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+;;; ob-ref.el --- Babel Functions for Referencing External Data -*- lexical-binding: t; -*-
+
+;; Copyright (C) 2009-2021 Free Software Foundation, Inc.
+
+;; Authors: Eric Schulte
+;;	 Dan Davison
+;; Keywords: literate programming, reproducible research
+;; Homepage: https://orgmode.org
+
+;; This file is part of GNU Emacs.
+
+;; GNU Emacs is free software: you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation, either version 3 of the License, or
+;; (at your option) any later version.
+
+;; GNU Emacs is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs.  If not, see <https://www.gnu.org/licenses/>.
+
+;;; Commentary:
+
+;; Functions for referencing data from the header arguments of a
+;; org-babel block.  The syntax of such a reference should be
+
+;;   #+VAR: variable-name=file:resource-id
+
+;; - variable-name :: the name of the variable to which the value
+;;                    will be assigned
+
+;; - file :: path to the file containing the resource, or omitted if
+;;           resource is in the current file
+
+;; - resource-id :: the id or name of the resource
+
+;; So an example of a simple source block referencing table data in
+;; the same file would be
+
+;;  #+NAME: sandbox
+;;  | 1 |         2 | 3 |
+;;  | 4 | org-babel | 6 |
+;;
+;;  #+begin_src emacs-lisp :var table=sandbox
+;;    (message table)
+;;  #+end_src
+
+;;; Code:
+(require 'ob-core)
+(require 'org-macs)
+(require 'cl-lib)
+
+(declare-function org-babel-lob-get-info "ob-lob" (&optional datum))
+(declare-function org-element-at-point "org-element" ())
+(declare-function org-element-property "org-element" (property element))
+(declare-function org-element-type "org-element" (element))
+(declare-function org-end-of-meta-data "org" (&optional full))
+(declare-function org-find-property "org" (property &optional value))
+(declare-function org-id-find-id-file "org-id" (id))
+(declare-function org-id-find-id-in-file "org-id" (id file &optional markerp))
+(declare-function org-in-commented-heading-p "org" (&optional no-inheritance))
+(declare-function org-narrow-to-subtree "org" ())
+(declare-function org-show-context "org" (&optional key))
+
+(defvar org-babel-update-intermediate nil
+  "Update the in-buffer results of code blocks executed to resolve references.")
+
+(defun org-babel-ref-parse (assignment)
+  "Parse a variable ASSIGNMENT in a header argument.
+
+If the right hand side of the assignment has a literal value
+return that value, otherwise interpret it as a reference to an
+external resource and find its value using `org-babel-ref-resolve'.
+
+Return a list with two elements: the name of the variable, and an
+Emacs Lisp representation of the value of the variable."
+  (when (string-match "\\(.+?\\)=" assignment)
+    (let ((var (org-trim (match-string 1 assignment)))
+	  (ref (org-trim (substring assignment (match-end 0)))))
+      (cons (intern var)
+	    (let ((out (save-excursion
+			 (when org-babel-current-src-block-location
+			   (goto-char (if (markerp org-babel-current-src-block-location)
+					  (marker-position org-babel-current-src-block-location)
+					org-babel-current-src-block-location)))
+			 (org-babel-read ref))))
+	      (if (equal out ref)
+		  (if (and (string-prefix-p "\"" ref)
+			   (string-suffix-p "\"" ref))
+		      (read ref)
+		    (org-babel-ref-resolve ref))
+		out))))))
+
+(defun org-babel-ref-goto-headline-id (id)
+  (or (let ((h (org-find-property "CUSTOM_ID" id)))
+	(when h (goto-char h)))
+      (let* ((file (org-id-find-id-file id))
+	     (m (when file (org-id-find-id-in-file id file 'marker))))
+	(when (and file m)
+	  (message "file:%S" file)
+	  (pop-to-buffer-same-window (marker-buffer m))
+	  (goto-char m)
+	  (move-marker m nil)
+	  (org-show-context)
+	  t))))
+
+(defun org-babel-ref-headline-body ()
+  (save-restriction
+    (org-narrow-to-subtree)
+    (buffer-substring
+     (save-excursion (goto-char (point-min))
+		     (org-end-of-meta-data)
+		     (point))
+     (point-max))))
+
+(defvar org-babel-library-of-babel)
+(defun org-babel-ref-resolve (ref)
+  "Resolve the reference REF and return its value."
+  (save-window-excursion
+    (with-current-buffer (or org-babel-exp-reference-buffer (current-buffer))
+      (save-excursion
+	(let ((case-fold-search t)
+	      args new-refere new-header-args new-referent split-file split-ref
+	      index)
+	  ;; if ref is indexed grab the indices -- beware nested indices
+	  (when (and (string-match "\\[\\([^\\[]+\\)\\]$" ref)
+		     (let ((str (substring ref 0 (match-beginning 0))))
+		       (= (cl-count ?\( str) (cl-count ?\) str))))
+	    (setq index (match-string 1 ref))
+	    (setq ref (substring ref 0 (match-beginning 0))))
+	  ;; assign any arguments to pass to source block
+	  (when (string-match
+		 "^\\(.+?\\)\\(\\[\\(.*\\)\\]\\|\\(\\)\\)(\\(.*\\))$" ref)
+	    (setq new-refere      (match-string 1 ref))
+	    (setq new-header-args (match-string 3 ref))
+	    (setq new-referent    (match-string 5 ref))
+	    (when (> (length new-refere) 0)
+	      (when (> (length new-referent) 0)
+		(setq args (mapcar (lambda (ref) (cons :var ref))
+				   (org-babel-ref-split-args new-referent))))
+	      (when (> (length new-header-args) 0)
+		(setq args (append (org-babel-parse-header-arguments
+				    new-header-args)
+				   args)))
+	      (setq ref new-refere)))
+	  (when (string-match "^\\(.+\\):\\(.+\\)$" ref)
+	    (setq split-file (match-string 1 ref))
+	    (setq split-ref (match-string 2 ref))
+	    (find-file split-file)
+	    (setq ref split-ref))
+	  (org-with-wide-buffer
+	   (goto-char (point-min))
+	   (let* ((params (append args '((:results . "silent"))))
+		  (regexp (org-babel-named-data-regexp-for-name ref))
+		  (result
+		   (catch :found
+		     ;; Check for code blocks or named data.
+		     (while (re-search-forward regexp nil t)
+		       ;; Ignore COMMENTed headings and orphaned
+		       ;; affiliated keywords.
+		       (unless (org-in-commented-heading-p)
+			 (let ((e (org-element-at-point)))
+			   (when (equal (org-element-property :name e) ref)
+			     (goto-char
+			      (org-element-property :post-affiliated e))
+			     (pcase (org-element-type e)
+			       (`babel-call
+				(throw :found
+				       (org-babel-execute-src-block
+					nil (org-babel-lob-get-info e) params)))
+			       (`src-block
+				(throw :found
+				       (org-babel-execute-src-block
+					nil nil
+					(and
+					 (not org-babel-update-intermediate)
+					 params))))
+			       ((and (let v (org-babel-read-element e))
+				     (guard v))
+				(throw :found v))
+			       (_ (error "Reference not found")))))))
+		     ;; Check for local or global headlines by ID.
+		     (when (org-babel-ref-goto-headline-id ref)
+		       (throw :found (org-babel-ref-headline-body)))
+		     ;; Check the Library of Babel.
+		     (let ((info (cdr (assq (intern ref)
+					    org-babel-library-of-babel))))
+		       (when info
+			 (throw :found
+				(org-babel-execute-src-block nil info params))))
+		     (error "Reference `%s' not found in this buffer" ref))))
+	     (cond
+	      ((symbolp result) (format "%S" result))
+	      ((and index (listp result))
+	       (org-babel-ref-index-list index result))
+	      (t result)))))))))
+
+(defun org-babel-ref-index-list (index lis)
+  "Return the subset of LIS indexed by INDEX.
+
+Indices are 0 based and negative indices count from the end of
+LIS, so 0 references the first element of LIS and -1 references
+the last.  If INDEX is separated by \",\"s then each \"portion\"
+is assumed to index into the next deepest nesting or dimension.
+
+A valid \"portion\" can consist of either an integer index, two
+integers separated by a \":\" in which case the entire range is
+returned, or an empty string or \"*\" both of which are
+interpreted to mean the entire range and as such are equivalent
+to \"0:-1\"."
+  (if (and (> (length index) 0) (string-match "^\\([^,]*\\),?" index))
+      (let* ((ind-re "\\(\\([-[:digit:]]+\\):\\([-[:digit:]]+\\)\\|\\*\\)")
+	     (lgth (length lis))
+	     (portion (match-string 1 index))
+	     (remainder (substring index (match-end 0)))
+	     (wrap (lambda (num) (if (< num 0) (+ lgth num) num)))
+	     (open (lambda (ls) (if (and (listp ls) (= (length ls) 1)) (car ls) ls))))
+	(funcall
+	 open
+	 (mapcar
+	  (lambda (sub-lis)
+	    (if (listp sub-lis)
+		(org-babel-ref-index-list remainder sub-lis)
+	      sub-lis))
+	  (if (or (= 0 (length portion)) (string-match ind-re portion))
+	      (mapcar
+	       (lambda (n) (nth n lis))
+	       (apply 'org-number-sequence
+		      (if (and (> (length portion) 0) (match-string 2 portion))
+			  (list
+			   (funcall wrap (string-to-number (match-string 2 portion)))
+			   (funcall wrap (string-to-number (match-string 3 portion))))
+			(list (funcall wrap 0) (funcall wrap -1)))))
+	    (list (nth (funcall wrap (string-to-number portion)) lis))))))
+    lis))
+
+(defun org-babel-ref-split-args (arg-string)
+  "Split ARG-STRING into top-level arguments of balanced parenthesis."
+  (mapcar #'org-trim (org-babel-balanced-split arg-string 44)))
+
+(provide 'ob-ref)
+
+;;; ob-ref.el ends here