emacs-orgmode@gnu.org archives
 help / color / mirror / code / Atom feed
blob 98d73dea913ac33a4c3e2594086f19bcd7d1ef6b 8367 bytes (raw)
name: testing/lisp/test-ob-R.el 	 # note: path name is non-authoritative(*)

  1
  2
  3
  4
  5
  6
  7
  8
  9
 10
 11
 12
 13
 14
 15
 16
 17
 18
 19
 20
 21
 22
 23
 24
 25
 26
 27
 28
 29
 30
 31
 32
 33
 34
 35
 36
 37
 38
 39
 40
 41
 42
 43
 44
 45
 46
 47
 48
 49
 50
 51
 52
 53
 54
 55
 56
 57
 58
 59
 60
 61
 62
 63
 64
 65
 66
 67
 68
 69
 70
 71
 72
 73
 74
 75
 76
 77
 78
 79
 80
 81
 82
 83
 84
 85
 86
 87
 88
 89
 90
 91
 92
 93
 94
 95
 96
 97
 98
 99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
 
;;; 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")
(unless (featurep 'ess)
  (signal 'missing-test-dependency "ESS"))
(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)))))))




(provide 'test-ob-R)

;;; test-ob-R.el ends here
 

debug log:

solving 98d73dea91 ...
found 98d73dea91 in https://list.orgmode.org/orgmode/jwvfsgw6syx.fsf-monnier+emacs@gnu.org/
found 1e60ae903f in https://git.savannah.gnu.org/cgit/emacs/org-mode.git
preparing index
index prepared:
100644 1e60ae903fe44985974da400783785470c5024df	testing/lisp/test-ob-R.el

applying [1/1] https://list.orgmode.org/orgmode/jwvfsgw6syx.fsf-monnier+emacs@gnu.org/
diff --git a/testing/lisp/test-ob-R.el b/testing/lisp/test-ob-R.el
index 1e60ae903f..98d73dea91 100644

Checking patch testing/lisp/test-ob-R.el...
Applied patch testing/lisp/test-ob-R.el cleanly.

index at:
100644 98d73dea913ac33a4c3e2594086f19bcd7d1ef6b	testing/lisp/test-ob-R.el

(*) Git path names are given by the tree(s) the blob belongs to.
    Blobs themselves have no identifier aside from the hash of its contents.^

Code repositories for project(s) associated with this public inbox

	https://git.savannah.gnu.org/cgit/emacs/org-mode.git

This is a public inbox, see mirroring instructions
for how to clone and mirror all data and code used for this inbox;
as well as URLs for read-only IMAP folder(s) and NNTP newsgroup(s).