extcite 0.3.0 → 0.4.0
Sign up to get free protection for your applications and to get access to all the features.
- checksums.yaml +4 -4
- data/.gitignore +0 -1
- data/CHANGELOG.md +9 -0
- data/Gemfile.lock +13 -11
- data/README.md +1 -1
- data/doc/Array.html +205 -0
- data/doc/Configuration.html +296 -0
- data/doc/Extcite.html +1122 -0
- data/doc/Hash.html +380 -0
- data/doc/String.html +289 -0
- data/doc/Textminer.html +601 -0
- data/doc/Textminer/Fetch.html +447 -0
- data/doc/Textminer/Mined.html +509 -0
- data/doc/Textminer/Miner.html +385 -0
- data/doc/Textminer/Request.html +669 -0
- data/doc/Textminer/Response.html +923 -0
- data/doc/_index.html +135 -0
- data/doc/class_list.html +51 -0
- data/doc/css/common.css +1 -0
- data/doc/css/full_list.css +58 -0
- data/doc/css/style.css +496 -0
- data/doc/file.README.html +139 -0
- data/doc/file_list.html +56 -0
- data/doc/frames.html +17 -0
- data/doc/index.html +139 -0
- data/doc/js/app.js +314 -0
- data/doc/js/full_list.js +216 -0
- data/doc/js/jquery.js +4 -0
- data/doc/method_list.html +155 -0
- data/doc/top-level-namespace.html +397 -0
- data/extcite.gemspec +14 -4
- data/lib/extcite.rb +39 -24
- data/lib/extcite/version.rb +1 -1
- metadata +65 -9
data/doc/Extcite.html
ADDED
|
@@ -0,0 +1,1122 @@
|
|
|
1
|
+
<!DOCTYPE html>
|
|
2
|
+
<html>
|
|
3
|
+
<head>
|
|
4
|
+
<meta charset="utf-8">
|
|
5
|
+
<meta name="viewport" content="width=device-width, initial-scale=1.0">
|
|
6
|
+
<title>
|
|
7
|
+
Module: Extcite
|
|
8
|
+
|
|
9
|
+
— Documentation by YARD 0.9.24
|
|
10
|
+
|
|
11
|
+
</title>
|
|
12
|
+
|
|
13
|
+
<link rel="stylesheet" href="css/style.css" type="text/css" />
|
|
14
|
+
|
|
15
|
+
<link rel="stylesheet" href="css/common.css" type="text/css" />
|
|
16
|
+
|
|
17
|
+
<script type="text/javascript">
|
|
18
|
+
pathId = "Extcite";
|
|
19
|
+
relpath = '';
|
|
20
|
+
</script>
|
|
21
|
+
|
|
22
|
+
|
|
23
|
+
<script type="text/javascript" charset="utf-8" src="js/jquery.js"></script>
|
|
24
|
+
|
|
25
|
+
<script type="text/javascript" charset="utf-8" src="js/app.js"></script>
|
|
26
|
+
|
|
27
|
+
|
|
28
|
+
</head>
|
|
29
|
+
<body>
|
|
30
|
+
<div class="nav_wrap">
|
|
31
|
+
<iframe id="nav" src="class_list.html?1"></iframe>
|
|
32
|
+
<div id="resizer"></div>
|
|
33
|
+
</div>
|
|
34
|
+
|
|
35
|
+
<div id="main" tabindex="-1">
|
|
36
|
+
<div id="header">
|
|
37
|
+
<div id="menu">
|
|
38
|
+
|
|
39
|
+
<a href="_index.html">Index (E)</a> »
|
|
40
|
+
|
|
41
|
+
|
|
42
|
+
<span class="title">Extcite</span>
|
|
43
|
+
|
|
44
|
+
</div>
|
|
45
|
+
|
|
46
|
+
<div id="search">
|
|
47
|
+
|
|
48
|
+
<a class="full_list_link" id="class_list_link"
|
|
49
|
+
href="class_list.html">
|
|
50
|
+
|
|
51
|
+
<svg width="24" height="24">
|
|
52
|
+
<rect x="0" y="4" width="24" height="4" rx="1" ry="1"></rect>
|
|
53
|
+
<rect x="0" y="12" width="24" height="4" rx="1" ry="1"></rect>
|
|
54
|
+
<rect x="0" y="20" width="24" height="4" rx="1" ry="1"></rect>
|
|
55
|
+
</svg>
|
|
56
|
+
</a>
|
|
57
|
+
|
|
58
|
+
</div>
|
|
59
|
+
<div class="clear"></div>
|
|
60
|
+
</div>
|
|
61
|
+
|
|
62
|
+
<div id="content"><h1>Module: Extcite
|
|
63
|
+
|
|
64
|
+
|
|
65
|
+
|
|
66
|
+
</h1>
|
|
67
|
+
<div class="box_info">
|
|
68
|
+
|
|
69
|
+
|
|
70
|
+
|
|
71
|
+
|
|
72
|
+
|
|
73
|
+
|
|
74
|
+
|
|
75
|
+
|
|
76
|
+
|
|
77
|
+
|
|
78
|
+
|
|
79
|
+
<dl>
|
|
80
|
+
<dt>Defined in:</dt>
|
|
81
|
+
<dd>lib/extcite.rb<span class="defines">,<br />
|
|
82
|
+
lib/extcite/version.rb</span>
|
|
83
|
+
</dd>
|
|
84
|
+
</dl>
|
|
85
|
+
|
|
86
|
+
</div>
|
|
87
|
+
|
|
88
|
+
|
|
89
|
+
|
|
90
|
+
<h2>
|
|
91
|
+
Constant Summary
|
|
92
|
+
<small><a href="#" class="constants_summary_toggle">collapse</a></small>
|
|
93
|
+
</h2>
|
|
94
|
+
|
|
95
|
+
<dl class="constants">
|
|
96
|
+
|
|
97
|
+
<dt id="VERSION-constant" class="">VERSION =
|
|
98
|
+
|
|
99
|
+
</dt>
|
|
100
|
+
<dd><pre class="code"><span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>0.4.0</span><span class='tstring_end'>"</span></span></pre></dd>
|
|
101
|
+
|
|
102
|
+
</dl>
|
|
103
|
+
|
|
104
|
+
|
|
105
|
+
|
|
106
|
+
|
|
107
|
+
|
|
108
|
+
|
|
109
|
+
|
|
110
|
+
|
|
111
|
+
|
|
112
|
+
<h2>
|
|
113
|
+
Class Method Summary
|
|
114
|
+
<small><a href="#" class="summary_toggle">collapse</a></small>
|
|
115
|
+
</h2>
|
|
116
|
+
|
|
117
|
+
<ul class="summary">
|
|
118
|
+
|
|
119
|
+
<li class="public ">
|
|
120
|
+
<span class="summary_signature">
|
|
121
|
+
|
|
122
|
+
<a href="#cont_neg-class_method" title="cont_neg (class method)">.<strong>cont_neg</strong>(ids:) ⇒ Object </a>
|
|
123
|
+
|
|
124
|
+
|
|
125
|
+
|
|
126
|
+
</span>
|
|
127
|
+
|
|
128
|
+
|
|
129
|
+
|
|
130
|
+
|
|
131
|
+
|
|
132
|
+
|
|
133
|
+
|
|
134
|
+
|
|
135
|
+
|
|
136
|
+
<span class="summary_desc"><div class='inline'>
|
|
137
|
+
<p>Get citation(s) using Crossref content negotation.</p>
|
|
138
|
+
</div></span>
|
|
139
|
+
|
|
140
|
+
</li>
|
|
141
|
+
|
|
142
|
+
|
|
143
|
+
<li class="public ">
|
|
144
|
+
<span class="summary_signature">
|
|
145
|
+
|
|
146
|
+
<a href="#extract-class_method" title="extract (class method)">.<strong>extract</strong>(path:, file: "out.bib", output: "bib") ⇒ Object </a>
|
|
147
|
+
|
|
148
|
+
|
|
149
|
+
|
|
150
|
+
</span>
|
|
151
|
+
|
|
152
|
+
|
|
153
|
+
|
|
154
|
+
|
|
155
|
+
|
|
156
|
+
|
|
157
|
+
|
|
158
|
+
|
|
159
|
+
|
|
160
|
+
<span class="summary_desc"><div class='inline'>
|
|
161
|
+
<p>Extract DOIs from one or more PDFs.</p>
|
|
162
|
+
</div></span>
|
|
163
|
+
|
|
164
|
+
</li>
|
|
165
|
+
|
|
166
|
+
|
|
167
|
+
<li class="public ">
|
|
168
|
+
<span class="summary_signature">
|
|
169
|
+
|
|
170
|
+
<a href="#extract_dois-class_method" title="extract_dois (class method)">.<strong>extract_dois</strong>(path:) ⇒ Object </a>
|
|
171
|
+
|
|
172
|
+
|
|
173
|
+
|
|
174
|
+
</span>
|
|
175
|
+
|
|
176
|
+
|
|
177
|
+
|
|
178
|
+
|
|
179
|
+
|
|
180
|
+
|
|
181
|
+
|
|
182
|
+
|
|
183
|
+
|
|
184
|
+
<span class="summary_desc"><div class='inline'>
|
|
185
|
+
<p>Extract DOIs from one or more PDFs after extracting text.</p>
|
|
186
|
+
</div></span>
|
|
187
|
+
|
|
188
|
+
</li>
|
|
189
|
+
|
|
190
|
+
|
|
191
|
+
<li class="public ">
|
|
192
|
+
<span class="summary_signature">
|
|
193
|
+
|
|
194
|
+
<a href="#extract_from_metadata-class_method" title="extract_from_metadata (class method)">.<strong>extract_from_metadata</strong>(path:) ⇒ Object </a>
|
|
195
|
+
|
|
196
|
+
|
|
197
|
+
|
|
198
|
+
</span>
|
|
199
|
+
|
|
200
|
+
|
|
201
|
+
|
|
202
|
+
|
|
203
|
+
|
|
204
|
+
|
|
205
|
+
|
|
206
|
+
|
|
207
|
+
|
|
208
|
+
<span class="summary_desc"><div class='inline'>
|
|
209
|
+
<p>Try to extract DOIs from one or more PDF metadata sections.</p>
|
|
210
|
+
</div></span>
|
|
211
|
+
|
|
212
|
+
</li>
|
|
213
|
+
|
|
214
|
+
|
|
215
|
+
<li class="public ">
|
|
216
|
+
<span class="summary_signature">
|
|
217
|
+
|
|
218
|
+
<a href="#extract_text-class_method" title="extract_text (class method)">.<strong>extract_text</strong>(path:) ⇒ Object </a>
|
|
219
|
+
|
|
220
|
+
|
|
221
|
+
|
|
222
|
+
</span>
|
|
223
|
+
|
|
224
|
+
|
|
225
|
+
|
|
226
|
+
|
|
227
|
+
|
|
228
|
+
|
|
229
|
+
|
|
230
|
+
|
|
231
|
+
|
|
232
|
+
<span class="summary_desc"><div class='inline'>
|
|
233
|
+
<p>Extract text from a pdf, or many pdfs.</p>
|
|
234
|
+
</div></span>
|
|
235
|
+
|
|
236
|
+
</li>
|
|
237
|
+
|
|
238
|
+
|
|
239
|
+
<li class="public ">
|
|
240
|
+
<span class="summary_signature">
|
|
241
|
+
|
|
242
|
+
<a href="#get_ids-class_method" title="get_ids (class method)">.<strong>get_ids</strong>(txt:) ⇒ Object </a>
|
|
243
|
+
|
|
244
|
+
|
|
245
|
+
|
|
246
|
+
</span>
|
|
247
|
+
|
|
248
|
+
|
|
249
|
+
|
|
250
|
+
|
|
251
|
+
|
|
252
|
+
|
|
253
|
+
|
|
254
|
+
|
|
255
|
+
|
|
256
|
+
<span class="summary_desc"><div class='inline'>
|
|
257
|
+
<p>Get DOIs from a String or Array of String's.</p>
|
|
258
|
+
</div></span>
|
|
259
|
+
|
|
260
|
+
</li>
|
|
261
|
+
|
|
262
|
+
|
|
263
|
+
</ul>
|
|
264
|
+
|
|
265
|
+
|
|
266
|
+
|
|
267
|
+
|
|
268
|
+
<div id="class_method_details" class="method_details_list">
|
|
269
|
+
<h2>Class Method Details</h2>
|
|
270
|
+
|
|
271
|
+
|
|
272
|
+
<div class="method_details first">
|
|
273
|
+
<h3 class="signature first" id="cont_neg-class_method">
|
|
274
|
+
|
|
275
|
+
.<strong>cont_neg</strong>(ids:) ⇒ <tt>Object</tt>
|
|
276
|
+
|
|
277
|
+
|
|
278
|
+
|
|
279
|
+
|
|
280
|
+
|
|
281
|
+
</h3><div class="docstring">
|
|
282
|
+
<div class="discussion">
|
|
283
|
+
|
|
284
|
+
<p>Get citation(s) using Crossref content negotation</p>
|
|
285
|
+
|
|
286
|
+
<p>Return: an string of bib data</p>
|
|
287
|
+
|
|
288
|
+
|
|
289
|
+
</div>
|
|
290
|
+
</div>
|
|
291
|
+
<div class="tags">
|
|
292
|
+
|
|
293
|
+
<div class="examples">
|
|
294
|
+
<p class="tag_title">Examples:</p>
|
|
295
|
+
|
|
296
|
+
|
|
297
|
+
<pre class="example code"><code><span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>extcite</span><span class='tstring_end'>'</span></span>
|
|
298
|
+
<span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_cont_neg'>cont_neg</span><span class='lparen'>(</span><span class='label'>ids:</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>10.1016/j.dendro.2014.01.004</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span></code></pre>
|
|
299
|
+
|
|
300
|
+
</div>
|
|
301
|
+
<p class="tag_title">Parameters:</p>
|
|
302
|
+
<ul class="param">
|
|
303
|
+
|
|
304
|
+
<li>
|
|
305
|
+
|
|
306
|
+
<span class='name'>ids</span>
|
|
307
|
+
|
|
308
|
+
|
|
309
|
+
<span class='type'>(<tt><span class='object_link'><a href="Array.html" title="Array (class)">Array</a></span>[<span class='object_link'><a href="String.html" title="String (class)">String</a></span>]</tt>)</span>
|
|
310
|
+
|
|
311
|
+
|
|
312
|
+
|
|
313
|
+
—
|
|
314
|
+
<div class='inline'>
|
|
315
|
+
<p>One or more DOIs in an array</p>
|
|
316
|
+
</div>
|
|
317
|
+
|
|
318
|
+
</li>
|
|
319
|
+
|
|
320
|
+
</ul>
|
|
321
|
+
|
|
322
|
+
|
|
323
|
+
</div><table class="source_code">
|
|
324
|
+
<tr>
|
|
325
|
+
<td>
|
|
326
|
+
<pre class="lines">
|
|
327
|
+
|
|
328
|
+
|
|
329
|
+
296
|
|
330
|
+
297
|
|
331
|
+
298
|
|
332
|
+
299</pre>
|
|
333
|
+
</td>
|
|
334
|
+
<td>
|
|
335
|
+
<pre class="code"><span class="info file"># File 'lib/extcite.rb', line 296</span>
|
|
336
|
+
|
|
337
|
+
<span class='kw'>def</span> <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_cont_neg'>cont_neg</span><span class='lparen'>(</span><span class='label'>ids:</span><span class='rparen'>)</span>
|
|
338
|
+
<span class='id identifier rubyid_out'>out</span> <span class='op'>=</span> <span class='const'>Serrano</span><span class='period'>.</span><span class='id identifier rubyid_content_negotiation'>content_negotiation</span><span class='lparen'>(</span><span class='label'>ids:</span> <span class='id identifier rubyid_ids'>ids</span><span class='rparen'>)</span>
|
|
339
|
+
<span class='kw'>return</span> <span class='id identifier rubyid_out'>out</span>
|
|
340
|
+
<span class='kw'>end</span></pre>
|
|
341
|
+
</td>
|
|
342
|
+
</tr>
|
|
343
|
+
</table>
|
|
344
|
+
</div>
|
|
345
|
+
|
|
346
|
+
<div class="method_details ">
|
|
347
|
+
<h3 class="signature " id="extract-class_method">
|
|
348
|
+
|
|
349
|
+
.<strong>extract</strong>(path:, file: "out.bib", output: "bib") ⇒ <tt>Object</tt>
|
|
350
|
+
|
|
351
|
+
|
|
352
|
+
|
|
353
|
+
|
|
354
|
+
|
|
355
|
+
</h3><div class="docstring">
|
|
356
|
+
<div class="discussion">
|
|
357
|
+
|
|
358
|
+
<p>Extract DOIs from one or more PDFs</p>
|
|
359
|
+
|
|
360
|
+
<p>Return: writes bib files to a .bib file or an array if file is nil</p>
|
|
361
|
+
|
|
362
|
+
<pre class="code ruby"><code class="ruby">When writing to a file, `extract` by default appends to the end
|
|
363
|
+
of the file so you can build up your bibtex file with your
|
|
364
|
+
citations
|
|
365
|
+
</code></pre>
|
|
366
|
+
|
|
367
|
+
|
|
368
|
+
</div>
|
|
369
|
+
</div>
|
|
370
|
+
<div class="tags">
|
|
371
|
+
|
|
372
|
+
<div class="examples">
|
|
373
|
+
<p class="tag_title">Examples:</p>
|
|
374
|
+
|
|
375
|
+
|
|
376
|
+
<pre class="example code"><code><span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>extcite</span><span class='tstring_end'>'</span></span>
|
|
377
|
+
<span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>faraday</span><span class='tstring_end'>'</span></span><span class='comment'># get a paper in pdf format
|
|
378
|
+
</span>
|
|
379
|
+
<span class='id identifier rubyid_path'>path</span> <span class='op'>=</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>2068.pdf</span><span class='tstring_end'>'</span></span>
|
|
380
|
+
<span class='id identifier rubyid_res'>res</span> <span class='op'>=</span> <span class='const'>Faraday</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='symbol'>:url</span> <span class='op'>=></span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>https://peerj.com/articles/2068.pdf</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_get'>get</span><span class='semicolon'>;</span>
|
|
381
|
+
<span class='id identifier rubyid_f'>f</span> <span class='op'>=</span> <span class='const'>File</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>wb</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span><span class='semicolon'>;</span>
|
|
382
|
+
<span class='id identifier rubyid_f'>f</span><span class='period'>.</span><span class='id identifier rubyid_write'>write</span><span class='lparen'>(</span><span class='id identifier rubyid_res'>res</span><span class='period'>.</span><span class='id identifier rubyid_body'>body</span><span class='rparen'>)</span><span class='semicolon'>;</span>
|
|
383
|
+
<span class='id identifier rubyid_f'>f</span><span class='period'>.</span><span class='id identifier rubyid_close'>close</span><span class='lparen'>(</span><span class='rparen'>)</span><span class='comment'># extract doi from the pdf
|
|
384
|
+
</span>
|
|
385
|
+
<span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_extract'>extract</span><span class='lparen'>(</span><span class='label'>path:</span> <span class='id identifier rubyid_path'>path</span><span class='rparen'>)</span>
|
|
386
|
+
<span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_extract'>extract</span><span class='lparen'>(</span><span class='label'>path:</span> <span class='id identifier rubyid_path'>path</span><span class='comma'>,</span> <span class='label'>file:</span> <span class='kw'>nil</span><span class='rparen'>)</span></code></pre>
|
|
387
|
+
|
|
388
|
+
</div>
|
|
389
|
+
<p class="tag_title">Parameters:</p>
|
|
390
|
+
<ul class="param">
|
|
391
|
+
|
|
392
|
+
<li>
|
|
393
|
+
|
|
394
|
+
<span class='name'>path</span>
|
|
395
|
+
|
|
396
|
+
|
|
397
|
+
<span class='type'>(<tt><span class='object_link'><a href="String.html" title="String (class)">String</a></span></tt>)</span>
|
|
398
|
+
|
|
399
|
+
|
|
400
|
+
|
|
401
|
+
—
|
|
402
|
+
<div class='inline'>
|
|
403
|
+
<p>Path to a pdf file, or a folder of PDF files</p>
|
|
404
|
+
</div>
|
|
405
|
+
|
|
406
|
+
</li>
|
|
407
|
+
|
|
408
|
+
<li>
|
|
409
|
+
|
|
410
|
+
<span class='name'>file</span>
|
|
411
|
+
|
|
412
|
+
|
|
413
|
+
<span class='type'>(<tt><span class='object_link'><a href="String.html" title="String (class)">String</a></span></tt>)</span>
|
|
414
|
+
|
|
415
|
+
|
|
416
|
+
<em class="default">(defaults to: <tt>"out.bib"</tt>)</em>
|
|
417
|
+
|
|
418
|
+
|
|
419
|
+
—
|
|
420
|
+
<div class='inline'>
|
|
421
|
+
<p>File name to write data to - or nil to stdout</p>
|
|
422
|
+
</div>
|
|
423
|
+
|
|
424
|
+
</li>
|
|
425
|
+
|
|
426
|
+
<li>
|
|
427
|
+
|
|
428
|
+
<span class='name'>output</span>
|
|
429
|
+
|
|
430
|
+
|
|
431
|
+
<span class='type'>(<tt><span class='object_link'><a href="String.html" title="String (class)">String</a></span></tt>)</span>
|
|
432
|
+
|
|
433
|
+
|
|
434
|
+
<em class="default">(defaults to: <tt>"bib"</tt>)</em>
|
|
435
|
+
|
|
436
|
+
|
|
437
|
+
—
|
|
438
|
+
<div class='inline'>
|
|
439
|
+
<p>Typeo of output. only bibtex for now</p>
|
|
440
|
+
</div>
|
|
441
|
+
|
|
442
|
+
</li>
|
|
443
|
+
|
|
444
|
+
</ul>
|
|
445
|
+
|
|
446
|
+
|
|
447
|
+
</div><table class="source_code">
|
|
448
|
+
<tr>
|
|
449
|
+
<td>
|
|
450
|
+
<pre class="lines">
|
|
451
|
+
|
|
452
|
+
|
|
453
|
+
38
|
|
454
|
+
39
|
|
455
|
+
40
|
|
456
|
+
41
|
|
457
|
+
42
|
|
458
|
+
43
|
|
459
|
+
44
|
|
460
|
+
45
|
|
461
|
+
46
|
|
462
|
+
47
|
|
463
|
+
48
|
|
464
|
+
49
|
|
465
|
+
50
|
|
466
|
+
51
|
|
467
|
+
52
|
|
468
|
+
53
|
|
469
|
+
54
|
|
470
|
+
55
|
|
471
|
+
56
|
|
472
|
+
57
|
|
473
|
+
58
|
|
474
|
+
59
|
|
475
|
+
60
|
|
476
|
+
61
|
|
477
|
+
62
|
|
478
|
+
63
|
|
479
|
+
64
|
|
480
|
+
65
|
|
481
|
+
66
|
|
482
|
+
67
|
|
483
|
+
68
|
|
484
|
+
69
|
|
485
|
+
70
|
|
486
|
+
71
|
|
487
|
+
72
|
|
488
|
+
73
|
|
489
|
+
74
|
|
490
|
+
75
|
|
491
|
+
76
|
|
492
|
+
77
|
|
493
|
+
78
|
|
494
|
+
79
|
|
495
|
+
80
|
|
496
|
+
81
|
|
497
|
+
82
|
|
498
|
+
83
|
|
499
|
+
84
|
|
500
|
+
85
|
|
501
|
+
86
|
|
502
|
+
87
|
|
503
|
+
88
|
|
504
|
+
89
|
|
505
|
+
90
|
|
506
|
+
91
|
|
507
|
+
92
|
|
508
|
+
93
|
|
509
|
+
94
|
|
510
|
+
95
|
|
511
|
+
96
|
|
512
|
+
97
|
|
513
|
+
98
|
|
514
|
+
99
|
|
515
|
+
100
|
|
516
|
+
101
|
|
517
|
+
102
|
|
518
|
+
103
|
|
519
|
+
104
|
|
520
|
+
105
|
|
521
|
+
106
|
|
522
|
+
107
|
|
523
|
+
108
|
|
524
|
+
109
|
|
525
|
+
110
|
|
526
|
+
111
|
|
527
|
+
112
|
|
528
|
+
113
|
|
529
|
+
114
|
|
530
|
+
115
|
|
531
|
+
116
|
|
532
|
+
117</pre>
|
|
533
|
+
</td>
|
|
534
|
+
<td>
|
|
535
|
+
<pre class="code"><span class="info file"># File 'lib/extcite.rb', line 38</span>
|
|
536
|
+
|
|
537
|
+
<span class='kw'>def</span> <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_extract'>extract</span><span class='lparen'>(</span><span class='label'>path:</span><span class='comma'>,</span> <span class='label'>file:</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>out.bib</span><span class='tstring_end'>"</span></span><span class='comma'>,</span> <span class='label'>output:</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>bib</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span>
|
|
538
|
+
<span class='id identifier rubyid_path'>path</span> <span class='op'>=</span> <span class='id identifier rubyid_make_paths'><span class='object_link'><a href="top-level-namespace.html#make_paths-instance_method" title="#make_paths (method)">make_paths</a></span></span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='rparen'>)</span>
|
|
539
|
+
<span class='id identifier rubyid_path'>path</span><span class='period'>.</span><span class='id identifier rubyid_each'>each</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_x'>x</span><span class='op'>|</span>
|
|
540
|
+
<span class='comment'># try PDF metadata first
|
|
541
|
+
</span> <span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
542
|
+
<span class='id identifier rubyid_rr'>rr</span> <span class='op'>=</span> <span class='const'>PDF</span><span class='op'>::</span><span class='const'>Reader</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='id identifier rubyid_x'>x</span><span class='rparen'>)</span><span class='semicolon'>;</span>
|
|
543
|
+
<span class='id identifier rubyid_pdfmeta'>pdfmeta</span> <span class='op'>=</span> <span class='id identifier rubyid_rr'>rr</span><span class='period'>.</span><span class='id identifier rubyid_metadata'>metadata</span>
|
|
544
|
+
<span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_pdfmeta'>pdfmeta</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
545
|
+
<span class='id identifier rubyid_xml'>xml</span> <span class='op'>=</span> <span class='const'>Oga</span><span class='period'>.</span><span class='id identifier rubyid_parse_xml'>parse_xml</span><span class='lparen'>(</span><span class='id identifier rubyid_pdfmeta'>pdfmeta</span><span class='rparen'>)</span><span class='semicolon'>;</span>
|
|
546
|
+
<span class='kw'>begin</span>
|
|
547
|
+
<span class='id identifier rubyid_tt'>tt</span> <span class='op'>=</span> <span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_xpath'>xpath</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>//rdf:Description</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span> <span class='comment'># try dc:identifier attribute
|
|
548
|
+
</span>
|
|
549
|
+
<span class='id identifier rubyid_ss'>ss</span> <span class='op'>=</span> <span class='id identifier rubyid_tt'>tt</span><span class='period'>.</span><span class='id identifier rubyid_attr'>attr</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>dc:identifier</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span><span class='lbracket'>[</span><span class='int'>0</span><span class='rbracket'>]</span>
|
|
550
|
+
<span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_ss'>ss</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
551
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='id identifier rubyid_ss'>ss</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span><span class='period'>.</span><span class='id identifier rubyid_sub'>sub</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>doi:</span><span class='regexp_end'>/</span></span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
552
|
+
<span class='kw'>else</span>
|
|
553
|
+
<span class='comment'># try prism:doi node
|
|
554
|
+
</span> <span class='id identifier rubyid_pdoi'>pdoi</span> <span class='op'>=</span> <span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_xpath'>xpath</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>//rdf:Description//prism:doi</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
555
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_pdoi'>pdoi</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'>==</span> <span class='int'>1</span>
|
|
556
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='id identifier rubyid_pdoi'>pdoi</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span>
|
|
557
|
+
<span class='kw'>else</span>
|
|
558
|
+
<span class='comment'># try pdf:WPS-ARTICLEDOI node
|
|
559
|
+
</span> <span class='id identifier rubyid_wpsdoi'>wpsdoi</span> <span class='op'>=</span> <span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_xpath'>xpath</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>//rdf:Description//pdf:WPS-ARTICLEDOI</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
560
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_wpsdoi'>wpsdoi</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'>==</span> <span class='int'>1</span>
|
|
561
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='id identifier rubyid_wpsdoi'>wpsdoi</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span>
|
|
562
|
+
<span class='kw'>else</span>
|
|
563
|
+
<span class='comment'># try pdfx:WPS-ARTICLEDOI node
|
|
564
|
+
</span> <span class='id identifier rubyid_pdfxwpsdoi'>pdfxwpsdoi</span> <span class='op'>=</span> <span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_xpath'>xpath</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>//rdf:Description//pdfx:WPS-ARTICLEDOI</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
565
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_pdfxwpsdoi'>pdfxwpsdoi</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'>==</span> <span class='int'>1</span>
|
|
566
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='id identifier rubyid_pdfxwpsdoi'>pdfxwpsdoi</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span>
|
|
567
|
+
<span class='kw'>else</span>
|
|
568
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
569
|
+
<span class='kw'>end</span>
|
|
570
|
+
<span class='kw'>end</span>
|
|
571
|
+
<span class='kw'>end</span>
|
|
572
|
+
<span class='kw'>end</span>
|
|
573
|
+
<span class='kw'>rescue</span>
|
|
574
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
575
|
+
<span class='kw'>end</span>
|
|
576
|
+
<span class='kw'>end</span>
|
|
577
|
+
|
|
578
|
+
<span class='comment'># if not found, try regexing for DOI
|
|
579
|
+
</span> <span class='kw'>if</span> <span class='id identifier rubyid_ids'>ids</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
580
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_get_ids'><span class='object_link'><a href="#get_ids-class_method" title="Extcite.get_ids (method)">get_ids</a></span></span><span class='lparen'>(</span><span class='label'>txt:</span> <span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_extract_text_one'>extract_text_one</span><span class='lparen'>(</span><span class='id identifier rubyid_x'>x</span><span class='rparen'>)</span><span class='rparen'>)</span>
|
|
581
|
+
<span class='kw'>end</span>
|
|
582
|
+
|
|
583
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_ids'>ids</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'>==</span> <span class='int'>0</span>
|
|
584
|
+
<span class='id identifier rubyid_puts'>puts</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>no DOI found in </span><span class='tstring_end'>"</span></span> <span class='op'>+</span> <span class='id identifier rubyid_x'>x</span>
|
|
585
|
+
<span class='kw'>else</span>
|
|
586
|
+
<span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_ids'>ids</span><span class='period'>.</span><span class='id identifier rubyid_match'>match</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>arxiv</span><span class='regexp_end'>/i</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span> <span class='op'>&&</span> <span class='id identifier rubyid_ids'>ids</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'><</span> <span class='int'>200</span>
|
|
587
|
+
<span class='id identifier rubyid_conn'>conn</span> <span class='op'>=</span> <span class='const'>Faraday</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='symbol'>:url</span> <span class='op'>=></span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>http://export.arxiv.org/api/query?id_list=</span><span class='tstring_end'>'</span></span> <span class='op'>+</span> <span class='id identifier rubyid_ids'>ids</span><span class='period'>.</span><span class='id identifier rubyid_gsub'>gsub</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>arxiv:</span><span class='regexp_end'>/i</span></span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_get'>get</span>
|
|
588
|
+
<span class='id identifier rubyid_bibs'>bibs</span> <span class='op'>=</span> <span class='id identifier rubyid_conn'>conn</span><span class='period'>.</span><span class='id identifier rubyid_body'>body</span><span class='period'>.</span><span class='id identifier rubyid_make_bib_arxiv'>make_bib_arxiv</span><span class='lparen'>(</span><span class='id identifier rubyid_ids'>ids</span><span class='period'>.</span><span class='id identifier rubyid_gsub'>gsub</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>arxiv:</span><span class='regexp_end'>/i</span></span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span><span class='rparen'>)</span>
|
|
589
|
+
<span class='kw'>else</span>
|
|
590
|
+
<span class='id identifier rubyid_bibs'>bibs</span> <span class='op'>=</span> <span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_cont_neg'><span class='object_link'><a href="#cont_neg-class_method" title="Extcite.cont_neg (method)">cont_neg</a></span></span><span class='lparen'>(</span><span class='label'>ids:</span> <span class='id identifier rubyid_ids'>ids</span><span class='rparen'>)</span>
|
|
591
|
+
<span class='kw'>end</span>
|
|
592
|
+
|
|
593
|
+
<span class='comment'># if an error or not found, skip
|
|
594
|
+
</span> <span class='id identifier rubyid_bibstest'>bibstest</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
595
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_bibs'>bibs</span><span class='period'>.</span><span class='id identifier rubyid_class'>class</span> <span class='op'>==</span> <span class='const'><span class='object_link'><a href="Array.html" title="Array (class)">Array</a></span></span>
|
|
596
|
+
<span class='id identifier rubyid_bibstest'>bibstest</span> <span class='op'>=</span> <span class='id identifier rubyid_bibs'>bibs</span><span class='lbracket'>[</span><span class='int'>0</span><span class='rbracket'>]</span>
|
|
597
|
+
<span class='kw'>else</span>
|
|
598
|
+
<span class='id identifier rubyid_bibstest'>bibstest</span> <span class='op'>=</span> <span class='id identifier rubyid_bibs'>bibs</span>
|
|
599
|
+
<span class='kw'>end</span>
|
|
600
|
+
|
|
601
|
+
<span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_bibstest'>bibstest</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
602
|
+
<span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_bibstest'>bibstest</span><span class='period'>.</span><span class='id identifier rubyid_match'>match</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>error|not found</span><span class='regexp_end'>/i</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span> <span class='op'>||</span> <span class='op'>!</span><span class='id identifier rubyid_bibstest'>bibstest</span><span class='period'>.</span><span class='id identifier rubyid_match'>match</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'><\/html></span><span class='regexp_end'>/i</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
603
|
+
<span class='id identifier rubyid_puts'>puts</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>DOI found: </span><span class='tstring_end'>"</span></span> <span class='op'>+</span> <span class='id identifier rubyid_ids'>ids</span> <span class='op'>+</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'> ; but citation not found via content negotation - passing</span><span class='tstring_end'>"</span></span> <span class='comment'># do something else?
|
|
604
|
+
</span>
|
|
605
|
+
<span class='kw'>else</span>
|
|
606
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_file'>file</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
607
|
+
<span class='kw'>return</span> <span class='id identifier rubyid_bibstest'>bibstest</span>
|
|
608
|
+
<span class='kw'>else</span>
|
|
609
|
+
<span class='id identifier rubyid_puts'>puts</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>writing </span><span class='tstring_end'>"</span></span> <span class='op'>+</span> <span class='id identifier rubyid_ids'>ids</span> <span class='op'>+</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'> to </span><span class='tstring_end'>"</span></span> <span class='op'>+</span> <span class='id identifier rubyid_file'>file</span>
|
|
610
|
+
<span class='id identifier rubyid_bibs'>bibs</span><span class='period'>.</span><span class='id identifier rubyid_write_bib'>write_bib</span><span class='lparen'>(</span><span class='id identifier rubyid_file'>file</span><span class='rparen'>)</span>
|
|
611
|
+
<span class='kw'>end</span>
|
|
612
|
+
<span class='kw'>end</span>
|
|
613
|
+
<span class='kw'>end</span>
|
|
614
|
+
<span class='kw'>end</span>
|
|
615
|
+
<span class='kw'>end</span>
|
|
616
|
+
<span class='kw'>end</span></pre>
|
|
617
|
+
</td>
|
|
618
|
+
</tr>
|
|
619
|
+
</table>
|
|
620
|
+
</div>
|
|
621
|
+
|
|
622
|
+
<div class="method_details ">
|
|
623
|
+
<h3 class="signature " id="extract_dois-class_method">
|
|
624
|
+
|
|
625
|
+
.<strong>extract_dois</strong>(path:) ⇒ <tt>Object</tt>
|
|
626
|
+
|
|
627
|
+
|
|
628
|
+
|
|
629
|
+
|
|
630
|
+
|
|
631
|
+
</h3><div class="docstring">
|
|
632
|
+
<div class="discussion">
|
|
633
|
+
|
|
634
|
+
<p>Extract DOIs from one or more PDFs after extracting text</p>
|
|
635
|
+
|
|
636
|
+
|
|
637
|
+
</div>
|
|
638
|
+
</div>
|
|
639
|
+
<div class="tags">
|
|
640
|
+
|
|
641
|
+
<div class="examples">
|
|
642
|
+
<p class="tag_title">Examples:</p>
|
|
643
|
+
|
|
644
|
+
|
|
645
|
+
<pre class="example code"><code><span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>extcite</span><span class='tstring_end'>'</span></span>
|
|
646
|
+
<span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>faraday</span><span class='tstring_end'>'</span></span><span class='comment'># get a paper in pdf format
|
|
647
|
+
</span>
|
|
648
|
+
<span class='id identifier rubyid_path'>path</span> <span class='op'>=</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>2068.pdf</span><span class='tstring_end'>'</span></span>
|
|
649
|
+
<span class='id identifier rubyid_res'>res</span> <span class='op'>=</span> <span class='const'>Faraday</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='symbol'>:url</span> <span class='op'>=></span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>https://peerj.com/articles/2068.pdf</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_get'>get</span>
|
|
650
|
+
<span class='id identifier rubyid_f'>f</span> <span class='op'>=</span> <span class='const'>File</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>wb</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span>
|
|
651
|
+
<span class='id identifier rubyid_f'>f</span><span class='period'>.</span><span class='id identifier rubyid_write'>write</span><span class='lparen'>(</span><span class='id identifier rubyid_res'>res</span><span class='period'>.</span><span class='id identifier rubyid_body'>body</span><span class='rparen'>)</span>
|
|
652
|
+
<span class='id identifier rubyid_f'>f</span><span class='period'>.</span><span class='id identifier rubyid_close'>close</span><span class='lparen'>(</span><span class='rparen'>)</span><span class='comment'># extract doi from the pdf
|
|
653
|
+
</span>
|
|
654
|
+
<span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_extract_dois'>extract_dois</span><span class='lparen'>(</span><span class='label'>path:</span> <span class='id identifier rubyid_path'>path</span><span class='rparen'>)</span></code></pre>
|
|
655
|
+
|
|
656
|
+
</div>
|
|
657
|
+
<p class="tag_title">Parameters:</p>
|
|
658
|
+
<ul class="param">
|
|
659
|
+
|
|
660
|
+
<li>
|
|
661
|
+
|
|
662
|
+
<span class='name'>path</span>
|
|
663
|
+
|
|
664
|
+
|
|
665
|
+
<span class='type'>(<tt><span class='object_link'><a href="String.html" title="String (class)">String</a></span></tt>)</span>
|
|
666
|
+
|
|
667
|
+
|
|
668
|
+
|
|
669
|
+
—
|
|
670
|
+
<div class='inline'>
|
|
671
|
+
<p>Path to a pdf file, or a folder of PDF files</p>
|
|
672
|
+
</div>
|
|
673
|
+
|
|
674
|
+
</li>
|
|
675
|
+
|
|
676
|
+
</ul>
|
|
677
|
+
|
|
678
|
+
|
|
679
|
+
</div><table class="source_code">
|
|
680
|
+
<tr>
|
|
681
|
+
<td>
|
|
682
|
+
<pre class="lines">
|
|
683
|
+
|
|
684
|
+
|
|
685
|
+
210
|
|
686
|
+
211
|
|
687
|
+
212
|
|
688
|
+
213
|
|
689
|
+
214</pre>
|
|
690
|
+
</td>
|
|
691
|
+
<td>
|
|
692
|
+
<pre class="code"><span class="info file"># File 'lib/extcite.rb', line 210</span>
|
|
693
|
+
|
|
694
|
+
<span class='kw'>def</span> <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_extract_dois'>extract_dois</span><span class='lparen'>(</span><span class='label'>path:</span><span class='rparen'>)</span>
|
|
695
|
+
<span class='id identifier rubyid_txt'>txt</span> <span class='op'>=</span> <span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_extract_text'><span class='object_link'><a href="#extract_text-class_method" title="Extcite.extract_text (method)">extract_text</a></span></span><span class='lparen'>(</span><span class='label'>path:</span> <span class='id identifier rubyid_path'>path</span><span class='rparen'>)</span> <span class='comment'># return txt.map { |z| z.match("[0-9]+\\.[0-9]+/.+").to_s.gsub(/\s.+/, '') }
|
|
696
|
+
</span>
|
|
697
|
+
<span class='kw'>return</span> <span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_get_ids'><span class='object_link'><a href="#get_ids-class_method" title="Extcite.get_ids (method)">get_ids</a></span></span><span class='lparen'>(</span><span class='label'>txt:</span> <span class='id identifier rubyid_txt'>txt</span><span class='rparen'>)</span>
|
|
698
|
+
<span class='kw'>end</span></pre>
|
|
699
|
+
</td>
|
|
700
|
+
</tr>
|
|
701
|
+
</table>
|
|
702
|
+
</div>
|
|
703
|
+
|
|
704
|
+
<div class="method_details ">
|
|
705
|
+
<h3 class="signature " id="extract_from_metadata-class_method">
|
|
706
|
+
|
|
707
|
+
.<strong>extract_from_metadata</strong>(path:) ⇒ <tt>Object</tt>
|
|
708
|
+
|
|
709
|
+
|
|
710
|
+
|
|
711
|
+
|
|
712
|
+
|
|
713
|
+
</h3><div class="docstring">
|
|
714
|
+
<div class="discussion">
|
|
715
|
+
|
|
716
|
+
<p>Try to extract DOIs from one or more PDF metadata sections</p>
|
|
717
|
+
|
|
718
|
+
<p>Return: DOI string</p>
|
|
719
|
+
|
|
720
|
+
|
|
721
|
+
</div>
|
|
722
|
+
</div>
|
|
723
|
+
<div class="tags">
|
|
724
|
+
|
|
725
|
+
<div class="examples">
|
|
726
|
+
<p class="tag_title">Examples:</p>
|
|
727
|
+
|
|
728
|
+
|
|
729
|
+
<pre class="example code"><code><span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>extcite</span><span class='tstring_end'>'</span></span>
|
|
730
|
+
<span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>faraday</span><span class='tstring_end'>'</span></span><span class='comment'># get a paper in pdf format
|
|
731
|
+
</span>
|
|
732
|
+
<span class='id identifier rubyid_path'>path</span> <span class='op'>=</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>2068.pdf</span><span class='tstring_end'>'</span></span>
|
|
733
|
+
<span class='id identifier rubyid_res'>res</span> <span class='op'>=</span> <span class='const'>Faraday</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='symbol'>:url</span> <span class='op'>=></span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>https://peerj.com/articles/2068.pdf</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_get'>get</span><span class='semicolon'>;</span>
|
|
734
|
+
<span class='id identifier rubyid_f'>f</span> <span class='op'>=</span> <span class='const'>File</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>wb</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span><span class='semicolon'>;</span>
|
|
735
|
+
<span class='id identifier rubyid_f'>f</span><span class='period'>.</span><span class='id identifier rubyid_write'>write</span><span class='lparen'>(</span><span class='id identifier rubyid_res'>res</span><span class='period'>.</span><span class='id identifier rubyid_body'>body</span><span class='rparen'>)</span>
|
|
736
|
+
<span class='id identifier rubyid_f'>f</span><span class='period'>.</span><span class='id identifier rubyid_close'>close</span><span class='lparen'>(</span><span class='rparen'>)</span><span class='comment'># extract doi from the pdf
|
|
737
|
+
</span>
|
|
738
|
+
<span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_extract_from_metadata'>extract_from_metadata</span><span class='lparen'>(</span><span class='label'>path:</span> <span class='id identifier rubyid_path'>path</span><span class='rparen'>)</span></code></pre>
|
|
739
|
+
|
|
740
|
+
</div>
|
|
741
|
+
<p class="tag_title">Parameters:</p>
|
|
742
|
+
<ul class="param">
|
|
743
|
+
|
|
744
|
+
<li>
|
|
745
|
+
|
|
746
|
+
<span class='name'>path</span>
|
|
747
|
+
|
|
748
|
+
|
|
749
|
+
<span class='type'>(<tt><span class='object_link'><a href="String.html" title="String (class)">String</a></span></tt>)</span>
|
|
750
|
+
|
|
751
|
+
|
|
752
|
+
|
|
753
|
+
—
|
|
754
|
+
<div class='inline'>
|
|
755
|
+
<p>Path to a pdf file, or a folder of PDF files</p>
|
|
756
|
+
</div>
|
|
757
|
+
|
|
758
|
+
</li>
|
|
759
|
+
|
|
760
|
+
</ul>
|
|
761
|
+
|
|
762
|
+
|
|
763
|
+
</div><table class="source_code">
|
|
764
|
+
<tr>
|
|
765
|
+
<td>
|
|
766
|
+
<pre class="lines">
|
|
767
|
+
|
|
768
|
+
|
|
769
|
+
137
|
|
770
|
+
138
|
|
771
|
+
139
|
|
772
|
+
140
|
|
773
|
+
141
|
|
774
|
+
142
|
|
775
|
+
143
|
|
776
|
+
144
|
|
777
|
+
145
|
|
778
|
+
146
|
|
779
|
+
147
|
|
780
|
+
148
|
|
781
|
+
149
|
|
782
|
+
150
|
|
783
|
+
151
|
|
784
|
+
152
|
|
785
|
+
153
|
|
786
|
+
154
|
|
787
|
+
155
|
|
788
|
+
156
|
|
789
|
+
157
|
|
790
|
+
158
|
|
791
|
+
159
|
|
792
|
+
160
|
|
793
|
+
161
|
|
794
|
+
162
|
|
795
|
+
163
|
|
796
|
+
164
|
|
797
|
+
165
|
|
798
|
+
166
|
|
799
|
+
167
|
|
800
|
+
168
|
|
801
|
+
169
|
|
802
|
+
170
|
|
803
|
+
171
|
|
804
|
+
172
|
|
805
|
+
173
|
|
806
|
+
174
|
|
807
|
+
175
|
|
808
|
+
176
|
|
809
|
+
177
|
|
810
|
+
178
|
|
811
|
+
179
|
|
812
|
+
180
|
|
813
|
+
181
|
|
814
|
+
182
|
|
815
|
+
183
|
|
816
|
+
184
|
|
817
|
+
185
|
|
818
|
+
186
|
|
819
|
+
187
|
|
820
|
+
188
|
|
821
|
+
189
|
|
822
|
+
190
|
|
823
|
+
191
|
|
824
|
+
192</pre>
|
|
825
|
+
</td>
|
|
826
|
+
<td>
|
|
827
|
+
<pre class="code"><span class="info file"># File 'lib/extcite.rb', line 137</span>
|
|
828
|
+
|
|
829
|
+
<span class='kw'>def</span> <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_extract_from_metadata'>extract_from_metadata</span><span class='lparen'>(</span><span class='label'>path:</span><span class='rparen'>)</span>
|
|
830
|
+
<span class='id identifier rubyid_path'>path</span> <span class='op'>=</span> <span class='id identifier rubyid_make_paths'><span class='object_link'><a href="top-level-namespace.html#make_paths-instance_method" title="#make_paths (method)">make_paths</a></span></span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='rparen'>)</span>
|
|
831
|
+
<span class='id identifier rubyid_path'>path</span><span class='period'>.</span><span class='id identifier rubyid_each'>each</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_x'>x</span><span class='op'>|</span>
|
|
832
|
+
<span class='comment'># try PDF metadata first
|
|
833
|
+
</span> <span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
834
|
+
<span class='id identifier rubyid_rr'>rr</span> <span class='op'>=</span> <span class='const'>PDF</span><span class='op'>::</span><span class='const'>Reader</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='id identifier rubyid_x'>x</span><span class='rparen'>)</span>
|
|
835
|
+
<span class='id identifier rubyid_pdfmeta'>pdfmeta</span> <span class='op'>=</span> <span class='id identifier rubyid_rr'>rr</span><span class='period'>.</span><span class='id identifier rubyid_metadata'>metadata</span>
|
|
836
|
+
<span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_pdfmeta'>pdfmeta</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
837
|
+
<span class='kw'>begin</span>
|
|
838
|
+
<span class='id identifier rubyid_xml'>xml</span> <span class='op'>=</span> <span class='const'>Oga</span><span class='period'>.</span><span class='id identifier rubyid_parse_xml'>parse_xml</span><span class='lparen'>(</span><span class='id identifier rubyid_pdfmeta'>pdfmeta</span><span class='rparen'>)</span><span class='semicolon'>;</span>
|
|
839
|
+
<span class='kw'>rescue</span> <span class='const'>Exception</span> <span class='op'>=></span> <span class='id identifier rubyid_e'>e</span>
|
|
840
|
+
<span class='id identifier rubyid_xml'>xml</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
841
|
+
<span class='kw'>end</span>
|
|
842
|
+
|
|
843
|
+
<span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
844
|
+
<span class='kw'>begin</span>
|
|
845
|
+
<span class='id identifier rubyid_tt'>tt</span> <span class='op'>=</span> <span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_xpath'>xpath</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>//rdf:Description</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span> <span class='comment'># try dc:identifier attribute
|
|
846
|
+
</span>
|
|
847
|
+
<span class='id identifier rubyid_ss'>ss</span> <span class='op'>=</span> <span class='id identifier rubyid_tt'>tt</span><span class='period'>.</span><span class='id identifier rubyid_attr'>attr</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>dc:identifier</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span><span class='lbracket'>[</span><span class='int'>0</span><span class='rbracket'>]</span>
|
|
848
|
+
<span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_ss'>ss</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
849
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='id identifier rubyid_ss'>ss</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span><span class='period'>.</span><span class='id identifier rubyid_sub'>sub</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>doi:</span><span class='regexp_end'>/</span></span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
850
|
+
<span class='kw'>else</span>
|
|
851
|
+
<span class='comment'># try prism:doi node
|
|
852
|
+
</span> <span class='id identifier rubyid_pdoi'>pdoi</span> <span class='op'>=</span> <span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_xpath'>xpath</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>//rdf:Description//prism:doi</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
853
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_pdoi'>pdoi</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'>==</span> <span class='int'>1</span>
|
|
854
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='id identifier rubyid_pdoi'>pdoi</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span>
|
|
855
|
+
<span class='kw'>else</span>
|
|
856
|
+
<span class='comment'># try pdf:WPS-ARTICLEDOI node
|
|
857
|
+
</span> <span class='id identifier rubyid_wpsdoi'>wpsdoi</span> <span class='op'>=</span> <span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_xpath'>xpath</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>//rdf:Description//pdf:WPS-ARTICLEDOI</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
858
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_wpsdoi'>wpsdoi</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'>==</span> <span class='int'>1</span>
|
|
859
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='id identifier rubyid_wpsdoi'>wpsdoi</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span>
|
|
860
|
+
<span class='kw'>else</span>
|
|
861
|
+
<span class='comment'># try pdfx:WPS-ARTICLEDOI node
|
|
862
|
+
</span> <span class='id identifier rubyid_pdfxwpsdoi'>pdfxwpsdoi</span> <span class='op'>=</span> <span class='id identifier rubyid_xml'>xml</span><span class='period'>.</span><span class='id identifier rubyid_xpath'>xpath</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>//rdf:Description//pdfx:WPS-ARTICLEDOI</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
863
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_pdfxwpsdoi'>pdfxwpsdoi</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'>==</span> <span class='int'>1</span>
|
|
864
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='id identifier rubyid_pdfxwpsdoi'>pdfxwpsdoi</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span>
|
|
865
|
+
<span class='kw'>else</span>
|
|
866
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
867
|
+
<span class='kw'>end</span>
|
|
868
|
+
<span class='kw'>end</span>
|
|
869
|
+
<span class='kw'>end</span>
|
|
870
|
+
<span class='kw'>end</span>
|
|
871
|
+
<span class='kw'>rescue</span>
|
|
872
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
873
|
+
<span class='kw'>end</span>
|
|
874
|
+
<span class='kw'>end</span>
|
|
875
|
+
<span class='kw'>end</span>
|
|
876
|
+
|
|
877
|
+
<span class='comment'># if not found, try regexing for DOI
|
|
878
|
+
</span> <span class='kw'>if</span> <span class='id identifier rubyid_ids'>ids</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
879
|
+
<span class='id identifier rubyid_ids'>ids</span> <span class='op'>=</span> <span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_get_ids'><span class='object_link'><a href="#get_ids-class_method" title="Extcite.get_ids (method)">get_ids</a></span></span><span class='lparen'>(</span><span class='label'>txt:</span> <span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_extract_text_one'>extract_text_one</span><span class='lparen'>(</span><span class='id identifier rubyid_x'>x</span><span class='rparen'>)</span><span class='rparen'>)</span>
|
|
880
|
+
<span class='kw'>end</span>
|
|
881
|
+
|
|
882
|
+
<span class='kw'>return</span> <span class='id identifier rubyid_ids'>ids</span>
|
|
883
|
+
<span class='kw'>end</span>
|
|
884
|
+
<span class='kw'>end</span></pre>
|
|
885
|
+
</td>
|
|
886
|
+
</tr>
|
|
887
|
+
</table>
|
|
888
|
+
</div>
|
|
889
|
+
|
|
890
|
+
<div class="method_details ">
|
|
891
|
+
<h3 class="signature " id="extract_text-class_method">
|
|
892
|
+
|
|
893
|
+
.<strong>extract_text</strong>(path:) ⇒ <tt>Object</tt>
|
|
894
|
+
|
|
895
|
+
|
|
896
|
+
|
|
897
|
+
|
|
898
|
+
|
|
899
|
+
</h3><div class="docstring">
|
|
900
|
+
<div class="discussion">
|
|
901
|
+
|
|
902
|
+
<p>Extract text from a pdf, or many pdfs</p>
|
|
903
|
+
|
|
904
|
+
<p>This method is used internally within fetch to parse PDFs.</p>
|
|
905
|
+
|
|
906
|
+
|
|
907
|
+
</div>
|
|
908
|
+
</div>
|
|
909
|
+
<div class="tags">
|
|
910
|
+
|
|
911
|
+
<div class="examples">
|
|
912
|
+
<p class="tag_title">Examples:</p>
|
|
913
|
+
|
|
914
|
+
|
|
915
|
+
<pre class="example code"><code><span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>extcite</span><span class='tstring_end'>'</span></span>
|
|
916
|
+
<span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>faraday</span><span class='tstring_end'>'</span></span><span class='comment'># get a paper in pdf format
|
|
917
|
+
</span>
|
|
918
|
+
<span class='id identifier rubyid_path'>path</span> <span class='op'>=</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>2068.pdf</span><span class='tstring_end'>'</span></span>
|
|
919
|
+
<span class='id identifier rubyid_res'>res</span> <span class='op'>=</span> <span class='const'>Faraday</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='symbol'>:url</span> <span class='op'>=></span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>https://peerj.com/articles/2068.pdf</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_get'>get</span>
|
|
920
|
+
<span class='id identifier rubyid_f'>f</span> <span class='op'>=</span> <span class='const'>File</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>wb</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span>
|
|
921
|
+
<span class='id identifier rubyid_f'>f</span><span class='period'>.</span><span class='id identifier rubyid_write'>write</span><span class='lparen'>(</span><span class='id identifier rubyid_res'>res</span><span class='period'>.</span><span class='id identifier rubyid_body'>body</span><span class='rparen'>)</span>
|
|
922
|
+
<span class='id identifier rubyid_f'>f</span><span class='period'>.</span><span class='id identifier rubyid_close'>close</span><span class='lparen'>(</span><span class='rparen'>)</span><span class='comment'># extract doi from the pdf
|
|
923
|
+
</span>
|
|
924
|
+
<span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_extract_text'>extract_text</span><span class='lparen'>(</span><span class='label'>path:</span> <span class='id identifier rubyid_path'>path</span><span class='rparen'>)</span></code></pre>
|
|
925
|
+
|
|
926
|
+
</div>
|
|
927
|
+
<p class="tag_title">Parameters:</p>
|
|
928
|
+
<ul class="param">
|
|
929
|
+
|
|
930
|
+
<li>
|
|
931
|
+
|
|
932
|
+
<span class='name'>path</span>
|
|
933
|
+
|
|
934
|
+
|
|
935
|
+
<span class='type'>(<tt><span class='object_link'><a href="String.html" title="String (class)">String</a></span></tt>)</span>
|
|
936
|
+
|
|
937
|
+
|
|
938
|
+
|
|
939
|
+
—
|
|
940
|
+
<div class='inline'>
|
|
941
|
+
<p>Path to a pdf file, or a folder of PDF files</p>
|
|
942
|
+
</div>
|
|
943
|
+
|
|
944
|
+
</li>
|
|
945
|
+
|
|
946
|
+
</ul>
|
|
947
|
+
|
|
948
|
+
|
|
949
|
+
</div><table class="source_code">
|
|
950
|
+
<tr>
|
|
951
|
+
<td>
|
|
952
|
+
<pre class="lines">
|
|
953
|
+
|
|
954
|
+
|
|
955
|
+
263
|
|
956
|
+
264
|
|
957
|
+
265
|
|
958
|
+
266
|
|
959
|
+
267
|
|
960
|
+
268
|
|
961
|
+
269
|
|
962
|
+
270
|
|
963
|
+
271
|
|
964
|
+
272
|
|
965
|
+
273
|
|
966
|
+
274
|
|
967
|
+
275
|
|
968
|
+
276
|
|
969
|
+
277
|
|
970
|
+
278
|
|
971
|
+
279
|
|
972
|
+
280
|
|
973
|
+
281
|
|
974
|
+
282
|
|
975
|
+
283
|
|
976
|
+
284</pre>
|
|
977
|
+
</td>
|
|
978
|
+
<td>
|
|
979
|
+
<pre class="code"><span class="info file"># File 'lib/extcite.rb', line 263</span>
|
|
980
|
+
|
|
981
|
+
<span class='kw'>def</span> <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_extract_text'>extract_text</span><span class='lparen'>(</span><span class='label'>path:</span><span class='rparen'>)</span>
|
|
982
|
+
<span class='id identifier rubyid_path'>path</span> <span class='op'>=</span> <span class='const'><span class='object_link'><a href="Array.html" title="Array (class)">Array</a></span></span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='rparen'>)</span>
|
|
983
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_path'>path</span><span class='period'>.</span><span class='id identifier rubyid_length'>length</span> <span class='op'>==</span> <span class='int'>1</span>
|
|
984
|
+
<span class='kw'>if</span> <span class='const'>File</span><span class='period'>.</span><span class='id identifier rubyid_directory?'>directory?</span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='lbracket'>[</span><span class='int'>0</span><span class='rbracket'>]</span><span class='rparen'>)</span> <span class='comment'># keep only files with .pdf extension
|
|
985
|
+
</span>
|
|
986
|
+
<span class='id identifier rubyid_path'>path</span> <span class='op'>=</span> <span class='id identifier rubyid_dir_files'><span class='object_link'><a href="top-level-namespace.html#dir_files-instance_method" title="#dir_files (method)">dir_files</a></span></span><span class='lparen'>(</span><span class='id identifier rubyid_path'>path</span><span class='lbracket'>[</span><span class='int'>0</span><span class='rbracket'>]</span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_keep_if'>keep_if</span> <span class='lbrace'>{</span> <span class='op'>|</span><span class='id identifier rubyid_z'>z</span><span class='op'>|</span> <span class='op'>!</span><span class='op'>!</span><span class='id identifier rubyid_z'>z</span><span class='period'>.</span><span class='id identifier rubyid_match'>match</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>.pdf</span><span class='regexp_end'>/</span></span><span class='rparen'>)</span> <span class='rbrace'>}</span>
|
|
987
|
+
<span class='kw'>end</span>
|
|
988
|
+
<span class='kw'>end</span>
|
|
989
|
+
|
|
990
|
+
<span class='id identifier rubyid_out'>out</span> <span class='op'>=</span> <span class='lbracket'>[</span><span class='rbracket'>]</span>
|
|
991
|
+
<span class='id identifier rubyid_path'>path</span><span class='period'>.</span><span class='id identifier rubyid_each'>each</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_x'>x</span><span class='op'>|</span>
|
|
992
|
+
<span class='kw'>begin</span>
|
|
993
|
+
<span class='id identifier rubyid_rr'>rr</span> <span class='op'>=</span> <span class='const'>PDF</span><span class='op'>::</span><span class='const'>Reader</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='id identifier rubyid_x'>x</span><span class='rparen'>)</span>
|
|
994
|
+
<span class='id identifier rubyid_txt'>txt</span> <span class='op'>=</span> <span class='id identifier rubyid_rr'>rr</span><span class='period'>.</span><span class='id identifier rubyid_pages'>pages</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span> <span class='lbrace'>{</span> <span class='op'>|</span><span class='id identifier rubyid_page'>page</span><span class='op'>|</span> <span class='id identifier rubyid_page'>page</span><span class='period'>.</span><span class='id identifier rubyid_text'>text</span> <span class='rbrace'>}</span><span class='period'>.</span><span class='id identifier rubyid_join'>join</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>\n</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span>
|
|
995
|
+
<span class='kw'>rescue</span> <span class='const'>Exception</span> <span class='op'>=></span> <span class='id identifier rubyid_e'>e</span>
|
|
996
|
+
<span class='id identifier rubyid_warn'>warn</span> <span class='id identifier rubyid_e'>e</span>
|
|
997
|
+
<span class='id identifier rubyid_txt'>txt</span> <span class='op'>=</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_end'>"</span></span>
|
|
998
|
+
<span class='kw'>end</span>
|
|
999
|
+
<span class='id identifier rubyid_out'>out</span> <span class='op'><<</span> <span class='id identifier rubyid_txt'>txt</span>
|
|
1000
|
+
<span class='kw'>end</span>
|
|
1001
|
+
<span class='kw'>return</span> <span class='id identifier rubyid_out'>out</span>
|
|
1002
|
+
<span class='kw'>end</span></pre>
|
|
1003
|
+
</td>
|
|
1004
|
+
</tr>
|
|
1005
|
+
</table>
|
|
1006
|
+
</div>
|
|
1007
|
+
|
|
1008
|
+
<div class="method_details ">
|
|
1009
|
+
<h3 class="signature " id="get_ids-class_method">
|
|
1010
|
+
|
|
1011
|
+
.<strong>get_ids</strong>(txt:) ⇒ <tt>Object</tt>
|
|
1012
|
+
|
|
1013
|
+
|
|
1014
|
+
|
|
1015
|
+
|
|
1016
|
+
|
|
1017
|
+
</h3><div class="docstring">
|
|
1018
|
+
<div class="discussion">
|
|
1019
|
+
|
|
1020
|
+
<p>Get DOIs from a String or Array of String's</p>
|
|
1021
|
+
|
|
1022
|
+
<p>Return: Array of DOIs</p>
|
|
1023
|
+
|
|
1024
|
+
|
|
1025
|
+
</div>
|
|
1026
|
+
</div>
|
|
1027
|
+
<div class="tags">
|
|
1028
|
+
|
|
1029
|
+
<div class="examples">
|
|
1030
|
+
<p class="tag_title">Examples:</p>
|
|
1031
|
+
|
|
1032
|
+
|
|
1033
|
+
<pre class="example code"><code><span class='id identifier rubyid_require'>require</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>extcite</span><span class='tstring_end'>'</span></span>
|
|
1034
|
+
<span class='const'><span class='object_link'><a href="" title="Extcite (module)">Extcite</a></span></span><span class='period'>.</span><span class='id identifier rubyid_get_ids'>get_ids</span><span class='lparen'>(</span><span class='label'>txt:</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>10.1016/j.dendro.2014.01.004 adfasdf asd fas df asdfsd</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span></code></pre>
|
|
1035
|
+
|
|
1036
|
+
</div>
|
|
1037
|
+
<p class="tag_title">Parameters:</p>
|
|
1038
|
+
<ul class="param">
|
|
1039
|
+
|
|
1040
|
+
<li>
|
|
1041
|
+
|
|
1042
|
+
<span class='name'>txt</span>
|
|
1043
|
+
|
|
1044
|
+
|
|
1045
|
+
<span class='type'>(<tt><span class='object_link'><a href="String.html" title="String (class)">String</a></span></tt>)</span>
|
|
1046
|
+
|
|
1047
|
+
|
|
1048
|
+
|
|
1049
|
+
—
|
|
1050
|
+
<div class='inline'>
|
|
1051
|
+
<p>String or Array of String's</p>
|
|
1052
|
+
</div>
|
|
1053
|
+
|
|
1054
|
+
</li>
|
|
1055
|
+
|
|
1056
|
+
</ul>
|
|
1057
|
+
|
|
1058
|
+
|
|
1059
|
+
</div><table class="source_code">
|
|
1060
|
+
<tr>
|
|
1061
|
+
<td>
|
|
1062
|
+
<pre class="lines">
|
|
1063
|
+
|
|
1064
|
+
|
|
1065
|
+
226
|
|
1066
|
+
227
|
|
1067
|
+
228
|
|
1068
|
+
229
|
|
1069
|
+
230
|
|
1070
|
+
231
|
|
1071
|
+
232
|
|
1072
|
+
233
|
|
1073
|
+
234
|
|
1074
|
+
235
|
|
1075
|
+
236
|
|
1076
|
+
237
|
|
1077
|
+
238
|
|
1078
|
+
239
|
|
1079
|
+
240
|
|
1080
|
+
241
|
|
1081
|
+
242
|
|
1082
|
+
243</pre>
|
|
1083
|
+
</td>
|
|
1084
|
+
<td>
|
|
1085
|
+
<pre class="code"><span class="info file"># File 'lib/extcite.rb', line 226</span>
|
|
1086
|
+
|
|
1087
|
+
<span class='kw'>def</span> <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_get_ids'>get_ids</span><span class='lparen'>(</span><span class='label'>txt:</span><span class='rparen'>)</span>
|
|
1088
|
+
<span class='comment'># see if there's
|
|
1089
|
+
</span>
|
|
1090
|
+
<span class='kw'>return</span> <span class='const'><span class='object_link'><a href="Array.html" title="Array (class)">Array</a></span></span><span class='lparen'>(</span><span class='id identifier rubyid_txt'>txt</span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span> <span class='lbrace'>{</span> <span class='op'>|</span><span class='id identifier rubyid_z'>z</span><span class='op'>|</span>
|
|
1091
|
+
<span class='comment'># detect if is an arxiv paper
|
|
1092
|
+
</span> <span class='kw'>if</span> <span class='op'>!</span><span class='id identifier rubyid_z'>z</span><span class='period'>.</span><span class='id identifier rubyid_match'>match</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>arxiv:[0-9]+\.[0-9A-Za-z]+</span><span class='regexp_end'>/i</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span> <span class='comment'># if so, return arxiv id for later extraction of arxiv citation via their API
|
|
1093
|
+
</span>
|
|
1094
|
+
<span class='id identifier rubyid_z'>z</span> <span class='op'>=</span> <span class='id identifier rubyid_z'>z</span><span class='period'>.</span><span class='id identifier rubyid_match'>match</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>arxiv:[0-9]+\.[0-9A-Za-z]+</span><span class='regexp_end'>/i</span></span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_to_s'>to_s</span>
|
|
1095
|
+
<span class='kw'>else</span>
|
|
1096
|
+
<span class='id identifier rubyid_doi_pattern'>doi_pattern</span> <span class='op'>=</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>(10[.][0-9]{4,}(?:[.][0-9]+)*/(?:(?![%"#? ])\\S)+)</span><span class='tstring_end'>'</span></span>
|
|
1097
|
+
<span class='id identifier rubyid_z'>z</span> <span class='op'>=</span> <span class='id identifier rubyid_z'>z</span><span class='period'>.</span><span class='id identifier rubyid_match'>match</span><span class='lparen'>(</span><span class='id identifier rubyid_doi_pattern'>doi_pattern</span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_to_s'>to_s</span><span class='period'>.</span><span class='id identifier rubyid_gsub'>gsub</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>\s.+</span><span class='regexp_end'>/</span></span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span> <span class='comment'># z = z.match("10\\.[0-9]+/.+").to_s.gsub(/\s.+/, '')
|
|
1098
|
+
</span>
|
|
1099
|
+
<span class='kw'>end</span> <span class='comment'># clean up doi
|
|
1100
|
+
</span>
|
|
1101
|
+
<span class='id identifier rubyid_z'>z</span> <span class='op'>=</span> <span class='id identifier rubyid_z'>z</span><span class='period'>.</span><span class='id identifier rubyid_gsub'>gsub</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>\.$|\.;$|\.\]$|\.\}$|\.\)$|,$</span><span class='regexp_end'>/</span></span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
1102
|
+
<span class='kw'>return</span> <span class='id identifier rubyid_z'>z</span><span class='period'>.</span><span class='id identifier rubyid_gsub'>gsub</span><span class='lparen'>(</span><span class='tstring'><span class='regexp_beg'>/</span><span class='tstring_content'>;$|\]$|\}$|\)$</span><span class='regexp_end'>/</span></span><span class='comma'>,</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_end'>'</span></span><span class='rparen'>)</span>
|
|
1103
|
+
<span class='rbrace'>}</span><span class='lbracket'>[</span><span class='int'>0</span><span class='rbracket'>]</span>
|
|
1104
|
+
<span class='kw'>end</span></pre>
|
|
1105
|
+
</td>
|
|
1106
|
+
</tr>
|
|
1107
|
+
</table>
|
|
1108
|
+
</div>
|
|
1109
|
+
|
|
1110
|
+
</div>
|
|
1111
|
+
|
|
1112
|
+
</div>
|
|
1113
|
+
|
|
1114
|
+
<div id="footer">
|
|
1115
|
+
Generated on Wed Apr 15 16:00:31 2020 by
|
|
1116
|
+
<a href="http://yardoc.org" title="Yay! A Ruby Documentation Tool" target="_parent">yard</a>
|
|
1117
|
+
0.9.24 (ruby-2.7.1).
|
|
1118
|
+
</div>
|
|
1119
|
+
|
|
1120
|
+
</div>
|
|
1121
|
+
</body>
|
|
1122
|
+
</html>
|