367 lines
15 KiB
EmacsLisp
367 lines
15 KiB
EmacsLisp
;;; org-babel.el --- facilitating communication between programming languages and people
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;; Copyright (C) 2009 Eric Schulte, Dan Davison, Austin F. Frank
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;; Author: Eric Schulte, Dan Davison, Austin F. Frank
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;; Keywords: literate programming, reproducible research
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;; Homepage: http://orgmode.org
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;; Version: 0.01
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;;; License:
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;; This program is free software; you can redistribute it and/or modify
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;; it under the terms of the GNU General Public License as published by
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;; the Free Software Foundation; either version 3, or (at your option)
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;; any later version.
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;;
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;; This program is distributed in the hope that it will be useful,
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;; but WITHOUT ANY WARRANTY; without even the implied warranty of
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;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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;; GNU General Public License for more details.
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;;
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;; You should have received a copy of the GNU General Public License
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;; along with GNU Emacs; see the file COPYING. If not, write to the
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;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
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;; Boston, MA 02110-1301, USA.
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;;; Commentary:
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;; See rorg.org in the parent directory for more information
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;;; Code:
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(require 'org)
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(defun org-babel-execute-src-block-maybe ()
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"Detect if this is context for a org-babel src-block and if so
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then run `org-babel-execute-src-block'."
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(interactive)
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(let ((info (org-babel-get-src-block-info)))
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(if info (progn (org-babel-execute-src-block current-prefix-arg info) t) nil)))
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(add-hook 'org-ctrl-c-ctrl-c-hook 'org-babel-execute-src-block-maybe)
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(defvar org-babel-default-header-args '()
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"Default arguments to use when evaluating a source block.")
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(defvar org-babel-default-inline-header-args '((:results . "silent") (:exports . "results"))
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"Default arguments to use when evaluating an inline source block.")
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(defvar org-babel-src-block-regexp nil
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"Regexp used to test when inside of a org-babel src-block")
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(defvar org-babel-inline-src-block-regexp nil
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"Regexp used to test when on an inline org-babel src-block")
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(defun org-babel-set-interpreters (var value)
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(set-default var value)
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(setq org-babel-src-block-regexp
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(concat "#\\+begin_src \\("
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(mapconcat 'regexp-quote value "\\|")
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"\\)[ \t]*"
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"\\([ \t]+\\([^\n]+\\)\\)?\n" ;; match header arguments
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"\\([^\000]+?\\)#\\+end_src"))
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(setq org-babel-inline-src-block-regexp
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(concat "src_\\("
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(mapconcat 'regexp-quote value "\\|")
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"\\)"
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"\\(\\|\\[\\(.*\\)\\]\\)"
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"{\\([^\n]+\\)}")))
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(defun org-babel-add-interpreter (interpreter)
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"Add INTERPRETER to `org-babel-interpreters' and update
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`org-babel-src-block-regexp' appropriately."
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(unless (member interpreter org-babel-interpreters)
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(setq org-babel-interpreters (cons interpreter org-babel-interpreters))
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(org-babel-set-interpreters 'org-babel-interpreters org-babel-interpreters)))
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(defcustom org-babel-interpreters '()
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"Interpreters allows for evaluation tags.
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This is a list of program names (as strings) that can evaluate code and
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insert the output into an Org-mode buffer. Valid choices are
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R Evaluate R code
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emacs-lisp Evaluate Emacs Lisp code and display the result
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sh Pass command to the shell and display the result
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perl The perl interpreter
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python The python interpreter
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ruby The ruby interpreter
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The source block regexp `org-babel-src-block-regexp' is updated
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when a new interpreter is added to this list through the
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customize interface. To add interpreters to this variable from
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lisp code use the `org-babel-add-interpreter' function."
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:group 'org-babel
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:set 'org-babel-set-interpreters
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:type '(set :greedy t
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(const "R")
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(const "emacs-lisp")
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(const "sh")
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(const "perl")
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(const "python")
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(const "ruby")))
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;;; functions
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(defun org-babel-execute-src-block (&optional arg info params)
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"Execute the current source code block, and dump the results
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into the buffer immediately following the block. Results are
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commented by `org-toggle-fixed-width-section'. With optional
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prefix don't dump results into buffer but rather return the
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results in raw elisp (this is useful for automated execution of a
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source block).
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Optionally supply a value for INFO in the form returned by
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`org-babel-get-src-block-info'.
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Optionally supply a value for PARAMS which will be merged with
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the header arguments specified at the source code block."
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(interactive)
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(let* ((info (or info (org-babel-get-src-block-info)))
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(lang (first info))
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(body (second info))
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(params (org-combine-plists (third info) params))
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(cmd (intern (concat "org-babel-execute:" lang)))
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result)
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;; (message (format "params=%S" params)) ;; debugging statement
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(unless (member lang org-babel-interpreters)
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(error "Language is not in `org-babel-interpreters': %s" lang))
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(setq result (funcall cmd body params))
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;; possibly force result into a vector
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(if (and (not (listp result)) (cdr (assoc :results params))
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(member "vector" (split-string (cdr (assoc :results params)))))
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(setq result (list result)))
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(if arg
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(message (format "%S" result))
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(org-babel-insert-result result (cdr (assoc :results params))))
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result))
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(defun org-babel-eval-buffer (&optional arg)
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"Replace EVAL snippets in the entire buffer."
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(interactive "P")
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(save-excursion
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(goto-char (point-min))
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(while (re-search-forward org-babel-regexp nil t)
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(org-babel-eval-src-block arg))))
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(defun org-babel-eval-subtree (&optional arg)
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"Replace EVAL snippets in the entire subtree."
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(interactive "P")
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(save-excursion
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(org-narrow-to-subtree)
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(org-babel-eval-buffer)
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(widen)))
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(defun org-babel-get-src-block-name ()
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"Return the name of the current source block if one exists"
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(let ((case-fold-search t))
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(save-excursion
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(goto-char (org-babel-where-is-src-block-head))
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(if (save-excursion (forward-line -1)
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(looking-at "#\\+srcname:[ \f\t\n\r\v]*\\([^ \f\t\n\r\v]+\\)"))
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(org-babel-clean-text-properties (match-string 1))))))
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(defun org-babel-get-src-block-info ()
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"Return the information of the current source block as a list
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of the following form. (language body header-arguments-alist)"
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(let ((case-fold-search t) head)
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(if (setq head (org-babel-where-is-src-block-head))
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(save-excursion (goto-char head) (org-babel-parse-src-block-match))
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(if (save-excursion ;; inline source block
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(re-search-backward "[ \f\t\n\r\v]" nil t)
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(forward-char 1)
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(looking-at org-babel-inline-src-block-regexp))
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(org-babel-parse-inline-src-block-match)
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nil)))) ;; indicate that no source block was found
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(defun org-babel-parse-src-block-match ()
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(list (org-babel-clean-text-properties (match-string 1))
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(org-babel-clean-text-properties (match-string 4))
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(org-combine-plists org-babel-default-header-args
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(org-babel-parse-header-arguments (org-babel-clean-text-properties (or (match-string 3) ""))))))
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(defun org-babel-parse-inline-src-block-match ()
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(list (org-babel-clean-text-properties (match-string 1))
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(org-babel-clean-text-properties (match-string 4))
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(org-combine-plists org-babel-default-inline-header-args
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(org-babel-parse-header-arguments (org-babel-clean-text-properties (or (match-string 3) ""))))))
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(defun org-babel-parse-header-arguments (arg-string)
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"Parse a string of header arguments returning an alist."
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(delq nil
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(mapcar
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(lambda (arg) (if (string-match "\\([^ \f\t\n\r\v]+\\)[ \f\t\n\r\v]*\\([^ \f\t\n\r\v]+.*\\)" arg)
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(cons (intern (concat ":" (match-string 1 arg))) (match-string 2 arg))))
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(split-string (concat " " arg-string) "[ \f\t\n\r\v]+:" t))))
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(defun org-babel-where-is-src-block-head ()
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"Return the point at the beginning of the current source
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block. Specifically at the beginning of the #+BEGIN_SRC line.
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If the point is not on a source block then return nil."
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(let ((initial (point)) top bottom)
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(or
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(save-excursion ;; on a #+srcname: line
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(beginning-of-line 1)
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(and (looking-at "#\\+srcname") (forward-line 1)
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(looking-at org-babel-src-block-regexp)
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(point)))
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(save-excursion ;; on a #+begin_src line
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(beginning-of-line 1)
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(and (looking-at org-babel-src-block-regexp)
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(point)))
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(save-excursion ;; inside a src block
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(and
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(re-search-backward "#\\+begin_src" nil t) (setq top (point))
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(re-search-forward "#\\+end_src" nil t) (setq bottom (point))
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(< top initial) (< initial bottom)
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(goto-char top) (looking-at org-babel-src-block-regexp)
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(point))))))
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(defun org-babel-find-named-result (name)
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"Return the location of the result named NAME in the current
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buffer or nil if no such result exists."
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(save-excursion
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(goto-char (point-min))
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(when (re-search-forward (concat "#\\+resname:[ \t]*" (regexp-quote name)) nil t)
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(move-beginning-of-line 1) (point))))
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(defun org-babel-where-is-src-block-result ()
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"Return the point at the beginning of the result of the current
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source block. Specifically at the beginning of the #+RESNAME:
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line. If no result exists for this block then create a
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#+RESNAME: line following the source block."
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(save-excursion
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(goto-char (org-babel-where-is-src-block-head))
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(let ((name (org-babel-get-src-block-name)) end head)
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(or (and name (message name) (org-babel-find-named-result name))
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(and (re-search-forward "#\\+end_src" nil t)
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(progn (move-end-of-line 1)
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(if (eobp) (insert "\n") (forward-char 1))
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(setq end (point))
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(or (progn ;; either an unnamed #+resname: line already exists
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(re-search-forward "[^ \f\t\n\r\v]" nil t)
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(move-beginning-of-line 1) (looking-at "#\\+resname:"))
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(progn ;; or we need to back up and make one ourselves
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(goto-char end) (open-line 2) (forward-char 1)
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(insert (concat "#+resname:" (if name (concat " " name))))
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(move-beginning-of-line 1) t)))
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(point))))))
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(defun org-babel-insert-result (result &optional insert)
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"Insert RESULT into the current buffer after the end of the
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current source block. With optional argument INSERT controls
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insertion of results in the org-mode file. INSERT can take the
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following values...
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t ------ the default options, simply insert the results after the
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source block
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replace - insert results after the source block replacing any
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previously inserted results
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silent -- no results are inserted"
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(if insert (setq insert (split-string insert)))
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(if (stringp result)
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(progn
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(setq result (org-babel-clean-text-properties result))
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(if (member "file" insert) (setq result (org-babel-result-to-file result))))
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(unless (listp result) (setq result (format "%S" result))))
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(if (and insert (member "replace" insert)) (org-babel-remove-result))
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(if (= (length result) 0)
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(message "no result returned by source block")
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(if (and insert (member "silent" insert))
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(progn (message (format "%S" result)) result)
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(when (and (stringp result) ;; ensure results end in a newline
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(not (or (string-equal (substring result -1) "\n")
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(string-equal (substring result -1) "\r"))))
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(setq result (concat result "\n")))
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(save-excursion
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(goto-char (org-babel-where-is-src-block-result)) (forward-line 1)
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(if (stringp result) ;; assume the result is a table if it's not a string
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(if (member "file" insert)
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(insert result)
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(org-babel-examplize-region (point) (progn (insert result) (point))))
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(progn
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(insert
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(concat (orgtbl-to-orgtbl
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(if (consp (car result)) result (list result))
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'(:fmt (lambda (cell) (format "%S" cell)))) "\n"))
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(forward-line -1)
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(org-cycle))))
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(message "finished"))))
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(defun org-babel-result-to-org-string (result)
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"Return RESULT as a string in org-mode format. This function
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relies on `org-babel-insert-result'."
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(with-temp-buffer (org-babel-insert-result result) (buffer-string)))
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(defun org-babel-remove-result ()
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"Remove the result of the current source block."
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(interactive)
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(save-excursion
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(goto-char (org-babel-where-is-src-block-result)) (forward-line 1)
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(delete-region (point)
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(save-excursion
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(if (org-at-table-p)
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(org-table-end)
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(while (if (looking-at "\\(: \\|\\[\\[\\)")
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(progn (while (looking-at "\\(: \\|\\[\\[\\)")
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(forward-line 1)) t))
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(forward-line 1))
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(forward-line -1)
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(point))))))
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(defun org-babel-result-to-file (result)
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"Return an `org-mode' link with the path being the value or
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RESULT, and the display being the `file-name-nondirectory' if
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non-nil."
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(let ((name (file-name-nondirectory result)))
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(concat "[[" result (if name (concat "][" name "]]") "]]"))))
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(defun org-babel-examplize-region (beg end)
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"Comment out region using the ': ' org example quote."
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(interactive "*r")
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(let ((size (abs (- (line-number-at-pos end)
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(line-number-at-pos beg)))))
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(if (= size 0)
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(let ((result (buffer-substring beg end)))
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(delete-region beg end)
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(insert (concat ": " result)))
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(save-excursion
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(goto-char beg)
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(dotimes (n size)
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(move-beginning-of-line 1) (insert ": ") (forward-line 1))))))
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(defun org-babel-clean-text-properties (text)
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"Strip all properties from text return."
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(set-text-properties 0 (length text) nil text) text)
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(defun org-babel-read (cell)
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"Convert the string value of CELL to a number if appropriate.
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Otherwise if cell looks like a list (meaning it starts with a
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'(') then read it as lisp, otherwise return it unmodified as a
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string.
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This is taken almost directly from `org-read-prop'."
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(if (and (stringp cell) (not (equal cell "")))
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(if (org-babel-number-p cell)
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(string-to-number cell)
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(if (or (equal "(" (substring cell 0 1))
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(equal "'" (substring cell 0 1)))
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(read cell)
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(progn (set-text-properties 0 (length cell) nil cell) cell)))
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cell))
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(defun org-babel-number-p (string)
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"Return t if STRING represents a number"
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(string-match "^[[:digit:]]*\\.?[[:digit:]]*$" string))
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(defun org-babel-chomp (string &optional regexp)
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"Remove any trailing space or carriage returns characters from
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STRING. Default regexp used is \"[ \f\t\n\r\v]\" but can be
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overwritten by specifying a regexp as a second argument."
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(while (string-match "[ \f\t\n\r\v]" (substring results -1))
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(setq results (substring results 0 -1)))
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results)
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(provide 'org-babel)
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;;; org-babel.el ends here
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