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* contrib/lisp/org-contacts.el (org-contacts-filter): (org-contacts-complete-group): (org-contacts-complete-tags-props): * contrib/lisp/org-wl.el (org-wl-open): * contrib/lisp/ox-bibtex.el (org-bibtex-merge-contiguous-citations): * lisp/ob-core.el (org-babel-demarcate-block): * lisp/ob-processing.el (org-babel-processing-view-sketch): * lisp/ob-stan.el (org-babel-execute:stan): * lisp/org-agenda.el (org-agenda-get-category-icon): * lisp/org-clock.el (org-clock-into-drawer): * lisp/org-element.el (org-element-link-parser): * lisp/org-lint.el (org-lint-orphaned-affiliated-keywords): (org-lint-invalid-babel-call-block): (org-lint-colon-in-name): * lisp/org-list.el (org-list-item-body-column): * lisp/org-macro.el (org-macro-replace-all): * lisp/org-plot.el (org-plot/gnuplot-script): * lisp/org-table.el (org-table-export): (org-table-align): (org-table-get-range): (org-table-recalculate): (org-table-expand-lhs-ranges): (org-table-formula-substitute-names): (org-table-show-reference): (orgtbl-to-texinfo): (org-table-remote-reference-indirection): * lisp/org.el (org-make-link-string): (org--open-elisp-link): (org-open-at-point): (org-store-log-note): (org-cached-entry-get): (org--valid-property-p): (org-entry-properties): (org-buffer-property-keys): (org-insert-drawer): (org-display-inline-images): (org-in-commented-heading-p): * lisp/ox-ascii.el (org-ascii-keyword): * lisp/ox-beamer.el (org-beamer--format-frame): * lisp/ox-html.el (org-html-keyword): * lisp/ox-latex.el (org-latex--label): (org-latex-headline): (org-latex-item): (org-latex-keyword): (org-latex--inline-image): (org-latex-src-block): * lisp/ox-odt.el (org-odt-styles-dir): (org-odt-keyword): (org-odt--translate-latex-fragments): * lisp/ox-texinfo.el (org-texinfo-template): (org-texinfo-keyword): (org-texinfo-src-block): * lisp/ox.el (org-export-inline-image-p): (org-export-file-uri): * testing/lisp/test-org-table.el (test-org-table/to-generic): (test-org-table/to-latex): (test-org-table/to-html): (test-org-table/named-field): (test-org-table/named-column): (test-org-table/tab-indent): (test-org-table/first-rc): (test-org-table/last-rc): Use `string-match-p' instead of `org-string-match-p'.
85 lines
3 KiB
EmacsLisp
85 lines
3 KiB
EmacsLisp
;;; ob-stan.el --- Babel Functions for Stan -*- lexical-binding: t; -*-
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;; Copyright (C) 2015-2016 Free Software Foundation, Inc.
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;; Author: Kyle Meyer
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;; Keywords: literate programming, reproducible research
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;; Homepage: http://orgmode.org
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;; This file is part of GNU Emacs.
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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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;; 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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;;; Commentary:
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;; Org-Babel support for evaluating Stan [1] source code.
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;;
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;; Evaluating a Stan block can produce two different results.
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;;
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;; 1) Dump the source code contents to a file.
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;;
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;; This file can then be used as a variable in other blocks, which
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;; allows interfaces like RStan to use the model.
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;;
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;; 2) Compile the contents to a model file.
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;;
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;; This provides access to the CmdStan interface. To use this, set
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;; `org-babel-stan-cmdstan-directory' and provide a :file argument
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;; that does not end in ".stan".
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;;
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;; For more information and usage examples, visit
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;; http://orgmode.org/worg/org-contrib/babel/languages/ob-doc-stan.html
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;;
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;; [1] http://mc-stan.org/
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;;; Code:
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(require 'ob)
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(require 'org-compat)
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(defcustom org-babel-stan-cmdstan-directory nil
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"CmdStan source directory.
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'make' will be called from this directory to compile the Stan
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block. When nil, executing Stan blocks dumps the content to a
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plain text file."
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:group 'org-babel
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:type 'string)
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(defvar org-babel-default-header-args:stan
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'((:results . "file")))
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(defun org-babel-execute:stan (body params)
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"Generate Stan file from BODY according to PARAMS.
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A :file header argument must be given. If
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`org-babel-stan-cmdstan-directory' is non-nil and the file name
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does not have a \".stan\" extension, save an intermediate
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\".stan\" file and compile the block to the named file.
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Otherwise, write the Stan code directly to the named file."
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(let ((file (expand-file-name
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(or (cdr (assq :file params))
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(user-error "Set :file argument to execute Stan blocks")))))
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(if (or (not org-babel-stan-cmdstan-directory)
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(string-match-p "\\.stan\\'" file))
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(with-temp-file file (insert body))
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(with-temp-file (concat file ".stan") (insert body))
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(let ((default-directory org-babel-stan-cmdstan-directory))
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(call-process-shell-command (concat "make " file))))
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nil)) ; Signal that output has been written to file.
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(defun org-babel-prep-session:stan (_session _params)
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"Return an error because Stan does not support sessions."
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(user-error "Stan does not support sessions"))
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(provide 'ob-stan)
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;;; ob-stan.el ends here
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