303 lines
9.5 KiB
EmacsLisp
303 lines
9.5 KiB
EmacsLisp
;;; test-ob-R.el --- tests for ob-R.el -*- lexical-binding: t; -*-
|
|
|
|
;; Copyright (c) 2011-2014, 2019 Eric Schulte
|
|
;; Authors: Eric Schulte
|
|
|
|
;; This file is not part of GNU Emacs.
|
|
|
|
;; This program 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.
|
|
|
|
;; This program 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 this program. If not, see <https://www.gnu.org/licenses/>.
|
|
|
|
;;; Code:
|
|
(org-test-for-executable "R")
|
|
(require 'ob-core)
|
|
(unless (featurep 'ess)
|
|
(signal 'missing-test-dependency "ESS"))
|
|
(defvar ess-ask-for-ess-directory)
|
|
(defvar ess-history-file)
|
|
|
|
(unless (featurep 'ob-R)
|
|
(signal 'missing-test-dependency "Support for R code blocks"))
|
|
|
|
(ert-deftest test-ob-R/simple-session ()
|
|
(let (ess-ask-for-ess-directory ess-history-file)
|
|
(org-test-with-temp-text
|
|
"#+begin_src R :session R\n paste(\"Yep!\")\n#+end_src\n"
|
|
(should (string= "Yep!" (org-babel-execute-src-block))))))
|
|
|
|
(ert-deftest test-ob-R/colnames-yes-header-argument ()
|
|
(org-test-with-temp-text "#+name: eg
|
|
| col |
|
|
|-----|
|
|
| a |
|
|
| b |
|
|
|
|
#+header: :colnames yes
|
|
#+header: :var x = eg
|
|
#+begin_src R
|
|
x
|
|
#+end_src"
|
|
(org-babel-next-src-block)
|
|
(should (equal '(("col") hline ("a") ("b"))
|
|
(org-babel-execute-src-block)))))
|
|
|
|
(ert-deftest test-ob-R/colnames-nil-header-argument ()
|
|
(org-test-with-temp-text "#+name: eg
|
|
| col |
|
|
|-----|
|
|
| a |
|
|
| b |
|
|
|
|
#+header: :colnames nil
|
|
#+header: :var x = eg
|
|
#+begin_src R
|
|
x
|
|
#+end_src"
|
|
(org-babel-next-src-block)
|
|
(should (equal '(("col") hline ("a") ("b"))
|
|
(org-babel-execute-src-block)))))
|
|
|
|
(ert-deftest test-ob-R/colnames-no-header-argument ()
|
|
(org-test-with-temp-text "#+name: eg
|
|
| col |
|
|
|-----|
|
|
| a |
|
|
| b |
|
|
|
|
#+header: :colnames no
|
|
#+header: :var x = eg
|
|
#+begin_src R
|
|
x
|
|
#+end_src"
|
|
(org-babel-next-src-block)
|
|
(should (equal '(("col") ("a") ("b"))
|
|
(org-babel-execute-src-block)))))
|
|
|
|
(ert-deftest test-ob-R/results-file ()
|
|
(let (ess-ask-for-ess-directory ess-history-file)
|
|
(org-test-with-temp-text
|
|
"#+NAME: TESTSRC
|
|
#+BEGIN_SRC R :results file
|
|
a <- file.path(\"junk\", \"test.org\")
|
|
a
|
|
#+END_SRC"
|
|
(goto-char (point-min)) (org-babel-execute-maybe)
|
|
(org-babel-goto-named-result "TESTSRC") (forward-line 1)
|
|
(should (string= "[[file:junk/test.org]]"
|
|
(buffer-substring-no-properties (point-at-bol) (point-at-eol))))
|
|
(goto-char (point-min)) (forward-line 1)
|
|
(insert "#+header: :session\n")
|
|
(goto-char (point-min)) (org-babel-execute-maybe)
|
|
(org-babel-goto-named-result "TESTSRC") (forward-line 1)
|
|
(should (string= "[[file:junk/test.org]]"
|
|
(buffer-substring-no-properties (point-at-bol) (point-at-eol)))))))
|
|
|
|
|
|
|
|
(ert-deftest test-ob-r/output-with-<> ()
|
|
"make sure angle brackets are well formatted"
|
|
(let (ess-ask-for-ess-directory ess-history-file)
|
|
(should (string="[1] \"<X> <Y> <!>\"
|
|
[1] \"one <two> three\"
|
|
[1] \"end35\"
|
|
"
|
|
(org-test-with-temp-text "#+begin_src R :results output
|
|
print(\"<X> <Y> <!>\")
|
|
print(\"one <two> three\")
|
|
print(\"end35\")
|
|
#+end_src
|
|
"
|
|
(org-babel-execute-src-block))
|
|
))))
|
|
|
|
|
|
|
|
|
|
;; (ert-deftest test-ob-r/output-with-error ()
|
|
;; "make sure angle brackets are well formatted"
|
|
;; (let (ess-ask-for-ess-directory ess-history-file)
|
|
;; (should (string="Error in print(1/a) : object 'a' not found"
|
|
;; (org-test-with-temp-text "#+begin_src R :results output
|
|
;; print(1/a)
|
|
;; #+end_src
|
|
;; "
|
|
;; (org-babel-execute-src-block))
|
|
;; ))))
|
|
|
|
|
|
(ert-deftest test-ob-R/output-nonprinted ()
|
|
(let (ess-ask-for-ess-directory ess-history-file)
|
|
(org-test-with-temp-text
|
|
"#+begin_src R :results output
|
|
4.0 * 3.5
|
|
log(10)
|
|
log10(10)
|
|
\(3 + 1) * 5
|
|
3^-1
|
|
1/0
|
|
#+end_src"
|
|
(should (string= "[1] 14\n[1] 2.302585\n[1] 1\n[1] 20\n[1] 0.3333333\n[1] Inf\n" (org-babel-execute-src-block))))))
|
|
|
|
(ert-deftest test-ob-r/NA-blank ()
|
|
"For :results value, NAs should be empty"
|
|
(let (ess-ask-for-ess-directory ess-history-file)
|
|
(should (equal '(("A" "B") hline ("" 1) (1 2) (1 "") (1 4) (1 4))
|
|
(org-test-with-temp-text "#+BEGIN_SRC R :results value :colnames yes
|
|
data.frame(A=c(NA,1,1,1,1),B=c(1,2,NA,4,4))
|
|
#+end_src"
|
|
(org-babel-execute-src-block))))))
|
|
|
|
|
|
(ert-deftest ob-session-async-R-simple-session-async-value ()
|
|
(let (ess-ask-for-ess-directory
|
|
ess-history-file
|
|
(org-babel-temporary-directory "/tmp")
|
|
(org-confirm-babel-evaluate nil))
|
|
(org-test-with-temp-text
|
|
"#+begin_src R :session R :async yes\n Sys.sleep(.1)\n paste(\"Yep!\")\n#+end_src\n"
|
|
(should (let ((expected "Yep!"))
|
|
(and (not (string= expected (org-babel-execute-src-block)))
|
|
(string= expected
|
|
(progn
|
|
(sleep-for 0 200)
|
|
(goto-char (org-babel-where-is-src-block-result))
|
|
(org-babel-read-result)))))))))
|
|
|
|
(ert-deftest ob-session-async-R-simple-session-async-output ()
|
|
(let (ess-ask-for-ess-directory
|
|
ess-history-file
|
|
(org-babel-temporary-directory "/tmp")
|
|
(org-confirm-babel-evaluate nil))
|
|
(org-test-with-temp-text
|
|
"#+begin_src R :session R :results output :async yes\n Sys.sleep(.1)\n 1:5\n#+end_src\n"
|
|
(should (let ((expected "[1] 1 2 3 4 5"))
|
|
(and (not (string= expected (org-babel-execute-src-block)))
|
|
(string= expected
|
|
(progn
|
|
(sleep-for 0 200)
|
|
(goto-char (org-babel-where-is-src-block-result))
|
|
(org-babel-read-result)))))))))
|
|
|
|
(ert-deftest ob-session-async-R-named-output ()
|
|
(let (ess-ask-for-ess-directory
|
|
ess-history-file
|
|
(org-babel-temporary-directory "/tmp")
|
|
org-confirm-babel-evaluate
|
|
(src-block "#+begin_src R :async :session R :results output\n 1:5\n#+end_src")
|
|
(results-before "\n\n#+NAME: foobar\n#+RESULTS:\n: [1] 1")
|
|
(results-after "\n\n#+NAME: foobar\n#+RESULTS:\n: [1] 1 2 3 4 5\n"))
|
|
(org-test-with-temp-text
|
|
(concat src-block results-before)
|
|
(should (progn (org-babel-execute-src-block)
|
|
(sleep-for 0 200)
|
|
(string= (concat src-block results-after)
|
|
(buffer-string)))))))
|
|
|
|
(ert-deftest ob-session-async-R-named-value ()
|
|
(let (ess-ask-for-ess-directory
|
|
ess-history-file
|
|
org-confirm-babel-evaluate
|
|
(org-babel-temporary-directory "/tmp")
|
|
(src-block "#+begin_src R :async :session R :results value\n paste(\"Yep!\")\n#+end_src")
|
|
(results-before "\n\n#+NAME: foobar\n#+RESULTS:\n: [1] 1")
|
|
(results-after "\n\n#+NAME: foobar\n#+RESULTS:\n: Yep!\n"))
|
|
(org-test-with-temp-text
|
|
(concat src-block results-before)
|
|
(should (progn (org-babel-execute-src-block)
|
|
(sleep-for 0 200)
|
|
(string= (concat src-block results-after)
|
|
(buffer-string)))))))
|
|
|
|
(ert-deftest ob-session-async-R-output-drawer ()
|
|
(let (ess-ask-for-ess-directory
|
|
ess-history-file
|
|
org-confirm-babel-evaluate
|
|
(org-babel-temporary-directory "/tmp")
|
|
(src-block "#+begin_src R :async :session R :results output drawer\n 1:5\n#+end_src")
|
|
(result "\n\n#+RESULTS:\n:results:\n[1] 1 2 3 4 5\n:end:\n"))
|
|
(org-test-with-temp-text
|
|
src-block
|
|
(should (progn (org-babel-execute-src-block)
|
|
(sleep-for 0 200)
|
|
(string= (concat src-block result)
|
|
(buffer-string)))))))
|
|
|
|
(ert-deftest ob-session-async-R-value-drawer ()
|
|
(let (ess-ask-for-ess-directory
|
|
ess-history-file
|
|
org-confirm-babel-evaluate
|
|
(org-babel-temporary-directory "/tmp")
|
|
(src-block "#+begin_src R :async :session R :results value drawer\n 1:3\n#+end_src")
|
|
(result "\n\n#+RESULTS:\n:results:\n1\n2\n3\n:end:\n"))
|
|
(org-test-with-temp-text
|
|
src-block
|
|
(should (progn (org-babel-execute-src-block)
|
|
(sleep-for 0 200)
|
|
(string= (concat src-block result)
|
|
(buffer-string)))))))
|
|
|
|
; add test for :result output
|
|
(ert-deftest ob-session-R-result-output ()
|
|
(let (ess-ask-for-ess-directory
|
|
ess-history-file
|
|
org-confirm-babel-evaluate
|
|
(org-babel-temporary-directory "/tmp")
|
|
(src-block "#+begin_src R :session R :results output \n 1:3\n#+end_src")
|
|
(result "\n\n#+RESULTS:\n: [1] 1 2 3\n" ))
|
|
(org-test-with-temp-text
|
|
src-block
|
|
(should (progn (org-babel-execute-src-block)
|
|
(sleep-for 0 200)
|
|
(string= (concat src-block result)
|
|
(buffer-string)))))))
|
|
|
|
|
|
;; test for printing of (nested) list
|
|
(ert-deftest ob-R-nested-list ()
|
|
"List are printed as the first column of a table and nested lists are ignored"
|
|
(let (ess-ask-for-ess-directory
|
|
ess-history-file
|
|
org-confirm-babel-evaluate
|
|
(org-babel-temporary-directory "/tmp")
|
|
(text "
|
|
#+NAME: example-list
|
|
- simple
|
|
- not
|
|
- nested
|
|
- list
|
|
|
|
#+BEGIN_SRC R :var x=example-list
|
|
x
|
|
#+END_SRC
|
|
")
|
|
(result "
|
|
#+RESULTS:
|
|
| simple |
|
|
| list |
|
|
"))
|
|
(org-test-with-temp-text-in-file
|
|
text
|
|
(goto-char (point-min))
|
|
(org-babel-next-src-block)
|
|
(should (progn
|
|
(org-babel-execute-src-block)
|
|
(sleep-for 0 200)
|
|
(string= (concat text result)
|
|
(buffer-string)))))))
|
|
|
|
|
|
(provide 'test-ob-R)
|
|
|
|
;;; test-ob-R.el ends here
|
|
|