[Orgmode] Error making new org-mode git pull
I have attempted today to do a routine update by running git pull, then making. Make fails with the following message: Loading /etc/emacs/site-start.d/65wl-beta.el (source)... In toplevel form: lisp/org-faces.el:399:1:Error: Wrong number of arguments: #[(face spec doc rest args) \304\30D F \244\207 [face spec doc args custom-declare-face quote] 4 1717761], 2 make: *** [lisp/org-faces.elc] Error 1 tei...@hardware:~/Emacs/org-mode.git$ Perhaps I have bodged things up? Alan -- Alan Davis It is undesirable to believe a proposition when there is no ground whatsoever for supposing it is true. -- Bertrand Russell ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] Re: [OT] basic emacs tips you will need someday (was: Footnotes and R output when exporting to HTML or Latex)
Manish, I will have a look at this. Thansk fro the pointer. Graham 2009/1/22 Manish Sharma mailtomanish.sha...@gmail.com: Paul R paul.r...@gmail.com writes: Graham, Graham Thanks, but I would appreciate a bit more hand holding on this. Graham I don't actually know how to check org-footnote-re and Graham org-footnote-definition-re I think the best help I can do is to describe the first steps to find your way in the emacs jungle. [snip: nice helpful introduction to Emacs help (206 lines)] I hope this does not sounds too much like a stupid RTFM. This was a RTFM, indeed, but a nice one I hope :) One of the best introductory materials to Emacs I have come across is a series of tutorials on IBM DeveloperWorks website at http://www.ibm.com/developerworks/views/aix/libraryview.jsp?search_by=emacs+editing+environment Hope someone finds it useful. -- Manish Life is beautiful.* * Conditions apply. ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] org-mode to iphone?
Hi Christopher, I am extremely interested in what you write here about using HTML to look at the agenda, sending automatic emails for completed tasks, and even the IMAP store idea. So please get back to it when you find time and keep us posted. I could tweak the HTML exporter where necessary to make a good mobile access idea for Org-mode stuff a reality. - Carsten On Dec 22, 2008, at 11:10 PM, Christopher DeMarco wrote: As a more-useful alternative to my ha-ha-only-serious email response, look at the export-to-HTML functions. I haven't gotten here yet with org-mode, but I understand they're pretty powerful -- and HTML is perfect for the iPhone. A robust HTML interface to your org-mode would be much more useful than a native iPhone app, IMHO, and without the landmines of interfacing with iCal et.al. My previous organization system (Python-based) had a simple CGI interface to parse my sources into HTML with CSS for the iPhone; it worked surprisingly well, including hyperlinks that sent me email noting that I'd checked off an item -- I didn't trust myself to actually change state from the iPhone, but sent a check off the item manually reminder. Once I've got my Emacs-native org-mode where I want it, I plan on tackling the iPhone display and sharing my code with the list. It should be pretty easy to write a mod_python handler to pull org-mode source from Git or Subversion and run that through the elisp interpreter... But seriously, you could totally expose your agenda view as an IMAP store... -- Christopher DeMarco dema...@maya.com IT Director MAYA Group +1-412-708-9660 ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] org tables and R
Hi everyone, should we include Dan's code as a contributed package or even merge it into org-plot? - Carsten On Dec 30, 2008, at 8:35 PM, Dan Davison wrote: Hi all, I've had a go at taking the org tables and R thing a bit further. I'm using two different #+ lines in the org buffer: Lines starting with #+TBLR: are in the standard org style (option:value) and can be used to specify certain transformations of the table and standard plots of the table data. In lines starting #+TBLR:: you can supply literal R code, giving you full control over what you do with the table. M-x org-table-R-apply makes happen whatever has been specified in those lines. As long as the transformation results in something reasonably one- or two-dimensional, then this is output to the org-buffer as an org table (you can choose whether or not it replaces the original table). You need to have R running in an inferior-ess-mode buffer. Then, if you have this table, | rowname | col1 | col2 | |-+--+--| | row 1 |1 |2 | | row 2 |3 |4 | | total | | | #+TBLR:: x[3,] - x[1,] + x[2,] #+TBLR: rownames:1 org-table-R-apply turns it into | rownames(x) | col1 | col2 | |-+--+--| | row 1 |1 |2 | | row 2 |3 |4 | | total |4 |6 | The action:something option specifies off-the-shelf actions, without having to write any R code. E.g. | col1 | col2 | |--+--| |1 |2 | |3 |4 | #+TBLR: action:transpose produces | | V1 | V2 | |--++| | col1 | 1 | 3 | | col2 | 2 | 4 | and #+TBLR: action:plot columns:((1)(2)) lines:t rownames:1 would plot column 2 against column 1. You can mix user-code and off-the-shelf code: in this somewhat solipsistic example user-supplied code is used to extract the day of week, and then action:tabulate is used to build a 2-way table: | author | date| |-+-| | Carsten Dominik | Thu, 12 Jun 2008 12:51:54 +0200 | | Carsten Dominik | Wed, 11 Jun 2008 08:57:39 +0200 | | Adam Spiers | Wed, 11 Jun 2008 12:06:23 +0100 | | Eddward DeVilla | Wed, 11 Jun 2008 12:15:11 -0500 | | Eddward DeVilla | Wed, 11 Jun 2008 20:09:50 -0500 | | Harri Kiiskinen | Wed, 04 Jun 2008 16:38:37 +0200 | | Carsten Dominik | Thu, 12 Jun 2008 14:15:49 +0200 | | Harri Kiiskinen | Thu, 12 Jun 2008 14:31:49 +0200 | | Carsten Dominik | Thu, 12 Jun 2008 16:17:59 +0200 | | Manoj Srivastava| Mon, 09 Jun 2008 01:52:03 -0500 | | Daniel Clemente | Wed, 04 Jun 2008 16:35:01 +0200 | | Carsten Dominik | Mon, 9 Jun 2008 09:56:09 +0200 | | Carsten Dominik | Tue, 10 Jun 2008 10:05:24 +0200 | | Adam Spiers | Tue, 10 Jun 2008 10:57:52 +0100 | | Manuel Hermenegildo | Tue, 10 Jun 2008 13:50:44 +0200 | | Christian Egli | Tue, 24 Jun 2008 13:27:05 +0200 | #+TBLR: columns:(1 2) action:tabulate #+TBLR:: x[,2] - substr(x[,2], 1, 3) results in | | Mon | Thu | Tue | Wed | |-+-+-+-+-| | Adam Spiers | 0 | 0 | 1 | 1 | | Carsten Dominik | 1 | 3 | 1 | 1 | | Christian Egli | 0 | 0 | 1 | 0 | | Daniel Clemente | 0 | 0 | 0 | 1 | | Eddward DeVilla | 0 | 0 | 0 | 2 | | Harri Kiiskinen | 0 | 1 | 0 | 1 | | Manoj Srivastava| 1 | 0 | 0 | 0 | | Manuel Hermenegildo | 0 | 0 | 1 | 0 | #+TBLR: action:barplot rownames:1 columns:(1 2 3 4) showcode:t The #+TBLR: line below that produces a bar plot of the data. There are more details below. The code is at http://www.stats.ox.ac.uk/~davison/software/org-table-R/org-table-R.el It would be great to get any feedback on this. My thought was that something like this has the potential to provide a unified plotting and table formula interface, which might be attractive to people who know and/or like and/or want to learn R. There's lots more that could be done with this, and there must be all sorts of bugs in it at this stage. But if there's any interest in it then it could be improved. Anyway, read on if you're interested in hearing more details about the options and actions available. Dan Currently, the available actions are - plot A simple plot of the x and y values. If no x-values are specified then the the y values are plotted against 1,2,...,length(y). If lines:t then the points are joined by lines. - lines Equivalent to action:plot lines:t - points Equivalent to action:plot lines:nil - barplot Create a bar plot. A vertical bar is drawn for each row, with height given by the value in that row. If multiple columns are selected the bars for different columns are placed side-by-side. - hist A histogram - density A smoothed histogram - image A plot of a table in which each cell is coloured according its numeric value. - tabulate Create a table containing counts of the
Re: [Orgmode] Error making new org-mode git pull
Fixed, thanks. - Carsten On Jan 22, 2009, at 9:42 AM, Alan E. Davis wrote: I have attempted today to do a routine update by running git pull, then making. Make fails with the following message: Loading /etc/emacs/site-start.d/65wl-beta.el (source)... In toplevel form: lisp/org-faces.el:399:1:Error: Wrong number of arguments: #[(face spec doc rest args) \304\30D F \244\207 [face spec doc args custom-declare-face quote] 4 1717761], 2 make: *** [lisp/org-faces.elc] Error 1 tei...@hardware:~/Emacs/org-mode.git$ Perhaps I have bodged things up? Alan -- Alan Davis It is undesirable to believe a proposition when there is no ground whatsoever for supposing it is true. -- Bertrand Russell ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
[Orgmode] Re: Advice sought on managing decision alternatives.
Hi Tom,
I went through your draft and I think this is interesting functionality
which would be really nice to have.
I also see that you have thought carefully on how to implement it
and minimize impact on the core code, which I appreciate.
I would be happy to to make/accept the following changes
to org.el:
In addition to SEQ_TODO and TYP_TODO, I could look for similar
words. We could even do this in a general way, looking for
#+XYZFOOBAR_TODO:
and making this call a special function org-todo-setup-xyzfoobar, which
could then be defined in add-on packages.
As you want to re-use the internal functions Org uses
to change states, I would like to change this code as
little as possible, even going beyond what you already proposed:
My proposal would be:
Your add-on defines a setup function which is actually a *filter*
function.
It gets passed the list of words resulting from parsing the
#+CHOOSE_TODO: line, or equivalently such a list found in
org-todo-keywords.
For example:
#+CHOOSE_TODO: REJECTED - NOT_CHOSEN 0 MAYBE LEANING_TOWARDS + CHOSEN
or
#+CHOOSE_TODO: REJECTED(r){-} NOT_CHOSEN(n){0} MAYBE(m)
LEANING_TOWARDS(l){+} CHOSEN(c)
The format would be entirely up to you, as long as you do the following:
The filter function must return a list as it is *normally*
expected for TODO keywords, with flags for fast selection
and note taking, maybe a | entry to separate DONE entries
from the rest, but any other special stuff of your interface
removed, for example:
(choseness REJECTED(r) NOT_CHOSEN(n) MAYBE(m)
LEANING_TOWARDS(l) | CHOSEN(c))
Org will then process this return list appropriately, set up
keys for fast selection, arranges for notes and time stamps
to be recorded etc.
The interaction type does very little indeed inside Org, it
only decides if a cycling command should go to the next
step (sequence) or jump to the first DONE state (type).
I think we should treat any other interaction types like
sequence in this respect.
This would be all as far as Org is concerned. No need to
change any code at all.
I will then add hooks wherever you need them, they will
be called whenever a TODO keyword changes and your code
can react to it.
One important precaution would be to make sure that one does
not end up in infinite loops, so maybe when the hook is called,
bind it dynamically to a nil value while you mess around with
with the status of the siblings. Maybe do the same thing with
the variables that trigger time stamp and note recording.
What do you think?
- Carsten
P.S. What is you copyright status with the FSF?
On Jan 19, 2009, at 4:33 AM, Tom Breton (Tehom) wrote:
On my last two requests, Carsten had better ideas and my proposal
really benefitted from them. So I'm asking for advice on the design.
** Rationale
When I make a decision, in org-mode, I write down the set of
reasonable alternatives that I see, each one as an item. Then I make
notes about each one and then choose.
Often the process is messy. I sometimes:
* add a new alternative later
* realize an alternative is fatally flawed and permanently reject it.
* choose one but come to regret it. Then I need to unchoose it and
then choose another.
* Realize that what I thought was an alternative is really a distinct
yes/no choice.
* Add a related yes/no choice to the group - I could make a new
subtree for each new related choice, but usually once I find one
related choice, I soon find many, so that's a lot of restructuring
for little benefit.
** The overall idea:
So I want a way of keeping track of alternatives and their state of
decision. Where possible, I'd like this to automatically stay in a
sensible state. Eg, if one alternative is chosen, no other is.
** A detailed example
*** Item markings
For example, each item could be marked from this set of markings:
* CHOSEN
* Invariant :: The other items are marked NOT CHOSEN or lower
* Reaction :: If another item becomes CHOSEN, this item becomes NOT
CHOSEN
* Reaction :: If another item becomes LEANING TOWARDS, this item
becomes MAYBE.
* LEANING TOWARDS
* Invariant :: The other items are marked MAYBE or lower.
* Reaction :: If another item becomes LEANING TOWARDS, this item
becomes MAYBE.
* MAYBE
* The default marking. New items in the group get this marking
unless some item is marked CHOSEN, in which case new items get
NOT CHOSEN.
* Reaction :: If another item becomes CHOSEN, MAYBE becomes NOT
CHOSEN.
* NOT CHOSEN
* Reaction :: If it becomes the case that no item is CHOSEN, NOT
CHOSEN items become MAYBE.
* If marks are to be changed by moving up and down this scale, an
item could become NOT CHOSEN in the course of becoming
REJECTED. This requirement keeps me from adding an invariant
that if any item is NOT CHOSEN, exactly one item should be
CHOSEN.
* REJECTED
* Remains marked REJECTED regardless what happens to
[Orgmode] Publishing a HTML wiki
Greetings list, Is there a guide anywhere how to use Org Mode to publish a wiki? A howto on how to do something like worg, for example? Regards, Jan Seeger ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] org tables and R
Carsten should we include Dan's code as a contributed package or even merge it into org-plot? I would like to see it included some how, as, for me, the more integration between org-mode and R the better. As to how it should be included, I must leave to other who more about Org-mode, Emacs, ESS and R than I do. Graham ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] Publishing a HTML wiki
Jan, Since a wiki is by nature an on-line editing experience, and org is by nature an off-line editing experience, you might have to specify a little more exactly what you mean. (So far :-] there is no emacs webapp). You may have seen the discussions on this list in the past few days about converting/exporting org texts to wiki *syntax*, and there were even some links to rough scripts to do conversion to particular wikis, as well as some discussion about extending org's export capabilities to more easily export wikified text. But this requires a wiki already in place, and some mechanism --like cut and paste--of passing org-exported text to it. If you want a whole site, I think it's just a matter of using org's publishing function. I assume this is what Worg does. Using something like 'git' makes it possible to have org files which are edited by the community (which is like a Wiki), but this is not 'publishing a wiki' exactly, since there is no editing possible online. Everyone has to get set up with your version management software. That said, I too have wondered exactly how the Worg is generated (automatically, manually?) from uploaded org files, and just how the styling (CSS I assume?) is done. Scot On Thu, Jan 22, 2009 at 12:25 PM, Jan Seeger jan.see...@thenybble.de wrote: Greetings list, Is there a guide anywhere how to use Org Mode to publish a wiki? A howto on how to do something like worg, for example? Regards, Jan Seeger ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] Publishing a HTML wiki
At Thu, 22 Jan 2009 14:26:27 +, Scot Becker wrote: Jan, Since a wiki is by nature an on-line editing experience, and org is by nature an off-line editing experience, you might have to specify a little more exactly what you mean. Yeah, sorry for the short question. What I meant is: How would I configure org mode to allow easy export of static HTML suitable for a (fishbowled) wiki? Features I would like are easy links inside the wiki, image support (preferably with copyig between source and HTML tree) and folder structure support. Regards, Jan Seeger ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] Publishing a HTML wiki
On Jan 22, 2009, at 3:26 PM, Scot Becker wrote: Jan, Since a wiki is by nature an on-line editing experience, and org is by nature an off-line editing experience, you might have to specify a little more exactly what you mean. (So far :-] there is no emacs webapp). You may have seen the discussions on this list in the past few days about converting/exporting org texts to wiki *syntax*, and there were even some links to rough scripts to do conversion to particular wikis, as well as some discussion about extending org's export capabilities to more easily export wikified text. But this requires a wiki already in place, and some mechanism --like cut and paste--of passing org-exported text to it. If you want a whole site, I think it's just a matter of using org's publishing function. I assume this is what Worg does. Using something like 'git' makes it possible to have org files which are edited by the community (which is like a Wiki), but this is not 'publishing a wiki' exactly, since there is no editing possible online. Everyone has to get set up with your version management software. That said, I too have wondered exactly how the Worg is generated (automatically, manually?) from uploaded org files, and just how the styling (CSS I assume?) is done. Bastien set this up. Here is how it works: On the web server, we have a git directory that contains clones of the public repositories of Worg and Org. We have a .emacs file which defines publishing projects, and a little helper function to call the publishing command: (require 'org-publish) (setq org-publish-project-alist '((worg :components (worg-pages worg-code worg-images)) (worg-pages :base-directory ~/git/Worg/ :base-extension org :html-extension php :publishing-directory /home/cdominik/orgmode.org/worg/ :publishing-function org-publish-org-to-html :section-numbers nil :table-of-contents nil :style link rel=\stylesheet\ href=\/worg/worg.css\ type=\text/css\ / :recursive t :auto-preamble t :auto-postamble nil) (worg-code :base-directory ~/git/Worg/code/ :base-extension html\\|css\\|png\\|js\\|bz2 :html-extension html :publishing-directory /home/cdominik/orgmode.org/worg/code/ :recursive t :publishing-function org-publish-attachment) (worg-images :base-directory ~/git/Worg/images/ :base-extension png\\|jpg\\|gif :html-extension html :publishing-directory /home/cdominik/orgmode.org/worg/ images/ :recursive t :publishing-function org-publish-attachment) (orgweb :base-directory ~/git/org-mode/ORGWEBPAGE/ :base-extension org :html-extension html :publishing-directory /home/cdominik/orgmode.org/ :publishing-function org-publish-org-to-html :section-numbers nil :table-of-contents t :style link rel=\stylesheet\ href=\/org.css\ type= \text/css\ / :auto-preamble t :exclude DS_Store :recursive t :auto-postamble nil))) (defun worg-org-publish nil Publish Worg and Org. (interactive) ;; (org-publish-initialize-files-alist t) (org-publish-all)) Then we have two little shell scripts: The first one pulls the git repositories for Org and Worg from the git server: #!/bin/bash export PATH=$PATH:/home/cdominik/bin/ cd /home/cdominik/git/Worg/ /home/cdominik/bin/git-pull cd /home/cdominik/git/org-mode/ /home/cdominik/bin/git-pull The second calls emacs and tells it to publish all projects: #!/bin/bash /home/cdominik/bin/emacs23 --batch -l ~/.batch-color.el --eval (load- file \/home/cdominik/.emacs.el\) -f worg-org-publish Finally there are crontab entries that trigger these shell scripts the full and half hour, respectively. 0 * * * * /home/cdominik/bin/pull-worg-org.sh /dev/null 21 30 * * * * /home/cdominik/bin/publish-worg-org.sh /dev/null 21 So it can take at most 90 minutes for changes to arrive at the website. I myself am impatient, with ssh access to the web server, I can simply do make updateweb in my Org directory. This will do something like ssh cdomi...@caprisun.dreamhost.com 'pull-worg-org.sh publish-worg- org.sh' i.e. it will pull and publish new stuff right away Great system, works well, kudos to Bastien!! - Carsten Scot On Thu, Jan 22, 2009 at 12:25 PM, Jan Seeger jan.see...@thenybble.de wrote: Greetings list, Is there a guide anywhere how to use Org Mode to publish a wiki? A howto on how to do something like worg, for example? Regards, Jan Seeger ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list
Re: [Orgmode] Publishing a HTML wiki
Hi Jan, Jan Seeger jan.see...@thenybble.de writes: At Thu, 22 Jan 2009 14:26:27 +, Yeah, sorry for the short question. What I meant is: How would I configure org mode to allow easy export of static HTML suitable for a (fishbowled) wiki? Features I would like are easy links inside the wiki, image support (preferably with copyig between source and HTML tree) and folder structure support. If I understand your question correctly, you are interested in how to export a set of org files as an html website with links between the files intact and the org folder structure mirrored on the website. That is precisely what org-publish can do. There's a really nice tutorial on Worg on how to publish a static website with org. http://orgmode.org/worg/org-tutorials/org-publish-html-tutorial.php I'm glad for this thread because I was really interested in the scripts that automate Worg. Thanks for that info Carsten! Best, Matt ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
[Orgmode] Re: org-mode to iphone?
On Thu, 22 Jan 2009 09:06:38 +0100, Carsten Dominik
domi...@science.uva.nl said:
CD So please get back to it when you find time and keep us
CD posted. I could tweak the HTML exporter where necessary
CD to make a good mobile access idea for Org-mode stuff
CD a reality.
I've been meaning to write this up for a while, and I think this sort of
idea is exactly what could benefit from it...
I think there should be a generic exporter that contains simple
customization rules for how to do an export. Something like:
(setq org-export-templates
'((mediawiki
:heading1-prefix =
:heading1-suffix =
:heading2-prefix ==
:heading2-suffix ==
:bold-prefix '''
:bold-suffix '''
:link-format [%{url} %{link-text}]
:numbered-list-prefix #
:numbered-list-suffix \n
)))
I'm making stuff up on the fly above, but I think you get the idea.
Most of the exporting formats that are needed could really be simplified
down to something minimal like the above. It'd be much easier than
continually rewriting much of the export process when a lot of it is the
same across multiple back-ends.
I'm not sure it could be applied everywhere. Certainly there are some
very tricky elements to deal with (and the default, if not defined,
should be to fall back to a straight text conversion). IE, I'm not sure
the latex backend could be easily rewritten using something like the
above (but hey, you never know).
There are a number of things I'd like to export to something unusual,
and the above would allow that flexibility. Unfortunately, I don't have
much time, and more importantly don't have the org skill at all to make
it happen.
Thoughts?
--
In the bathtub of history the truth is harder to hold than the soap,
and much more difficult to find. -- Terry Pratchett
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Re: [Orgmode] graphing from org-tables
On Mon, Dec 22, 2008 at 12:00:14PM -0500, Eric Schulte wrote:
Hi Dan,
...
2) Also interesting is the idea of referencing a table from a block of R
code elsewhere in the org file. I've worked some on processing
blocks of R code in org files in a manner similar to Sweave.
http://github.com/eschulte/org-contrib/tree/master/org-exp-blocks.el
If we could implement a simple means of referencing tables (either
whole tables, or cells/cols/rows of tables) from these R-code blocks
then that seems like it may be fairly powerful.
I agree with this. So in the case of my code, I think we would like to
be able to do something like
#+TBLR: data:org-table-reference columns:(1 2) action:tabulate
This would make the output of the analysis/plot of the table pointed
to by org-table-reference appear at the location in the file of the
#+TBLR line. Perhaps one design aim would be to have the same
mechanism work for referencing tables for processing by #TBLFM,
org-plot, org-table-R, org-exp-blocks, etc. What ideas to people have
about implementation (and syntax) for this sort of table referencing?
Dan
Thanks -- Eric
Dan Davison davi...@stats.ox.ac.uk writes:
On Mon, Jul 28, 2008 at 04:41:52PM +0100, Dan Davison wrote:
On Mon, Jul 28, 2008 at 08:32:22AM -0700, Eric Schulte wrote:
Hi Dan,
One way around the sleep(60) hack may be to create the R graph using
an inferior R process. See
Yep, I just this minute asked for help on the Emacs Speaks Statistics
(ESS) mailing list! I'll report back if I make progress with that.
https://stat.ethz.ch/pipermail/ess-help/2008-July/004785.html
I think it's worth keeping this avenue alive, despite so much progress
having been made with gnuplot in the interim. So below is an initial
version of org-table-eval-R, which takes an arbitrary R function, and
applies it to an org table. As suggested above, this uses
inferior-ess-mode and therefore requires ess (emacs speaks statistics)
and R to be installed.
At it's simplest, R-function can be the name of a standard R
function. So with Eric's first example data set on Worg
(http://legito.net/worg/org-tutorials/org-plot.php) i.e. with 2
dependent variables
(org-table-eval-R summary) produces (in a new buffer)
first.dependent.var second.dependent.var
Min. :0.1560 Min. :0.1808
1st Qu.:0.1773 1st Qu.:0.1985
Median :0.1900 Median :0.2146
Mean :0.2110 Mean :0.2262
3rd Qu.:0.2333 3rd Qu.:0.2375
Max. :0.4250 Max. :0.3750
and (org-table-eval-R matplot) produces a rough version of Eric's
gnuplot figure. (see below for a closer reproduction of the figure,
with the legend etc).
It would be simple to provide org-plot/R which would construct a
suitable plotting function and pass it to org-table-eval-R, and some
ready-made R code could be provided for standard plots -- histograms
barplots, scatter plots, etc. I've given an initial version of
org-plot/R below, which gives the option to produce eps output rather
than a pop-up window (and it would be easy to use any of the R
graphics devices for output: jpeg, png, ps, pdf, tiff, X11, quartz,
etc)
But the power of this approach is that it provides not just plotting
functionality, but the ability to do arbitrary calculations and
statistical analyses of the org table, via the base R packages and the
hundreds of user-written packages.
It would have been better to have developed these ideas along with the
development of org-plot, but unfortunately I let that slip. But
org-table-eval-R provides a lot of power for anyone that's prepared to
write some R code. And if there's interest, then some more
user-friendly functionality could be provided for org users that want
something easier, but can install ess and R.
Dan
and here's a rough version of the O R G grid plot
(org-table-eval-R (function (x) image(t(as.matrix(x t)
Of course, these can be beautified to your heart's content with lots
of extra arguments to the R plotting functions. This comes a bit
closer to the two dependent-variables graph:
(org-table-eval-R (function(x) { matplot(x, type=\l\, ylab=\\) ;
legend(\topright\, legend=c(\dep var 1\\,\dep var 2\), col=1:2,
lty=1:2) }))
--
(defun org-table-eval-R (R-function optional rownames-absent)
Apply an arbitrary R function to the org table at
point. R-FUNCTION is an R function (a string) taking one
argument, which is the R data frame representation of the org
table. It may be the name of an appropriate R
function (e.g. \summary\, \plot\), or a user-defined
anonymous function of the form \(function(data.frame)
{...})\. Unless ROWNAMES-ABSENT is non-nil the row names of the
data frame are taken from the first column of the org table
(interactive)
Re: [Orgmode] org-mode to iphone?
I've been tempted to create a frontend web site devoted toward very simple operations in regard to using org-mode - something say in Django or something, and using sync scripts to the org files.The idea I was thinking is just a simple CRUD operation with that file (either that or use a sql database such as sqllite and use a cron job that syncs these together). I wouldn't mind still completing that if people are interested in such a tool. Since I have just an ipod touch, I've been reluctant to build it since I don't have access 100% of the time to the app. -David On Thu, Jan 22, 2009 at 2:06 AM, Carsten Dominik domi...@science.uva.nlwrote: Hi Christopher, I am extremely interested in what you write here about using HTML to look at the agenda, sending automatic emails for completed tasks, and even the IMAP store idea. So please get back to it when you find time and keep us posted. I could tweak the HTML exporter where necessary to make a good mobile access idea for Org-mode stuff a reality. - Carsten On Dec 22, 2008, at 11:10 PM, Christopher DeMarco wrote: As a more-useful alternative to my ha-ha-only-serious email response, look at the export-to-HTML functions. I haven't gotten here yet with org-mode, but I understand they're pretty powerful -- and HTML is perfect for the iPhone. A robust HTML interface to your org-mode would be much more useful than a native iPhone app, IMHO, and without the landmines of interfacing with iCal et.al. My previous organization system (Python-based) had a simple CGI interface to parse my sources into HTML with CSS for the iPhone; it worked surprisingly well, including hyperlinks that sent me email noting that I'd checked off an item -- I didn't trust myself to actually change state from the iPhone, but sent a check off the item manually reminder. Once I've got my Emacs-native org-mode where I want it, I plan on tackling the iPhone display and sharing my code with the list. It should be pretty easy to write a mod_python handler to pull org-mode source from Git or Subversion and run that through the elisp interpreter... But seriously, you could totally expose your agenda view as an IMAP store... -- Christopher DeMarco dema...@maya.com IT Director MAYA Group +1-412-708-9660 ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] bugs in C-*
Thanks, Carsten. Not only is this a bug fix, it's a nice improvement that increases consistency with other org operations. I think it's fine touches like this that make org mode so intuitive. Scott On Jan 21, 2009, at 9:43 AM, Carsten Dominik wrote: Hi, following this thread, I have revisited the commands `C-c -' and `C-c *' and hope that they are now better behaved and more useful: ... ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
[Orgmode] Re: Advice sought on managing decision alternatives.
P.S. What is you copyright status with the FSF? I believe I'm already good to go. A few years back when I contributed some code to emacs' lread.c, RMS had me sign and send the letter that legally enabled FSF to include it. IIUC, that step only has to be done once for any code contributor. Your add-on defines a setup function which is actually a *filter* function. OK, sounds good. And makes it a bit easier to test. The interaction type does very little indeed inside Org, it only decides if a cycling command should go to the next step (sequence) or jump to the first DONE state (type). I think we should treat any other interaction types like sequence in this respect. Here it would also distinguish chosenness from the other interpretations, but that would be entirely inside org-decisions.el. I will then add hooks wherever you need them, they will be called whenever a TODO keyword changes and your code can react to it. OK. One important precaution would be to make sure that one does not end up in infinite loops, so maybe when the hook is called, bind it dynamically to a nil value while you mess around with with the status of the siblings. Maybe do the same thing with the variables that trigger time stamp and note recording. Right. I had already planned to let the hooks to nil; I will do the same for the time stamp and note recording variables. Thanks for the advice. I will code it up and send it. Tom Breton (Tehom) ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] org-mode to iphone?
The idea of a generic exporter sounds very cool. Especially if it could still make use of the very refined set of options org mode has to include and prune subtrees, to include or exclude keywords, timestamps, and tags. I wonder if it could be made also to work with something like the Pandoc extensions to Markdown [http://johnmacfarlane.net/pandoc/], which would then allow further export into the range of formats Pandoc supports (markdown, reStructuredText, HTML, ConTeXt, RTF, DocBook XML, OpenDocument XML, ODT, GNU Texinfo, MediaWiki markup, groff man pages, and S5 HTML slide shows). Of course, such flexibility probably doesn't come without it's struggles, but the ability to throw an org document in and get and ODF would have significant benefit. I'll have to think about how far a generic substitution-based exporter could get at such a conversion Scot On Thu, Jan 22, 2009 at 4:57 PM, David Thole dth...@gmail.com wrote: I've been tempted to create a frontend web site devoted toward very simple operations in regard to using org-mode - something say in Django or something, and using sync scripts to the org files.The idea I was thinking is just a simple CRUD operation with that file (either that or use a sql database such as sqllite and use a cron job that syncs these together). I wouldn't mind still completing that if people are interested in such a tool. Since I have just an ipod touch, I've been reluctant to build it since I don't have access 100% of the time to the app. -David On Thu, Jan 22, 2009 at 2:06 AM, Carsten Dominik domi...@science.uva.nl wrote: Hi Christopher, I am extremely interested in what you write here about using HTML to look at the agenda, sending automatic emails for completed tasks, and even the IMAP store idea. So please get back to it when you find time and keep us posted. I could tweak the HTML exporter where necessary to make a good mobile access idea for Org-mode stuff a reality. - Carsten On Dec 22, 2008, at 11:10 PM, Christopher DeMarco wrote: As a more-useful alternative to my ha-ha-only-serious email response, look at the export-to-HTML functions. I haven't gotten here yet with org-mode, but I understand they're pretty powerful -- and HTML is perfect for the iPhone. A robust HTML interface to your org-mode would be much more useful than a native iPhone app, IMHO, and without the landmines of interfacing with iCal et.al. My previous organization system (Python-based) had a simple CGI interface to parse my sources into HTML with CSS for the iPhone; it worked surprisingly well, including hyperlinks that sent me email noting that I'd checked off an item -- I didn't trust myself to actually change state from the iPhone, but sent a check off the item manually reminder. Once I've got my Emacs-native org-mode where I want it, I plan on tackling the iPhone display and sharing my code with the list. It should be pretty easy to write a mod_python handler to pull org-mode source from Git or Subversion and run that through the elisp interpreter... But seriously, you could totally expose your agenda view as an IMAP store... -- Christopher DeMarco dema...@maya.com IT Director MAYA Group +1-412-708-9660 ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
[Orgmode] Problem with org-batch-agenda
I am trying to export information from my org files and am getting an error every time I run the batch file (Windows XP) I am starting with a stripped down .emacs file which just sets up my load path then does the following: ; ;; ORG MODE (require 'org-install) (add-to-list 'auto-mode-alist '(\\.org$ . org-mode)) (setq org-log-done 'time) (setq org-agenda-include-diary t) (setq org-directory ~/org/) (setq org-agenda-custom-commands '((S Schedule for the week plus TODO's ((agenda ) (todo TODO) My batch file looks like this: c:\emacs-22.3\bin\emacs.exe -batch -l ~/_emacs_org -eval '(org-batch-agenda S)' When I run this from the command line I get: Loading c:/Home/emacs-22/precompile.el (source)... Loading c:/Home/emacs-22/all_org.el (source)... Loading c:/Home/emacs-22/melston-note-paths.el (source)... Done loading ~/emacs/all_org Loading c:/Home/emacs-22/custom.el (source)... Loading gnus... Done loading init file End of file during parsing I saw this mentioned in the list at gmane but never saw any resolution for it. Any ideas? Mark ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] graphing from org-tables
Dan Davison davi...@stats.ox.ac.uk writes: On Mon, Dec 22, 2008 at 12:00:14PM -0500, Eric Schulte wrote: Hi Dan, ... 2) Also interesting is the idea of referencing a table from a block of R code elsewhere in the org file. I've worked some on processing blocks of R code in org files in a manner similar to Sweave. http://github.com/eschulte/org-contrib/tree/master/org-exp-blocks.el If we could implement a simple means of referencing tables (either whole tables, or cells/cols/rows of tables) from these R-code blocks then that seems like it may be fairly powerful. I agree with this. So in the case of my code, I think we would like to be able to do something like #+TBLR: data:org-table-reference columns:(1 2) action:tabulate This would make the output of the analysis/plot of the table pointed to by org-table-reference appear at the location in the file of the #+TBLR line. Perhaps one design aim would be to have the same mechanism work for referencing tables for processing by #TBLFM, org-plot, org-table-R, org-exp-blocks, etc. That sounds like a very good idea. A uniform interface for referencing table ranges (either globally from outside of the table or locally from within the table) that could be used for any table formula be it in calc, R, elisp, etc... I find the idea of easily accessing and writing table data from external tools very intriguing What ideas to people have about implementation (and syntax) for this sort of table referencing? As for syntax, I believe the syntax currently in use by TBLFM should be sufficient for addressing ranges inside of a table. The only need is the ability to reference a table globally. Maybe it would make sense to allow the naming of a table, say something like a line of the following format either above or below the table. #+TBLNAME: my-table-name Then portions of the table could be references from inside the same file using a syntax like my-table-name:$...@2 or from outside of the file using a syntax like path/to/file.org:my-table-name:$...@2 or something similar. I don't know how difficult this would be to implement. I also don't know how similar the existing calc table interface is to this new R table interface. So basically it's not clear to me how difficult this would be to implement. When I have briefly looked into the mechanics of the current org spreadsheet functionality, I remember being intimidated. Although I don't really use R, I find this discussion very interesting. The spreadsheet functions are one of my favorite features of org. Thanks -- Eric ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
Re: [Orgmode] graphing from org-tables
On Jan 23, 2009, at 2:37 AM, Eric Schulte wrote: Dan Davison davi...@stats.ox.ac.uk writes: On Mon, Dec 22, 2008 at 12:00:14PM -0500, Eric Schulte wrote: Hi Dan, ... 2) Also interesting is the idea of referencing a table from a block of R code elsewhere in the org file. I've worked some on processing blocks of R code in org files in a manner similar to Sweave. http://github.com/eschulte/org-contrib/tree/master/org-exp-blocks.el If we could implement a simple means of referencing tables (either whole tables, or cells/cols/rows of tables) from these R-code blocks then that seems like it may be fairly powerful. I agree with this. So in the case of my code, I think we would like to be able to do something like #+TBLR: data:org-table-reference columns:(1 2) action:tabulate This would make the output of the analysis/plot of the table pointed to by org-table-reference appear at the location in the file of the #+TBLR line. Perhaps one design aim would be to have the same mechanism work for referencing tables for processing by #TBLFM, org-plot, org-table-R, org-exp-blocks, etc. That sounds like a very good idea. A uniform interface for referencing table ranges (either globally from outside of the table or locally from within the table) that could be used for any table formula be it in calc, R, elisp, etc... I find the idea of easily accessing and writing table data from external tools very intriguing For what it is worth, here is a function that will grab a field value or a range from a remote table, be it in the current file or in a different file. That is not yet a syntax to have such a reference in a formula, but it is the most important component, and maybe it will already be useful for you. This function uses an entry ID to access the table - obviously other schemes like table naming could be used. It is not going to be very fast, and multiple accesses to the same remote table would each cause the same overhead, but it sure is working. - Carsten (defun org-table-remote-range (id form optional replace keep-empty numbers lispp) Get a field value or a list of values in a range from table at ID. ID refers to an entry, and the first table in that entry is the one being looked at. FORM is a field or range descriptor like \@2$3\ or \@i$...@ii$2\. All the references must be absolute, not relative. When REPLACE is non-nil, the return value will be a string in which the field descriptor has been replaced, according to the flags KEEP-EMPTY, NUMBERS, and LISPP. These flags correspond to the E and N flags, and to the fact if the formula is a lisp formula, not a calc formula. When REPLACE is nil, a single string or a list of strings is returned, with with the content(s) of the referenced field(s). (save-match-data (let ((id-loc (org-id-find id 'marker)) org-table-column-names org-table-column-name-regexp org-table-local-parameters org-table-named-field-locations org-table-current-line-types org-table-current-begin-line org-table-current-begin-pos org-table-dlines org-table-hlines org-table-last-alignment org-table-last-column-widths org-table-last-alignment org-table-last-column-widths tbeg rtn) (save-excursion (switch-to-buffer (marker-buffer id-loc)) (save-excursion (save-restriction (widen) (goto-char id-loc) (forward-char 1) (unless (and (re-search-forward ^\\(\\*+ \\)\\|[ \t]*| nil t) (not (match-beginning 1))) (error Cannot find a table at ID %s id)) (setq tbeg (point-at-bol)) (org-table-get-specials) (when (and (string-match org-table-range-regexp form) ( (length (match-string 0 form)) 1)) (save-match-data (setq rtn (org-table-get-range (match-string 0 form) tbeg 1 (if replace (replace-match (save-match-data (org-table-make-reference rtn keep-empty numbers lispp)) t t form) rtn))) ___ Emacs-orgmode mailing list Remember: use `Reply All' to send replies to the list. Emacs-orgmode@gnu.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode
