Thread Rasmus
Hi,

Alan did some testing on a slightly older version of this patch and he
managed to publish his book without errors and with working links.  So
let's give it another shot.

I briefly tested the output of LaTeX, html, texinfo, odt, md, and
plaintext and made sure links work and that the right text is shown in
the output.

Nicolas Goaziou m...@nicolasgoaziou.fr writes:

 Should I write tests for the new behavior?  If so, tests for each
 backend or only for vanilla-ox functions?

 Tests for ox.el are mandatory. See test-ox.el

I have added some.  I don't know if it's comprehensive enough.  It was
not obvious to me what to test.


 (ids (delq nil
(list (org-element-property :CUSTOM_ID headline)
 -(concat sec- section-number)
 +(and section-number (concat sec- 
 section-number))
  (org-element-property :ID headline
 -   (preferred-id (car ids))
 +   (preferred-id (org-export-get-headline-id headline info))

 I think the following is more in the spirit of the code (you don't
 ignore :custom-id property):

   (ids (delq nil
  (list (org-element-property :CUSTOM_ID headline)
(org-export-get-headline-id headline info)
(org-element-property :ID headline
   (preferred-id (car ids))

But we are not checking that :CUSTOM_ID is unique.  In ox-latex you're
required to turn on a variable on to get this behavior (I could be
mistaken here).  For now I have done as you suggest.  But I don't
understand why we are favoring CUSTOM_ID here over the nice, unique
label we've generated?

 -   (let ((href ..
 (headline-label ...
 -  (org-html--anchor ...

I reintroduced the CUSTOM_ID in these.


 +  (let ((num 0))
 +(org-element-map data 'headline
 +(lambda (headline)
 +  (unless (org-export-numbered-headline-p headline options)
 +(cons headline (list (setq num (1+ num)

 Last line:

   (list headline (incf num))

Oh incf is quite handy.  Didn't know that one.

I leave it as (cons headline (list (incf num))).  Why?  'Cause that's
the format used by `org-export--collect-headline-numbering'.  While
simpler is nicer, I think it's better not to have to consider
different data structures depending on whether data is from
`org-export--collect-headline-numbering' or
`org-export--collect-unnumbered-headline-id'.

If you feel the simpler structure is better we can also use that.

 Use `assq' instead of `assoc'.

Right, no need for equal here.

 +(defun org-export-get-unnumberd-headline-id (headline info)
 +  Return unnumbered HEADLINE id as list of numbers.
  INFO is a plist holding contextual information.
 -  (cdr (assoc headline (plist-get info :headline-numbering
 +  (and (not (org-export-numbered-headline-p headline info))
 +   (cdr (assoc headline (plist-get info :unnumbered-headline-id)

 I don't think it is worth to make this function standalone. I don't see
 any use case outside `org-export-get-headline-id'. I suggest to move it
 there.

Yeah, seems fair.

 +  (unless
 +  (or (org-export-get-node-property :UNNUMBERED headline)
 +  (loop for parent in (org-export-get-genealogy headline)
 +when (org-export-get-node-property :UNNUMBERED parent)
 +return t))

   (unless (org-some
(lambda (h) (org-not-nil (org-element-property :UNNUMBERED h)))
(org-export-get-genealogy headline))
 ...)

Handy.  AFAIK BLOB is not a member of (org-export-get-genealogy BLOB)
(or so the output suggests), so (or · ·) is still needed.


Thanks again,
Rasmus

--
There are known knowns; there are things we know that we know
From e25b297d285b31fd8a842356aa5818d303b4dec9 Mon Sep 17 00:00:00 2001
From: Rasmus ras...@gmx.us
Date: Sun, 21 Sep 2014 16:17:55 +0200
Subject: [PATCH] ox: Support unnumbered headlines via property.

* ox.el (org-export--collect-headline-numbering): Ignore unnumbered headline.
(org-export-get-headline-id,
org-export--collect-unnumbered-headline-id): New functions.
(org-export-numbered-headline-p): Further tests for unnumbered headline.
* ox-odt.el (org-odt-headline, org-odt-link,
org-odt-link--infer-description)
ox-md.el (org-md-headline, org-md-link),
ox-latex.el (org-latex-headline, org.latex-link),
ox-html.el (org-html-headline, org-html-link),
ox-ascii.el (org-ascii-link): Support ununbered headlines.
* test-ox.el (test-org-export/org-export-get-headline-id): New test.
---
 lisp/org.el |  2 +-
 lisp/ox-ascii.el|  8 ++--
 lisp/ox-html.el | 39 +++--
 lisp/ox-latex.el| 23 ++
 lisp/ox-md.el   | 24 +--
 lisp/ox-odt.el  | 39 +
 lisp/ox.el  | 52 +
 testing/lisp/test-ox.el | 21 
 8 files 

Re: [O] Solution for very long hyperlinks when exporting to latex?

2014-09-30 Thread Rasmus
Hi Martin,

Martin Weigele mar...@weigele.de writes:

 very happy with orgmode but rather desperate these days trying to get very 
 long url hyperlinks in footnotes to typeset as line-broken-up links after 
 latex export. I have tried the hints available on texstack etc., but none of 
 the proposed latex methods work. Not even manual \- produces a reasonable 
 result. I have tried with hyperref switched on and off in the emacs org 
 exporter configuration, and with the linebreak option of hyperref which is 
 not even accepted depending on the exporter setting.

 I am using org-version 8.2.4, emacs 24.3.1, texlive 2014, scrbook (added this 
 style to .emacs which works fine otherwise). I am not sure if it has to do 
 with the exporter or with latex/koma script only, or maybe all three of them.

 Surely someone must have come across this problem and may be able to provide 
 a 
 hint? 

url.sy is usually pretty good a breaking urls.  Is the url wrapped in
\url{·} in your .tex file?  If no, you probably did something wrong.
If yes you should consult the url manual (texdoc url in your
terminal if you have TeXLive).  Section 5.2 and maybe section 6 could
be helpful.

Hope it helps,
Rasmus

-- 
You people at the NSA are becoming my new best friends!




Re: [O] Improved way to include some headlines from an external org file

2014-09-30 Thread Rasmus
Hi Xavier,

Xavier Garrido xavier.garr...@gmail.com writes:

 Le 12/09/2014 02:45, Andrea Rossetti a écrit :
 Xavier Garrido xavier.garr...@gmail.com writes:
 Of course, I can achieve that by using =:lines= and calculating how many
 lines embeds the given headline.

Hi Xavier, another possible approach (maybe less handy, but in
 some cases it might fit): the user could keep one .org file
 per headline, and #+INCLUDE one headline (= one entire file)
 when needed.


 This is something I use when dealing with a book or report with
 basically one big file per chapter. Here the problem is slightly
 different : I have 4 org/Beamer presentations that almost 80% of them
 are the same. So instead of maintening this 80% in 4 different places,
 I'd like to write them and change them in one place and then include
 the needed headlines at the right place in each of the 4
 presentations.

 I know this can't be done with #+INCLUDE maybe with a nice babel
 function or a bit of elisp. So maybe someone already did
 that. Otherwise this may be a nice addition for further release of org
 ;)

You could test the patch here:

http://permalink.gmane.org/gmane.emacs.orgmode/91307

I think it introduces something close to what you are looking for.

 #+BEGIN_SRC org
 #+INCLUDE: ./base.org :headline First base chapter
 ,* A more personal chapter
 #+INCLUDE: ./base.org :headline Second base chapter
 ,* Another personal chapter
 #+END_SRC

You'd be able to do

* first chapter
  Note how we're renaming /first base chapter/ on the fly.
* In this book /first base chapter/ is my second chapter
#+INCLUDE: ./base.org::*First base chapter :only-contents t

Of course, you can also include other named objects such as tables and
probably code blocks.

—Rasmus 

-- 
Hvor meget poesi tror De kommer ud af et glas isvand?




Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Grant Rettke
On Tue, Sep 30, 2014 at 2:15 PM, Nick Dokos ndo...@gmail.com wrote:
 Eric Brown br...@fastmail.fm writes:

 2) Grant, I tried your code, but there seem to be some missing headers.
 Do you have a complete minimal example that exhibits the behavior that
 you have demonstrated?

 Add :noweb yes. Also Grant seems to have gone non-standard and replaced
 the noweb markup with guillemots. Using the default markers,
 it should read:

Yikes what a week sorry about that here is what you would need I shall
be defining a function to provide all such details in the future and
thanks Nick for addressing:

╭
│ (setq org-babel-noweb-wrap-start «)
│ (setq org-babel-noweb-wrap-end »)
╰



Re: [O] Exporting to multiple files

2014-09-30 Thread Marcin Borkowski

On 2014-03-09, at 02:34, Marcin Borkowski wrote:

 Hi all,

 I'd like to export an Org-mode file to /multiple/ HTML files.  For
 instance, I might want to convert all first and second level headings
 to files, and third-level headings to h1, fourth-level ones to h2
 inside these files etc.  Is that possible?  I looked into the docs, but
 didn't find anything like this.

Hi all,

I'm now coming back to this old question of mine, now a bit more
determined to actually code something (as opposed to just thinking about
it).

One question: is it a good idea to implement my custom options, set in
the

#+:OPTIONS

line?  If yes (that's what I assume), how to do it?

Best,

-- 
Marcin Borkowski
http://octd.wmi.amu.edu.pl/en/Marcin_Borkowski
Adam Mickiewicz University



Re: [O] Solution for very long hyperlinks when exporting to latex?

2014-09-30 Thread Martin Weigele
Hi Rasmus, thank you very much, Wasn't really aware of texdoc package this 
is great. A lot improvement since the old days... :)

Yes \url{...} is being produced by the exporter in the footnotes. However, 
when I try to set the values by means of #+LATEX_HEADER: \usepackage[hyphens]
{url} I get an option clash with pdfpages, and if removed, with graphics.

Also I found the information that hyperref calls the package url, but it is 
not clear to me how to influence this behaviour in time in the exporter. The 
story is similar if I try to modify hyperref with option breaklinks (which is 
perhaps just passed on to url as 'hyphens').

Thx anyway,
Martin

Am Mittwoch, 1. Oktober 2014, 01:02:07 schrieb Rasmus:
 Hi Martin,
 
 Martin Weigele mar...@weigele.de writes:
  very happy with orgmode but rather desperate these days trying to get very
  long url hyperlinks in footnotes to typeset as line-broken-up links after
  latex export. I have tried the hints available on texstack etc., but none
  of the proposed latex methods work. Not even manual \- produces a
  reasonable result. I have tried with hyperref switched on and off in the
  emacs org exporter configuration, and with the linebreak option of
  hyperref which is not even accepted depending on the exporter setting.
  
  I am using org-version 8.2.4, emacs 24.3.1, texlive 2014, scrbook (added
  this style to .emacs which works fine otherwise). I am not sure if it has
  to do with the exporter or with latex/koma script only, or maybe all
  three of them.
  
  Surely someone must have come across this problem and may be able to
  provide a hint?
 
 url.sy is usually pretty good a breaking urls.  Is the url wrapped in
 \url{·} in your .tex file?  If no, you probably did something wrong.
 If yes you should consult the url manual (texdoc url in your
 terminal if you have TeXLive).  Section 5.2 and maybe section 6 could
 be helpful.
 
 Hope it helps,
 Rasmus

-- 
Dr. Martin Weigele, Kapellenweg 32, 53179 Bonn, Germany
ph. (+49)(0)228 2894468 office - fax (+49)(0)228 2894446
ph. (+49)(0)228 2893997 privat - mobil (+49)(0)177 4196 515
mailto:mar...@weigele.de - http://www.weigele.de




Re: [O] Solution for very long hyperlinks when exporting to latex?

2014-09-30 Thread Rasmus
Martin Weigele mar...@weigele.de writes:

 Hi Rasmus, thank you very much, Wasn't really aware of texdoc package this 
 is great. A lot improvement since the old days... :)

TL is astonishing software.

 Yes \url{...} is being produced by the exporter in the footnotes. However, 
 when I try to set the values by means of #+LATEX_HEADER: \usepackage[hyphens]
 {url} I get an option clash with pdfpages, and if removed, with graphics.

 Also I found the information that hyperref calls the package url, but it is 
 not clear to me how to influence this behaviour in time in the exporter. The 
 story is similar if I try to modify hyperref with option breaklinks (which is 
 perhaps just passed on to url as 'hyphens').

Please share a complete example as org (that produces the quirk from
emacs -q) or as tex.

A unsatisfactory solution is url shortener.

—Rasmus

-- 
Summon the Mothership!



Re: [O] Solution for very long hyperlinks when exporting to latex?

2014-09-30 Thread Martin Weigele
There you go. Thx.

#+TITLE: Blah
#+AUTHOR: Me und Du

#+OPTIONS:   H:20 
#+LATEX_CLASS: scrbook
#+LATEX_CLASS_OPTIONS: 
[paper=17cm:22cm,DIV=calc,BCOR=12mm,titlepage,11pt,scrhack]

#+LATEX_HEADER: \usepackage[english,ngerman]{babel}
#+LATEX_HEADER:\usepackage{
#+LATEX_HEADER:  fixltx2e  % Verbessert einige Kernkompetenzen von LaTeX2e
#+LATEX_HEADER:}
#+LATEX_HEADER:\usepackage{% 
#+LATEX_HEADER:  ellipsis, % Korrigiert den Weißraum um Auslassungspunkte
#+LATEX_HEADER:  ragged2e, % Ermöglicht Flattersatz mit Silbentrennung
#+LATEX_HEADER: marginnote,% Für bessere Randnotizen mit \marginnote statt
#+LATEX_HEADER:% \marginline
#+LATEX_HEADER:}
#+LATEX_HEADER:\usepackage[tracking=true]{microtype}%
#+LATEX_HEADER:% Microtype ist einfach super, aber lesen Sie
#+LATEX_HEADER:% unbedingt die Anleitung um das Folgende zu
#+LATEX_HEADER:% verstehen.
#+LATEX_HEADER: \usepackage{mathptmx, enumerate, 
setspace,alnumsec}\alnumsecstyle{LRald}
#+LATEX_HEADER: \pagenumbering{roman}
#+LATEX_HEADER: \usepackage[hyphens]{url}
#+LATEX_HEADER: \usepackage{pdfpages}
#+LATEX_HEADER: \usepackage{graphics, color}
#+LATEX_HEADER: \usepackage{xcolor}
#+LATEX_HEADER: \usepackage{graphicx, latexsym, keyval, ifthen, moreverb}
#+LATEX_HEADER: \usepackage{gnuplottex}
#+LATEX_HEADER: \usepackage{tikz}
#+LATEX_HEADER: \usepackage{gnuplot-lua-tikz}
#+LATEX_HEADER: \hypersetup{
#+LATEX_HEADER:  breaklinks=true, 
#+LATEX_HEADER:  pdfkeywords={},
#+LATEX_HEADER:  pdfsubject={},
#+LATEX_HEADER:  pdfcreator={Emacs Org-mode version }}

#+TEXT: [TABLE-OF-CONTENTS]

-

(require 'package)
(add-to-list 'package-archives '(org . http://orgmode.org/elpa/;) t)
(require 'ox-odt)
(require 'org-latex)
(setq org-export-latex-listings t)
(add-to-list 'org-latex-classes
 '(scrartcl
   \\documentclass{scrartcl}
;; [NO-DEFAULT-PACKAGES]
;; [EXTRA]
   (\\section{%s} . \\section*{%s})
   (\\subsection{%s} . \\subsection*{%s})
   (\\subsubsection{%s} . \\subsubsection*{%s})
   (\\paragraph{%s} . \\paragraph*{%s})
   (\\subparagraph{%s} . \\subparagraph*{%s})))
(add-to-list 'org-latex-classes
 '(scrbook
   \\documentclass{scrbook}
;; [NO-DEFAULT-PACKAGES]
;; [EXTRA]
   (\\chapter{%s} . \\chapter*{%s})
   (\\section{%s} . \\section*{%s})
   (\\subsection{%s} . \\subsection*{%s})
   (\\subsubsection{%s} . \\subsubsection*{%s})
   (\\paragraph{%s} . \\paragraph*{%s})
   (\\subparagraph{%s} . \\subparagraph*{%s})))

;; active Babel languages
(org-babel-do-load-languages
 'org-babel-load-languages
 '((gnuplot . t)))
;; add additional languages with '((language . t)))
(custom-set-variables
 ;; custom-set-variables was added by Custom.
 ;; If you edit it by hand, you could mess it up, so be careful.
 ;; Your init file should contain only one such instance.
 ;; If there is more than one, they won't work right.
 '(org-latex-with-hyperref nil))
(custom-set-faces
 ;; custom-set-faces was added by Custom.
 ;; If you edit it by hand, you could mess it up, so be careful.
 ;; Your init file should contain only one such instance.
 ;; If there is more than one, they won't work right.
 )





Am Mittwoch, 1. Oktober 2014, 02:04:34 schrieb Rasmus:
 Martin Weigele mar...@weigele.de writes:
  Hi Rasmus, thank you very much, Wasn't really aware of texdoc package
  this is great. A lot improvement since the old days... :)
 
 TL is astonishing software.
 
  Yes \url{...} is being produced by the exporter in the footnotes. However,
  when I try to set the values by means of #+LATEX_HEADER:
  \usepackage[hyphens] {url} I get an option clash with pdfpages, and if
  removed, with graphics.
  
  Also I found the information that hyperref calls the package url, but it
  is
  not clear to me how to influence this behaviour in time in the exporter.
  The story is similar if I try to modify hyperref with option breaklinks
  (which is perhaps just passed on to url as 'hyphens').
 
 Please share a complete example as org (that produces the quirk from
 emacs -q) or as tex.
 
 A unsatisfactory solution is url shortener.
 
 —Rasmus




Re: [O] Solution for very long hyperlinks when exporting to latex?

2014-09-30 Thread Martin Weigele
That is exactly the problem, Rasmus... I am lost in the complexity of object 
and metalevels and don't really know where to start reducing it. Except for 
the naughty monster urls everything else works fine. Thanks anyway. :) 

Good night, Martin

Am Mittwoch, 1. Oktober 2014, 02:20:45 schrieb Rasmus:
 Martin Weigele mar...@weigele.de writes:
  There you go. Thx.
 
 Please send a minimal example that displays the undesired behavior :)
 
  #+TITLE: Blah
  #+AUTHOR: Me und Du
  
  #+OPTIONS:   H:20
  #+LATEX_CLASS: scrbook
  
  #+LATEX_CLASS_OPTIONS:
  [paper=17cm:22cm,DIV=calc,BCOR=12mm,titlepage,11pt,scrhack]
  
  #+LATEX_HEADER: \usepackage[english,ngerman]{babel}
  #+LATEX_HEADER:\usepackage{
  #+LATEX_HEADER:  fixltx2e  % Verbessert einige Kernkompetenzen von LaTeX2e
  #+LATEX_HEADER:}
  #+LATEX_HEADER:\usepackage{%
  #+LATEX_HEADER:  ellipsis, % Korrigiert den Weißraum um Auslassungspunkte
  #+LATEX_HEADER:  ragged2e, % Ermöglicht Flattersatz mit Silbentrennung
  #+LATEX_HEADER: marginnote,% Für bessere Randnotizen mit \marginnote statt
  #+LATEX_HEADER:% \marginline
  #+LATEX_HEADER:}
  #+LATEX_HEADER:\usepackage[tracking=true]{microtype}%
  #+LATEX_HEADER:% Microtype ist einfach super, aber lesen Sie
  #+LATEX_HEADER:% unbedingt die Anleitung um das Folgende zu
  #+LATEX_HEADER:% verstehen.
  #+LATEX_HEADER: \usepackage{mathptmx, enumerate,
  setspace,alnumsec}\alnumsecstyle{LRald}
  #+LATEX_HEADER: \pagenumbering{roman}
  #+LATEX_HEADER: \usepackage[hyphens]{url}
  #+LATEX_HEADER: \usepackage{pdfpages}
  #+LATEX_HEADER: \usepackage{graphics, color}
  #+LATEX_HEADER: \usepackage{xcolor}
  #+LATEX_HEADER: \usepackage{graphicx, latexsym, keyval, ifthen, moreverb}
  #+LATEX_HEADER: \usepackage{gnuplottex}
  #+LATEX_HEADER: \usepackage{tikz}
  #+LATEX_HEADER: \usepackage{gnuplot-lua-tikz}
  #+LATEX_HEADER: \hypersetup{
  #+LATEX_HEADER:  breaklinks=true,
  #+LATEX_HEADER:  pdfkeywords={},
  #+LATEX_HEADER:  pdfsubject={},
  #+LATEX_HEADER:  pdfcreator={Emacs Org-mode version }}
  
  #+TEXT: [TABLE-OF-CONTENTS]
  
  -
  
  (require 'package)
  (add-to-list 'package-archives '(org . http://orgmode.org/elpa/;) t)
  (require 'ox-odt)
  (require 'org-latex)
  (setq org-export-latex-listings t)
  (add-to-list 'org-latex-classes
  
   '(scrartcl
   
 \\documentclass{scrartcl}
  
  ;; [NO-DEFAULT-PACKAGES]
  ;; [EXTRA]
  
 (\\section{%s} . \\section*{%s})
 (\\subsection{%s} . \\subsection*{%s})
 (\\subsubsection{%s} . \\subsubsection*{%s})
 (\\paragraph{%s} . \\paragraph*{%s})
 (\\subparagraph{%s} . \\subparagraph*{%s})))
  
  (add-to-list 'org-latex-classes
  
   '(scrbook
   
 \\documentclass{scrbook}
  
  ;; [NO-DEFAULT-PACKAGES]
  ;; [EXTRA]
  
 (\\chapter{%s} . \\chapter*{%s})
 
 (\\section{%s} . \\section*{%s})
 (\\subsection{%s} . \\subsection*{%s})
 (\\subsubsection{%s} . \\subsubsection*{%s})
 (\\paragraph{%s} . \\paragraph*{%s})
 (\\subparagraph{%s} . \\subparagraph*{%s})))
  
  ;; active Babel languages
  (org-babel-do-load-languages
  
   'org-babel-load-languages
   '((gnuplot . t)))
  
  ;; add additional languages with '((language . t)))
  (custom-set-variables
  
   ;; custom-set-variables was added by Custom.
   ;; If you edit it by hand, you could mess it up, so be careful.
   ;; Your init file should contain only one such instance.
   ;; If there is more than one, they won't work right.
   '(org-latex-with-hyperref nil))
  
  (custom-set-faces
  
   ;; custom-set-faces was added by Custom.
   ;; If you edit it by hand, you could mess it up, so be careful.
   ;; Your init file should contain only one such instance.
   ;; If there is more than one, they won't work right.
   )
  
  
  
  Am Mittwoch, 1. Oktober 2014, 02:04:34 schrieb Rasmus:
  Martin Weigele mar...@weigele.de writes:
   Hi Rasmus, thank you very much, Wasn't really aware of texdoc package
   this is great. A lot improvement since the old days... :)
  
  TL is astonishing software.
  
   Yes \url{...} is being produced by the exporter in the footnotes.
   However,
   when I try to set the values by means of #+LATEX_HEADER:
   \usepackage[hyphens] {url} I get an option clash with pdfpages, and if
   removed, with graphics.
   
   Also I found the information that hyperref calls the package url, but
   it
   is
   not clear to me how to influence this behaviour in time in the
   exporter.
   The story is similar if I try to modify hyperref with option breaklinks
   (which is perhaps just passed on to url as 'hyphens').
  
  Please share a complete example as org (that produces the quirk from
 

Re: [O] Bug (regression) in org-replace-disputed-keys. Bisected.

2014-09-30 Thread Teika Kazura
(The entire thread can be viewed at: 
http://thread.gmane.org/gmane.emacs.orgmode/90626 . cc: Miro Bezjak.)

I propose fixes, but first I explain the whole picture.

TOC
1. Backgrounds
2. Fixes I propose

1. Backgrounds

In fact, beginning from org-8.1 `org-replace-disputed-keys' is intentionally 
ignored, but ** only in ** org-read-date. To be blunt, it was wrong. At least, 
such an exceptional behavior is hard to expect, or incoherence in short.

Why this change was done? One single user asked [1] how to disable 
org-replace-disputed-keys in org-read-date in org-8.0 for his/her **personal 
configuration**. Somehow Carsten Dominik, one of our respectable org 
developers, decided it to be the hard-coded default [1][2] without stating the 
reason.

[1] http://comments.gmane.org/gmane.emacs.orgmode/72180

[2]
* 
http://orgmode.org/cgit.cgi/org-mode.git/commit/?id=a6986494a0c4fc5d3363c2bebe48215e7138e4f1
* 
http://orgmode.org/cgit.cgi/org-mode.git/commit/?id=e8023dde58f267a525b63184ec07d371b5a4c8b5

But since (defvar org-read-date-minibuffer-local-map) was introduced in 
org-8.0.3, s/he can simply customize it. It's the norm in Emacs, rather than 
forcing an exception. (If it were a common request, then we could accept it, 
but it's not.)

2. Fixes

Basically, I'll do what I can, sending patches for both codes and texinfo, if 
you want.

Anyway 
(a) the info file lacks the description on org-read-date-minibuffer-local-map. 

(b) The fact that org-replace-disputed-keys is ignored in org-read-date is 
written in the changelog http://orgmode.org/Changes.html for ver 8.1, under the 
section Important bugfixes, but it should have been in Incompatible 
changes. Moreover, the wording is unsearchable, by lacking the relevant 
variable names. (If it gets reverted as I propose below, an annotation must 
accompany, like But this was reverted later in 8.2.x.)

Now a real fix. There're two candidates:

(i) Revert the wrong commit. Since it was in fact done in two separate 
commits[2], you need another patch, not git-revert. Here it is:

diff -u -r org-8.2.7c-orig/lisp/org.el org-8.2.7c/lisp/org.el
--- org-8.2.7c-orig/lisp/org.el 2014-09-30 18:10:54.485977061 +0900
+++ org-8.2.7c/lisp/org.el  2014-09-30 18:11:24.293602328 +0900
@@ -16220,8 +16220,7 @@
 (defvar org-read-date-inactive)
 
 (defvar org-read-date-minibuffer-local-map
-  (let* ((org-replace-disputed-keys nil)
-(map (make-sparse-keymap)))
+  (let* ((map (make-sparse-keymap)))
 (set-keymap-parent map minibuffer-local-map)
 (org-defkey map (kbd .)
 (lambda () (interactive)


(ii) Leave the code as-is, and be satisfied by doc fixes only. Then you have to 
fix
* Texinfo, the `org-replace-disputed-keys' part, adding Exception: it's 
ignored in ...,
* `org-read-date' w/ Exception...
* and also the changelog in 8.2 (or later): org-replace-disputed-keys is 
ignored in org-read-date. In fact it has been so since 8.1, but has not been 
described adequately.

Thanks to Nicolas Goaziou for reading, and all other org developers.
(Sorry for posting my original message twice.)

Regards,
Teika (Teika kazura)



Re: [O] Error Embedding SQL Source from code block into R Source of Another (noweb)

2014-09-30 Thread Nick Dokos
Grant Rettke g...@wisdomandwonder.com writes:

 On Tue, Sep 30, 2014 at 2:15 PM, Nick Dokos ndo...@gmail.com wrote:
 Eric Brown br...@fastmail.fm writes:

 2) Grant, I tried your code, but there seem to be some missing headers.
 Do you have a complete minimal example that exhibits the behavior that
 you have demonstrated?

 Add :noweb yes. Also Grant seems to have gone non-standard and replaced
 the noweb markup with guillemots. Using the default markers,

That should be guillemets.

 it should read:

 Yikes what a week sorry about that here is what you would need I shall
 be defining a function to provide all such details in the future and
 thanks Nick for addressing:

 ╭
 │ (setq org-babel-noweb-wrap-start «)
 │ (setq org-babel-noweb-wrap-end »)
 ╰



And an OT question:

Since on my keyboard I can type  much more easily than I can type «
I was wondering: does your keyboard provide an easy way to type a
guillemet? Is that why you changed it? Or is it purely aesthetics?

-- 
Nick




Re: [O] Exporting to multiple files

2014-09-30 Thread Eric Abrahamsen
Marcin Borkowski mb...@wmi.amu.edu.pl writes:

 On 2014-03-09, at 02:34, Marcin Borkowski wrote:

 Hi all,

 I'd like to export an Org-mode file to /multiple/ HTML files.  For
 instance, I might want to convert all first and second level headings
 to files, and third-level headings to h1, fourth-level ones to h2
 inside these files etc.  Is that possible?  I looked into the docs, but
 didn't find anything like this.

 Hi all,

 I'm now coming back to this old question of mine, now a bit more
 determined to actually code something (as opposed to just thinking about
 it).

 One question: is it a good idea to implement my custom options, set in
 the

 #+:OPTIONS

 line?  If yes (that's what I assume), how to do it?

I'm pretty sure there's nothing out of the box that does this.

I've spent time thinking about this off and on in the past, as I've been
(very slowly) chewing through a direct-to-epub export backend, and it
can be nice to have multiple HTML files in the epub package. Splitting
the files is a bit of a problem, but the real pain in the neck is
re-writing internal links so they're still valid. I thought about using
Org publishing mechanism instead of exporting, but the two systems seem
pretty locked in their paradigms: publishing is many-to-many, exporting
is one-to-one (or many-to-one, with includes). There's no built-in
option for one-to-many.

If you don't care about internal links, you'll still have to largely
short-circuit the export process. You could use org-element-map to zip
over the headlines, breaking off subtrees where appropriate and putting
them in a temporary Org-mode buffer, using org-promote-subtree to change
the depth, and then exporting the buffer to an appropriate file.

Or you could go the parsed route: split the file into buffers, parse
each buffer, remove top-level headings, increment the :level property of
all remaining headings, and then use `org-export-data' to get the HTML.

I'm sort of just thinking out loud here, I'm not sure what the best
approach would be.

Eric




Re: [O] Improved way to include some headlines from an external org file

2014-09-30 Thread Xavier Garrido

Hi Andrea,

Le 30/09/2014 21:55, Andrea Rossetti a écrit :

Xavier Garrido xavier.garr...@gmail.com writes:

Is there a way ...

...

to write something like that

...

#+BEGIN_SRC org
#+INCLUDE: ./base.org :headline First base chapter
,* A more personal chapter
#+INCLUDE: ./base.org :headline Second base chapter
,* Another personal chapter
#+END_SRC


Hi! today I crossed into Sacha's weekly links
( http://sachachua.com/blog/#post-27515 ).

One of the proposed link suggests a solution not too far
from your initial question:

http://endlessparentheses.com/updating-org-mode-include-statements-on-the-fly.html?source=rss



Thanks for the follow-up. Actually I am waiting this patch 
http://article.gmane.org/gmane.emacs.orgmode/90932/match=include+resolve+links 
to be pushed by Rasmus (see the comment in the endlessparentheses article).


Thanks again,
Xavier




Kindest regards,

   Andrea





Re: [O] Improved way to include some headlines from an external org file

2014-09-30 Thread Xavier Garrido

Hi Rasmus,

Le 01/10/2014 01:10, Rasmus a écrit :

Hi Xavier,

You could test the patch here:

 http://permalink.gmane.org/gmane.emacs.orgmode/91307



I am following the discussion since the beginning (and all your exchange 
with Nicolas)



I think it introduces something close to what you are looking for.



This is exactly what I needed and I will try to test it today.


#+BEGIN_SRC org
#+INCLUDE: ./base.org :headline First base chapter
,* A more personal chapter
#+INCLUDE: ./base.org :headline Second base chapter
,* Another personal chapter
#+END_SRC


You'd be able to do

* first chapter
   Note how we're renaming /first base chapter/ on the fly.
* In this book /first base chapter/ is my second chapter
#+INCLUDE: ./base.org::*First base chapter :only-contents t

Of course, you can also include other named objects such as tables and
probably code blocks.



Reading the discussion, I didn't get this last feature of including 
named code blocks and tables ! I have another use case that can benefit 
from this patch. So thanks a lot for all the hard work.


Cheers,
Xavier


—Rasmus