2010-06-11 19:02:42 -04:00
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;;; ob-sh.el --- org-babel functions for shell evaluation
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2009-03-31 19:11:17 -04:00
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2013-01-01 10:04:24 -05:00
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;; Copyright (C) 2009-2013 Free Software Foundation, Inc.
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2009-03-31 19:11:17 -04:00
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;; Author: Eric Schulte
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;; Keywords: literate programming, reproducible research
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;; Homepage: http://orgmode.org
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2010-06-25 13:17:50 -04:00
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;; This file is part of GNU Emacs.
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2009-03-31 19:11:17 -04:00
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2010-06-25 13:17:50 -04:00
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;; GNU Emacs 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 of the License, or
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;; (at your option) any later version.
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;; GNU Emacs 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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2010-06-25 13:17:50 -04:00
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2009-03-31 19:11:17 -04:00
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;; You should have received a copy of the GNU General Public License
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;; along with GNU Emacs. If not, see <http://www.gnu.org/licenses/>.
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2009-03-31 19:11:17 -04:00
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;;; Commentary:
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2009-06-12 16:09:20 -04:00
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;; Org-Babel support for evaluating shell source code.
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2009-03-31 19:11:17 -04:00
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;;; Code:
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(require 'ob)
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(require 'shell)
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(eval-when-compile (require 'cl))
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2010-06-14 19:36:46 -04:00
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(declare-function org-babel-comint-in-buffer "ob-comint" (buffer &rest body))
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(declare-function org-babel-comint-wait-for-output "ob-comint" (buffer))
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(declare-function org-babel-comint-buffer-livep "ob-comint" (buffer))
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(declare-function org-babel-comint-with-output "ob-comint" (meta &rest body))
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(declare-function orgtbl-to-generic "org-table" (table params))
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(defvar org-babel-default-header-args:sh '())
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(defvar org-babel-sh-command "sh"
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"Command used to invoke a shell.
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This will be passed to `shell-command-on-region'")
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2011-01-18 11:23:53 -05:00
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(defcustom org-babel-sh-var-quote-fmt
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"$(cat <<'BABEL_TABLE'\n%s\nBABEL_TABLE\n)"
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"Format string used to escape variables when passed to shell scripts."
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:group 'org-babel
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:type 'string)
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(defun org-babel-execute:sh (body params)
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"Execute a block of Shell commands with Babel.
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This function is called by `org-babel-execute-src-block'."
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2010-10-21 07:52:24 -04:00
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(let* ((session (org-babel-sh-initiate-session
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(cdr (assoc :session params))))
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(stdin ((lambda (stdin) (when stdin (org-babel-sh-var-to-string
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(org-babel-ref-resolve stdin))))
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(cdr (assoc :stdin params))))
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(full-body (org-babel-expand-body:generic
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body params (org-babel-variable-assignments:sh params))))
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(org-babel-reassemble-table
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(org-babel-sh-evaluate session full-body params stdin)
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(org-babel-pick-name
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(cdr (assoc :colname-names params)) (cdr (assoc :colnames params)))
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(org-babel-pick-name
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(cdr (assoc :rowname-names params)) (cdr (assoc :rownames params))))))
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(defun org-babel-prep-session:sh (session params)
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"Prepare SESSION according to the header arguments specified in PARAMS."
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(let* ((session (org-babel-sh-initiate-session session))
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(var-lines (org-babel-variable-assignments:sh params)))
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(org-babel-comint-in-buffer session
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(mapc (lambda (var)
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(insert var) (comint-send-input nil t)
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(org-babel-comint-wait-for-output session)) var-lines))
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session))
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(defun org-babel-load-session:sh (session body params)
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"Load BODY into SESSION."
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(save-window-excursion
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(let ((buffer (org-babel-prep-session:sh session params)))
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(with-current-buffer buffer
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(goto-char (process-mark (get-buffer-process (current-buffer))))
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(insert (org-babel-chomp body)))
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buffer)))
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;; helper functions
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(defun org-babel-variable-assignments:sh (params)
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"Return list of shell statements assigning the block's variables."
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(let ((sep (cdr (assoc :separator params))))
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(mapcar
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(lambda (pair)
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(format "%s=%s"
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(car pair)
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(org-babel-sh-var-to-sh (cdr pair) sep)))
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(mapcar #'cdr (org-babel-get-header params :var)))))
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(defun org-babel-sh-var-to-sh (var &optional sep)
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"Convert an elisp value to a shell variable.
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Convert an elisp var into a string of shell commands specifying a
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var of the same value."
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(format org-babel-sh-var-quote-fmt (org-babel-sh-var-to-string var sep)))
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(defun org-babel-sh-var-to-string (var &optional sep)
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"Convert an elisp value to a string."
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(let ((echo-var (lambda (v) (if (stringp v) v (format "%S" v)))))
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(cond
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((and (listp var) (listp (car var)))
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(orgtbl-to-generic var (list :sep (or sep "\t") :fmt echo-var)))
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((listp var)
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(mapconcat echo-var var "\n"))
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(t (funcall echo-var var)))))
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(defun org-babel-sh-table-or-results (results)
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"Convert RESULTS to an appropriate elisp value.
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If the results look like a table, then convert them into an
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Emacs-lisp table, otherwise return the results as a string."
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(org-babel-script-escape results))
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(defun org-babel-sh-initiate-session (&optional session params)
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"Initiate a session named SESSION according to PARAMS."
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(when (and session (not (string= session "none")))
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(save-window-excursion
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(or (org-babel-comint-buffer-livep session)
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(progn (shell session) (get-buffer (current-buffer)))))))
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(defvar org-babel-sh-eoe-indicator "echo 'org_babel_sh_eoe'"
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"String to indicate that evaluation has completed.")
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(defvar org-babel-sh-eoe-output "org_babel_sh_eoe"
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"String to indicate that evaluation has completed.")
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(defun org-babel-sh-evaluate (session body &optional params stdin)
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"Pass BODY to the Shell process in BUFFER.
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If RESULT-TYPE equals 'output then return a list of the outputs
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of the statements in BODY, if RESULT-TYPE equals 'value then
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return the value of the last statement in BODY."
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((lambda (results)
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(when results
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(let ((result-params (cdr (assoc :result-params params))))
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(org-babel-result-cond result-params
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results
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(let ((tmp-file (org-babel-temp-file "sh-")))
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(with-temp-file tmp-file (insert results))
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(org-babel-import-elisp-from-file tmp-file))))))
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(cond
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(stdin ; external shell script w/STDIN
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(let ((script-file (org-babel-temp-file "sh-script-"))
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(stdin-file (org-babel-temp-file "sh-stdin-"))
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(shebang (cdr (assoc :shebang params)))
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(padline (not (string= "no" (cdr (assoc :padline params))))))
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(with-temp-file script-file
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(when shebang (insert (concat shebang "\n")))
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(when padline (insert "\n"))
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(insert body))
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(set-file-modes script-file #o755)
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(with-temp-file stdin-file (insert stdin))
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(with-temp-buffer
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(call-process-shell-command
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(if shebang
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script-file
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(format "%s %s" org-babel-sh-command script-file))
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stdin-file
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(current-buffer))
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(buffer-string))))
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(session ; session evaluation
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(mapconcat
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#'org-babel-sh-strip-weird-long-prompt
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(mapcar
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#'org-babel-trim
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(butlast
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(org-babel-comint-with-output
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(session org-babel-sh-eoe-output t body)
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(mapc
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(lambda (line)
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(insert line)
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(comint-send-input nil t)
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(while (save-excursion
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(goto-char comint-last-input-end)
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(not (re-search-forward
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comint-prompt-regexp nil t)))
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(accept-process-output (get-buffer-process (current-buffer)))))
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(append
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(split-string (org-babel-trim body) "\n")
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(list org-babel-sh-eoe-indicator))))
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2)) "\n"))
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('otherwise ; external shell script
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(if (and (cdr (assoc :shebang params))
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(> (length (cdr (assoc :shebang params))) 0))
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(let ((script-file (org-babel-temp-file "sh-script-"))
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(shebang (cdr (assoc :shebang params)))
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(padline (not (string= "no" (cdr (assoc :padline params))))))
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(with-temp-file script-file
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(when shebang (insert (concat shebang "\n")))
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(when padline (insert "\n"))
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(insert body))
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(set-file-modes script-file #o755)
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(org-babel-eval script-file ""))
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(org-babel-eval org-babel-sh-command (org-babel-trim body)))))))
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(defun org-babel-sh-strip-weird-long-prompt (string)
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"Remove prompt cruft from a string of shell output."
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(while (string-match "^% +[\r\n$]+ *" string)
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(setq string (substring string (match-end 0))))
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string)
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(provide 'ob-sh)
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2010-06-11 19:02:42 -04:00
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;;; ob-sh.el ends here
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