a61de7b130
babel: matlab: don't try matlab-shell if using emacs link
2010-04-30 18:23:36 -04:00
a3cc050a96
babel: `org-babel-get-colnames' no longer requires hline
2010-04-30 13:03:46 -06:00
6f399c20b6
babel: Allow EmacsLink to be used for matlab session evaluation
...
To use EmacsLink, the user will need to set
org-babel-matlab-with-emacs-link to a non-nil value, and also arrange
that (matlab-with-emacs-link) evaluates to a non-nil value.
2010-04-30 14:39:31 -04:00
10a07a644b
babel: R: allow forcing of colnames without hline
2010-04-30 14:14:27 -04:00
7f3e64bfb4
babel: R: output colnames when other languages would
2010-04-30 14:14:13 -04:00
6a1f5b2bcb
babel: ob-emacs-lisp now wraps body in a progn on execute
2010-04-27 13:55:48 -06:00
837e898936
babel: Fall back to generic expand function during tangling
2010-04-27 15:02:55 -04:00
44bb82d38e
babel: `org-babel-ref-resolve-reference' doesn't break paren nesting when resolving indicies
2010-04-24 13:26:34 -06:00
b8adc74894
babel: ob-emacs-lisp and ob-clojure now only wrap bodies in `let' forms when variables are present
2010-04-24 09:21:14 -06:00
bc0a6c624d
babel: adding :no-expand option to code blocks to inhibit body expansion
2010-04-24 09:08:27 -06:00
c12e18b6cf
babel: org-babel-reassemble-table checks for matching table/name dimensions
2010-04-23 11:54:31 -06:00
b8c4bb27ba
babel: Use org-src edit buffer for expanded body preview
2010-04-23 10:10:01 -06:00
2f71d79e5e
org-babel-c: now using org-babel-read on outline-property parameters
2010-04-23 10:10:00 -06:00
9124e9055d
fixed bug in org-babel-execute:C
2010-04-23 10:10:00 -06:00
59251c8d08
babel: fixed bug in org-babel-execute:gnuplot related to body-expand changes
2010-04-23 10:10:00 -06:00
d0dde7c6d5
babel: flip default values of :hlines header arg
2010-04-23 10:10:00 -06:00
9fdd058669
org-babel-expand-body:R
2010-04-23 10:10:00 -06:00
32c7ae42c3
babel: remove superfluous newlines from tangled C code bodies
2010-04-23 10:10:00 -06:00
03f13106fb
babel: adding org-babel-expand-body:generic for languages w/o body expansion support
2010-04-23 10:10:00 -06:00
626cb079e4
babel: fixed bug in org-babel-expand-body:sass
2010-04-23 10:10:00 -06:00
7decdec3b2
babel: erase previous contents of preview buffer
2010-04-23 10:10:00 -06:00
8872454566
org-babel-expand-body:R
2010-04-23 10:10:00 -06:00
0917218da5
babel: fixed bug in org-babel-expand-body:python
2010-04-23 10:10:00 -06:00
9ff31a5110
babel: bound `org-babel-expand-src-block' to (C-c M-b p)
2010-04-23 10:09:59 -06:00
0734bf96ba
org-babel-expand-body:sql
2010-04-23 10:09:59 -06:00
1fdc012e3d
org-babel-expand-body:sh
2010-04-23 10:09:59 -06:00
e6c979f0d7
org-babel-expand-body:screen
2010-04-23 10:09:59 -06:00
35434e1389
org-babel-expand-body:sass
2010-04-23 10:09:59 -06:00
394031eb38
org-babel-expand-body:ruby
2010-04-23 10:09:59 -06:00
1bcafa5d9f
org-babel-expand-body:python
2010-04-23 10:09:59 -06:00
598dc1ad67
org-babel-expand-body:perl
2010-04-23 10:09:59 -06:00
41663b0ce4
org-babel-expand-body:oz
2010-04-23 10:09:59 -06:00
2759b6621d
org-babel-expand-body:octave
2010-04-23 10:09:59 -06:00
8e9f4eec88
org-babel-expand-body:ocaml
2010-04-23 10:09:58 -06:00
e07aced178
org-babel-expand-body:matlab
2010-04-23 10:09:58 -06:00
7bd0712ac2
org-babel-expand-body:latex
2010-04-23 10:09:58 -06:00
dd500005ef
org-babel-expand-body:haskell
2010-04-23 10:09:58 -06:00
58c8ddd5c6
org-babel-expand-body:gnuplot
2010-04-23 10:09:58 -06:00
01918dffc4
org-babel-expand-body:dot
2010-04-23 10:09:58 -06:00
4d862912b2
org-babel-expand-body:ditaa
2010-04-23 10:09:58 -06:00
b805089eb8
org-babel-expand-body:css
2010-04-23 10:09:58 -06:00
6d61edd1ea
org-babel-expand-body:clojure
2010-04-23 10:09:58 -06:00
4ba08f9b5b
org-babel-expand-body:asymptote
2010-04-23 10:09:58 -06:00
34eed9b48d
org-babel-expand-body:c, org-babel-expand-body:c++
2010-04-23 10:09:58 -06:00
8c8c96972e
org-babel-expand-body:emacs-lisp
2010-04-23 10:09:58 -06:00
2fe12b99f4
babel: adding new function `org-babel-expand-src-block'
...
org-babel-expand-body:lang function needs to be implemented by every
language, and is used to expand the body of a code block for
execution or tangling
2010-04-23 10:09:57 -06:00
788779e16c
babel: typo in org-babel-get-rownames
2010-04-23 10:09:57 -06:00
c777e729fb
babel: bring R row- and col-names into line with others
2010-04-23 10:09:57 -06:00
bd3c85ed60
babel: add :rownames header arg for R
2010-04-23 10:09:57 -06:00
d5dd160b23
babel: bug fix in org-babel-get-colnames
2010-04-23 10:09:57 -06:00
b9aa92ba21
org-babel: splitting `org-babel-pick-name' into it's own function
...
also renaming org-babel-manicure-tables to org-babel-disassemble-tables
2010-04-23 10:09:57 -06:00
bfc93ca808
babel: added row/col-name support to all applicable languages
2010-04-23 10:09:57 -06:00
10b3da72fc
babel: adding row/col-names functions
...
adding a suite of functions to org-babel.el which can be used to
handle hlines, rownames, and columnnames in input tables. These
functions can be called from any org-babel-language.el file.
done in close collaboration with Dan Davison
2010-04-23 10:09:57 -06:00
0c8b86e9a9
org-babel: keep within 80 columns
...
this is exclusively whitespace and indentation changes, with the
goal of cleaning up the file, and keep all lines within 80 columns
2010-04-23 10:09:57 -06:00
927ff1125b
babel: `org-babel-ref-index-list' now converts trivial lists to scalars
...
Thanks to Darlan Cavalcante Moreira for this suggestion.
2010-04-21 09:35:13 -06:00
c6ea2a1457
Use overlay-in and overlay-at instead of compatibility functions
2010-04-20 12:17:06 +02:00
97e20048b2
Use `add-to-invisibility-spec' directly
2010-04-18 19:41:05 +02:00
b35b9914e6
Revert "Use `add-to-invisibility-spec' directly"
...
This reverts commit c2e5b13a2d
2010-04-18 19:38:10 +02:00
c2e5b13a2d
Use `add-to-invisibility-spec' directly
2010-04-18 19:26:30 +02:00
f45e6a28b1
Use the normal overlay API, not Org's one
2010-04-18 16:49:58 +02:00
70ba21e699
babel: new function `org-babel-tangle-publish' allows for tangling during project publish
2010-04-11 23:58:44 -06:00
7cbb35920d
org-babel-c: new header argument ":main no" allows inhibiting main wrap
2010-04-10 15:54:40 -06:00
99a07f1d4a
org-babel-c: cleaning up header arguments
2010-04-10 15:43:31 -06:00
0e8c9f7a49
org-babel: no longer over evaluating header arguments
2010-04-10 15:43:19 -06:00
3386a702f8
org-babel: all languages now returning lists as pure emacs-lisp, not quoted emacs-lisp
2010-04-10 15:15:06 -06:00
59d499ff51
babel: Allow table to end neatly with terminal hline
...
Prior to this, a terminal hline would leave dangling empty cells:
#+TBLNAME: A
|---+---+---|
| a | b | c |
|---+---+---|
#+begin_src emacs-lisp :var tab=A
tab
#+end_src
#+results:
|---+---+---|
| a | b | c |
|---+---+---|
| | | |
2010-04-10 16:49:40 -04:00
8c827ba5ba
babel: Allow output tables to start with 'hline
2010-04-10 16:12:28 -04:00
98b4ae28a9
babel: allow lisp quoted expansion of variable values when starting with `
2010-04-09 19:06:07 -06:00
f846663ce6
babel: Do not add indentation to perl code.
...
Thanks to Łukasz Stelmach.
2010-04-09 08:45:18 -04:00
0f83b2d203
babel: allow disabling of noweb expansion during tangling
2010-04-08 16:14:28 -04:00
38d6bf3f6c
babel: allow assigning of variables when preparing R session
...
This is already in place for other languages, but seems to have been
forgotten for R.
2010-04-08 15:26:08 -04:00
caaf755192
babel: org-babel-latex adjusts to the new org latex setup
2010-04-07 22:43:37 -06:00
e48b8bf577
babel: return string results from matlab as strings
...
Thanks to Bob Jansen
2010-04-07 18:44:58 -04:00
f03c981fc0
babel: return string results from octave as strings
...
Thanks to Darlan Cavalcante
2010-04-07 15:51:04 -04:00
8d405783cb
babel: safer modification of `call-process-region'
2010-04-04 17:15:12 -06:00
8ef104195f
babel: use wildcard "*" characters in `org-babel-ref-index-list' to index entire ranges
2010-04-02 08:46:13 -06:00
40a8933ba6
babel: allow R to produce svg format output
2010-04-01 18:45:59 -04:00
3637efe647
babel: Don't use language major-mode when expanding noweb references
...
There is no longer any need for the language major mode.
2010-03-30 10:20:18 -04:00
e32c066874
babel: check that language major-mode is available during tangling
2010-03-30 10:20:10 -04:00
2675848d37
babel: org-babel-c now responds to :cmdline header argument
2010-03-29 12:26:53 -06:00
e8a125bed7
babel: now taking headline properties into account for lob calls
2010-03-28 16:53:00 -06:00
a23ca4529f
babel: Get rid of parameter inheritance by reference blocks
2010-03-27 18:49:00 -04:00
36351d26a9
Merge branch 'master' of git://repo.or.cz/org-mode
2010-03-27 16:18:27 -04:00
47571965d4
babel: don't process emacs-lisp params twice
2010-03-27 15:59:53 -04:00
8ecc86d49e
babel: better variable initialization for org-babel-c
2010-03-27 08:20:38 -06:00
fc28dd538b
babel: shorter language names no longer shadow larger names
...
Previously "R" could overshadow "Ruby", and "C" could overshadow
"Clojure", causing blocks of the longer language name to fail to
load. This issue has now been fixed
2010-03-26 20:54:16 -06:00
22e4cd9b6d
babel: org-babel-c more robust, better error messages and c++ support
2010-03-26 19:35:31 -06:00
b61019489c
babel: org-babel-C now displays compilation error messages
2010-03-26 17:12:43 -06:00
e3fbc98b26
babel: removed errant reference to R from org-babel.el
2010-03-26 16:28:25 -06:00
17790c7dad
babel: limited initial support for C and similar languages
2010-03-26 16:28:23 -06:00
f400632f94
babel: when passing values from a table an extra '$' prefix forces literal
...
thanks to Maurizio Vitale for the suggestion. This allows literal
values to be passed to code blocks through `sbe' without forcing the
use of quotes inside the table.
2010-03-25 11:09:38 -06:00
727aa263cb
babel: src block regexps are more robust to embedded "[begin|end]_src" in block body
2010-03-22 15:19:33 -06:00
32bbd3f3bb
babel: variable references which look like lisp forms are now evaluated
...
for example, the following simple example
#+begin_src emacs-lisp :var two=(+ 1 1)
(sqrt two)
#+end_src
#+results:
: 1.4142135623730951
Or this more interesting usage, which pulls variable values from
headline properties
*** example headline w/property
:PROPERTIES:
:special: 89
:last-name: schulte
:END:
#+begin_src emacs-lisp :var special=(string-to-number (org-entry-get nil "special" t))
(+ special 1)
#+end_src
#+results:
: 90
#+begin_src emacs-lisp :var last-name=(org-entry-get nil "last-name" t))
(message "hello %s" last-name)
#+end_src
#+results:
: hello schulte
2010-03-22 15:19:32 -06:00
abf0a50d1b
babel: Ensure that inline code blocks produce string output on export
2010-03-19 10:08:16 -04:00
adb2f3f590
babel: Add octave and matlab support
2010-03-18 14:45:39 -04:00
aa0e4b86ce
babel: Fix org-babel-load-file
...
This was broken by 29a2ab0047
2010-03-18 14:30:54 -04:00
73d8e57685
babel: Allow tramp syntax when supplying :tangle filename
...
Patch by Rémi Vanicat.
2010-03-17 21:03:21 -04:00
29a2ab0047
babel: when tangling do not add extension if filename supplied
2010-03-17 20:09:06 -04:00
6976d9fc79
babel: org-babel-switch-to-session [C-c M-b z]
...
org-babel-pop-to-session is an alias of this
2010-03-16 12:57:28 -04:00
485781ed40
babel: set default-directory in org-babel-pop-to-session
2010-03-13 14:02:47 -05:00
f4ae431706
babel: Make code block params available when initiating session
2010-03-13 14:02:31 -05:00
215d11c092
babel: New hook org-babel-after-execute-hook
...
Runs at the end of org-babel-execute-src-block
2010-03-13 14:02:22 -05:00
ba4d698fa1
babel: Provide notification of errors during code execution
...
This deals with external process :results value mode for R, ruby,
python, perl and clojure: if the shell process has a non-zero exit
code, a buffer containing stderr is displayed.
2010-03-05 11:32:18 +00:00
4e9a2d4efd
babel: Fix bug in shell-command-on-region
...
Prior to this commit,
OUTPUT-BUFFER nil
REPLACE 'replace
ERROR-BUFFER 'current-buffer
resulted in stdout going with stderr to the current buffer, contra the
docstring. With this change stdout is discarded in this case. The
docstring does stipulate that stdout always should go to *Shell
Command Output*; this change does not make that happen in this case.
2010-03-05 11:32:11 +00:00
05986e95ea
babel: Introduce org-babel copy of shell-command-on-region
...
At this commit, org-babel-shell-command-on-region is a direct copy of
shell-command-on-region. In addition to switching to use the org-babel
version, we change the argument passed so that they agree with the
docstring of s-c-o-r.
Despite the change in arguments, the same behaviour results because
s-c-o-r does not behave as documented in emacs23. Future commits will
be able to fix these bugs in the org-babel version, as necessary.
2010-03-05 11:32:04 +00:00
ed7b8bfcca
babel: clojure: read results remotely when necessary
2010-03-03 22:00:08 +00:00
54c7b04734
babel: clojure: use shell-command-on-region
2010-03-03 21:59:32 +00:00
a8c1a49b77
babel: Read perl results remotely when necessary.
2010-03-03 16:11:04 +00:00
9c36b20a25
babel: make output file links track changed directory
2010-03-02 14:51:01 +00:00
486bc2fe64
babel: Use file-name-as-directory to form default-directory
2010-03-02 14:51:01 +00:00
f0f511916a
babel: org-babel-oz.el now uses unix-style newline characters
2010-03-01 08:31:05 -07:00
44c8487e2d
babel: fix bug with remote working directory
...
This change fixes a bug in the remote execution branch, involving the
way that org-babel-tramp-handle-call-process-region is used
to (conditionally) handle calls to call-process-region. When
org-babel-execute-src-block called itself recursively (e.g. when
resolving a reference to another src block), a circular binding of
symbols and values resulted.
2010-02-27 18:19:18 -05:00
322fe431c5
babel: Write R input data remotely when necessary.
2010-02-27 18:19:09 -05:00
a705bf5925
babel: wrapped `org-babel-make-remote-file-name' in conditional as `org-babel-maybe-remote-file'
2010-02-27 18:18:37 -05:00
24cdeea122
babel: read remote results from remote files
...
When using ':results value' in certain situations, results are written
to file by the foreign language process and subsequently read from
file by emacs into an elisp table structure. If the foreign language
process is running remotely, then the results are written
remotely. These changes ensure that in that case, an appropriate
remote file name is constructed to read the remote data.
2010-02-27 14:14:08 -05:00
2056d7d419
babel: Allow shell-command-on-region to execute remotely
...
These changes solve two problems: both are discussed in the following thread
http://lists.gnu.org/archive/html/tramp-devel/2010-02/msg00025.html
of which a summary follows.
Firstly, shell-command-on-region does not work with tramp in the same
way that shell-command does. I.e. whereas
(let ((default-directory "/user@remote-host:"))
(shell-command "hostname" t))
gives the remote hostname,
(let ((default-directory "/user@remote-host:"))
(shell-command-on-region (point) (mark) "hostname" t))
does not.
The reason is that shell-command-on-region calls call-process-region,
which does not use a tramp handler for remote files. However, such a
file handler does exist (unused) in the tramp sources:
tramp-handle-call-process-region. There is a slight problem in that
there is a bug in that function definition in current tramp (which has
persisted because the function is not normally used).
Therefore, we define an org-babel version of
tramp-handle-call-process-region which fixes the bug, and we bind
call-process-region to org-babel-tramp-handle-call-process-region for
the duration of org-babel-execute-src-block.
2010-02-27 14:14:08 -05:00
b3d5a1eb39
babel: working directories and remote execution
...
This introduces a new header argument :dir. For the duration of source
block execution, default-directory is set to the value of this header
argument. Consequences include:
- external interpreter processes run in that directory
- new session processes run in that directory (but existing ones are unaffected)
- relative paths for file output are relative to that directory
The name of a directory on a remote machine may be specified with
tramp syntax (/user@host:path), in which case the interpreter
executable will be sought in tramp-remote-path, and if found will
execute on the remote machine in the specified remote directory.
2010-02-27 14:14:08 -05:00
5f8a57ad48
babel: change implementation of external R process evaluation
...
Use shell-command-on-region, bringing R into line with ruby, python,
clojure, shell. In addition to consistency (and perhaps efficiency),
this will also be preferable in the case of a remote R process because
it means that transfer of the input to the remote process is dealt
with automatically by tramp.
2010-02-27 14:14:08 -05:00
522f30bc9f
babel: tiny doc tweak
2010-02-27 14:14:07 -05:00
cc7052540b
babel: allow point to move to end of comint buffer
2010-02-27 14:14:07 -05:00
283ebcb43b
babel: New const variable org-babel-header-arg-names
...
This is used when checking for babel header args in org properties.
2010-02-27 14:14:07 -05:00
82d7585810
babel: Tighten result and source line regexps
...
Anchored to beginning of line, with optional whitespace indenting.
2010-02-25 17:58:46 -05:00
5833fbd358
babel: Make colnames header arg expect use "yes" for true.
2010-02-25 17:58:46 -05:00
4064c31fa7
babel: get rid of unused variable
2010-02-25 17:58:46 -05:00
fc693eb5e2
babel: treat python tuples as lists
2010-02-25 17:58:45 -05:00
a95c05773e
babel: Fix unquoting of strings
...
Before this change we have
#+begin_src ruby :results value :session
["1", "3"]
#+end_src
#+results:
: 1", "3
After, we have
#+begin_src ruby :results value :session
["1", "3"]
#+end_src
#+results:
| 1 | 3 |
2010-02-25 17:58:45 -05:00
6f62066ac6
babel: Fix export bug.
...
Introduced at 747f425f00
2010-02-25 15:12:47 -05:00
8625e5c0bc
babel: gnuplot can now return it's string output -- when session is set to "none"
2010-02-23 08:16:25 -07:00
a2d94ffc8e
babel: prevent quoting of strings in shell variables
2010-02-23 07:31:43 -07:00
753d1402d8
babel: avoid infinite loop in org-babel-execute-buffer -- Thanks to Stephan Schmitt
2010-02-16 13:34:09 -07:00
574f1b590e
babel: adding support for the OZ programming language -- Thanks to Torsten Anders!
...
For information on the OZ programming language see
http://www.mozart-oz.org/ , for information on using Org-babel with
OZ see the OZ specific documentation on Worg at
http://orgmode.org/worg/org-contrib/babel/languages/org-babel-doc-oz.php
2010-02-16 13:28:08 -07:00
1e96482389
babel: check pdf file existence before deleting
2010-02-15 10:29:56 -07:00
747f425f00
babel: only add srcname property for source blocks which actually have names
2010-02-15 10:07:23 -07:00
692c569215
babel: smarter `org-babel-ref-split-args' -- fixes bug parsing indexed function-style args
2010-02-14 11:48:28 -07:00
25f76ffa44
babel: now including source code block arguments w/source name on export
...
This change provides for better export of named source-code blocks,
with specific support for more attractive html export. The arguments
are included with the source code name, and both the source code name
and code body are wrapped in a div to support styling with css. For
example the following CSS can be used to associate a source-code block
name with it's code body, and to slightly indent the body.
.org-src-container {
border-left: 4px solid gray;
padding: 0.5em 0.5em 0.5em 1em; }
.org-src-container pre {
margin-left: 1em; }
2010-02-10 13:34:00 -07:00
2531d704c0
babel: now able to reference links as results
2010-02-09 20:30:28 -07:00
db1fe2a619
babel: greatly simplified block exportation
2010-02-09 19:09:19 -07:00
df418de954
babel-clojure: slight change allowing strings to be passed in as variables
2010-02-08 13:17:37 -07:00
2829f77e2b
babel: org-babel-load-file no longer fails when `file-truename' returns nil
2010-02-08 13:17:06 -07:00
b59ebe6ec2
babel: org-babel-load-file will no longer strip portions of file names which appear to be extensions
2010-02-07 11:42:55 -07:00
a60a83fbb6
babel: better handling of table in shell scripts
2010-02-07 10:17:20 -07:00
047ac8ab1b
babel: shell command used by org-babel-sh is now configurable using the org-babel-sh-command variable
2010-02-07 09:36:56 -07:00
e4bc599745
org-babel-latex: allow pdf/png generation directly from latex source blocks
2010-02-06 09:54:10 -07:00
3ce4962447
babel: added :shebang and :comments header arguments for finer control over tangled output
2010-02-05 19:04:50 -07:00
131441dbd2
babel: load-file works for symlinks -- Thanks to Martin Kühl
2010-02-04 09:43:11 -07:00
21849af58b
babel: can now tangle files without extensions
2010-01-28 09:58:52 -07:00
b59a57e890
babel: bug fix related to "no longer overwriting non-babel src blocks" commit
...
this fixes a bug introduced in commit
d154f27947
2010-01-25 23:54:03 -07:00
d154f27947
babel: no longer overwriting non-babel src blocks org-exp-blocks: adding progress-marker local variable
...
the progress-marker local variable set inside of a let in
org-exp-blocks is used to constrain searches in org-babel-exp to
ensure that a babel block doesn't overwrite non-babel src blocks
2010-01-18 13:36:27 -07:00
aa72dfc54f
babel: implement org-babel-load-session:* for R, clojure, gnuplot, python, ruby and sh
2010-01-11 10:14:30 -07:00
1e8107faf7
babel: improve doc strings for org-babel-execute-buffer and org-babel-execute-subtree
2010-01-11 08:47:29 -07:00
Dan Davison
Eric Schulte
Julien Barnier
Carsten Dominik