lazar-gui 1.0.2 → 1.1.3

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Files changed (185) hide show
  1. checksums.yaml +4 -4
  2. data/.gitignore +0 -1
  3. data/FAQ.md +14 -25
  4. data/Gemfile +3 -1
  5. data/LICENSE.md +596 -0
  6. data/VERSION +1 -1
  7. data/application.rb +71 -191
  8. data/config.ru +2 -1
  9. data/helper.rb +0 -215
  10. data/lazar-gui.gemspec +7 -7
  11. data/public/css/bootstrap.vertical-tabs.min.css +1 -0
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- }
57
- if (ua.indexOf("chrome") != -1) {
58
- // work around __gwt_ObjectId appearing in JS objects
59
- var hop = Object.prototype.hasOwnProperty;
60
- Object.prototype.hasOwnProperty = function(prop) {
61
- return prop != "__gwt_ObjectId" && hop.call(this, prop);
62
- };
63
- // do the same in our parent as well -- see issue 4486
64
- // NOTE: this will have to be changed when we support non-iframe-based DevMode
65
- var hop2 = parent.Object.prototype.hasOwnProperty;
66
- parent.Object.prototype.hasOwnProperty = function(prop) {
67
- return prop != "__gwt_ObjectId" && hop2.call(this, prop);
68
- };
69
- }
70
-
71
- // wrapper to call JS methods, which we need both to be able to supply a
72
- // different this for method lookup and to get the exception back
73
- function __gwt_jsInvoke(thisObj, methodName) {
74
- try {
75
- var args = Array.prototype.slice.call(arguments, 2);
76
- return [0, window[methodName].apply(thisObj, args)];
77
- } catch (e) {
78
- return [1, e];
79
- }
80
- }
81
-
82
- var __gwt_javaInvokes = [];
83
- function __gwt_makeJavaInvoke(argCount) {
84
- return __gwt_javaInvokes[argCount] || __gwt_doMakeJavaInvoke(argCount);
85
- }
86
-
87
- function __gwt_doMakeJavaInvoke(argCount) {
88
- // IE6 won't eval() anonymous functions except as r-values
89
- var argList = "";
90
- for (var i = 0; i < argCount; i++) {
91
- argList += ",p" + i;
92
- }
93
- var argListNoComma = argList.substring(1);
94
-
95
- return eval(
96
- "__gwt_javaInvokes[" + argCount + "] =\n" +
97
- " function(thisObj, dispId" + argList + ") {\n" +
98
- " var result = __static(dispId, thisObj" + argList + ");\n" +
99
- " if (result[0]) {\n" +
100
- " throw result[1];\n" +
101
- " } else {\n" +
102
- " return result[1];\n" +
103
- " }\n" +
104
- " }\n"
105
- );
106
- }
107
-
108
- /*
109
- * This is used to create tear-offs of Java methods. Each function corresponds
110
- * to exactly one dispId, and also embeds the argument count. We get the "this"
111
- * value from the context in which the function is being executed.
112
- * Function-object identity is preserved by caching in a sparse array.
113
- */
114
- var __gwt_tearOffs = [];
115
- var __gwt_tearOffGenerators = [];
116
- function __gwt_makeTearOff(proxy, dispId, argCount) {
117
- return __gwt_tearOffs[dispId] || __gwt_doMakeTearOff(dispId, argCount);
118
- }
119
-
120
- function __gwt_doMakeTearOff(dispId, argCount) {
121
- return __gwt_tearOffs[dispId] =
122
- (__gwt_tearOffGenerators[argCount] || __gwt_doMakeTearOffGenerator(argCount))(dispId);
123
- }
124
-
125
- function __gwt_doMakeTearOffGenerator(argCount) {
126
- // IE6 won't eval() anonymous functions except as r-values
127
- var argList = "";
128
- for (var i = 0; i < argCount; i++) {
129
- argList += ",p" + i;
130
- }
131
- var argListNoComma = argList.substring(1);
132
-
133
- return eval(
134
- "__gwt_tearOffGenerators[" + argCount + "] =\n" +
135
- " function(dispId) {\n" +
136
- " return function(" + argListNoComma + ") {\n" +
137
- " var result = __static(dispId, this" + argList + ");\n" +
138
- " if (result[0]) {\n" +
139
- " throw result[1];\n" +
140
- " } else {\n" +
141
- " return result[1];\n" +
142
- " }\n" +
143
- " }\n" +
144
- " }\n"
145
- );
146
- }
147
-
148
- function __gwt_makeResult(isException, result) {
149
- return [isException, result];
150
- }
151
-
152
- function __gwt_disconnected() {
153
- // Prevent double-invocation.
154
- window.__gwt_disconnected = new Function();
155
- // Do it in a timeout so we can be sure we have a clean stack.
156
- window.setTimeout(__gwt_disconnected_impl, 1);
157
- }
158
-
159
- function __gwt_disconnected_impl() {
160
- __gwt_displayGlassMessage('GWT Code Server Disconnected',
161
- 'Most likely, you closed GWT Development Mode. Or, you might have lost '
162
- + 'network connectivity. To fix this, try restarting GWT Development Mode and '
163
- + 'refresh this page.');
164
- }
165
-
166
- // Keep track of z-index to allow layering of multiple glass messages
167
- var __gwt_glassMessageZIndex = 2147483647;
168
-
169
- // Note this method is also used by ModuleSpace.java
170
- function __gwt_displayGlassMessage(summary, details) {
171
- var topWin = window.top;
172
- var topDoc = topWin.document;
173
- var outer = topDoc.createElement("div");
174
- // Do not insert whitespace or outer.firstChild will get a text node.
175
- outer.innerHTML =
176
- '<div style="position:absolute;z-index:' + __gwt_glassMessageZIndex-- +
177
- ';left:50px;top:50px;width:600px;color:#FFF;font-family:verdana;text-align:left;">' +
178
- '<div style="font-size:30px;font-weight:bold;">' + summary + '</div>' +
179
- '<div style="font-size:15px;">' + details + '</div>' +
180
- '</div>' +
181
- '<div style="position:absolute;z-index:' + __gwt_glassMessageZIndex-- +
182
- ';left:0px;top:0px;right:0px;bottom:0px;filter:alpha(opacity=60);opacity:0.6;background-color:#000;"></div>'
183
- ;
184
- topDoc.body.appendChild(outer);
185
- var glass = outer.firstChild;
186
- var glassStyle = glass.style;
187
-
188
- // Scroll to the top and remove scrollbars.
189
- topWin.scrollTo(0, 0);
190
- if (topDoc.compatMode == "BackCompat") {
191
- topDoc.body.style["overflow"] = "hidden";
192
- } else {
193
- topDoc.documentElement.style["overflow"] = "hidden";
194
- }
195
-
196
- // Steal focus.
197
- glass.focus();
198
-
199
- if ((navigator.userAgent.indexOf("MSIE") >= 0) && (topDoc.compatMode == "BackCompat")) {
200
- // IE quirks mode doesn't support right/bottom, but does support this.
201
- glassStyle.width = "125%";
202
- glassStyle.height = "100%";
203
- } else if (navigator.userAgent.indexOf("MSIE 6") >= 0) {
204
- // IE6 doesn't have a real standards mode, so we have to use hacks.
205
- glassStyle.width = "125%"; // Get past scroll bar area.
206
- // Nasty CSS; onresize would be better but the outer window won't let us add a listener IE.
207
- glassStyle.setExpression("height", "document.documentElement.clientHeight");
208
- }
209
-
210
- $doc.title = summary + " [" + $doc.title + "]";
211
- }
212
-
213
- function findPluginObject() {
214
- try {
215
- return document.getElementById('pluginObject');
216
- } catch (e) {
217
- return null;
218
- }
219
- }
220
-
221
- function findPluginEmbed() {
222
- try {
223
- return document.getElementById('pluginEmbed')
224
- } catch (e) {
225
- return null;
226
- }
227
- }
228
-
229
- function findPluginXPCOM() {
230
- try {
231
- return __gwt_HostedModePlugin;
232
- } catch (e) {
233
- return null;
234
- }
235
- }
236
-
237
- gwtOnLoad = function(errFn, modName, modBase){
238
- $moduleName = modName;
239
- $moduleBase = modBase;
240
-
241
- // Note that the order is important
242
- var pluginFinders = [
243
- findPluginXPCOM,
244
- findPluginObject,
245
- findPluginEmbed,
246
- ];
247
- var topWin = window.top;
248
- var url = topWin.location.href;
249
- if (!topWin.__gwt_SessionID) {
250
- var ASCII_EXCLAMATION = 33;
251
- var ASCII_TILDE = 126;
252
- var chars = [];
253
- for (var i = 0; i < 16; ++i) {
254
- chars.push(Math.floor(ASCII_EXCLAMATION
255
- + Math.random() * (ASCII_TILDE - ASCII_EXCLAMATION + 1)));
256
- }
257
- topWin.__gwt_SessionID = String.fromCharCode.apply(null, chars);
258
- }
259
- var plugin = null;
260
- for (var i = 0; i < pluginFinders.length; ++i) {
261
- try {
262
- var maybePlugin = pluginFinders[i]();
263
- if (maybePlugin != null && maybePlugin.init(window)) {
264
- plugin = maybePlugin;
265
- break;
266
- }
267
- } catch (e) {
268
- }
269
- }
270
- if (!plugin) {
271
- // try searching for a v1 plugin for backwards compatibility
272
- var found = false;
273
- for (var i = 0; i < pluginFinders.length; ++i) {
274
- try {
275
- plugin = pluginFinders[i]();
276
- if (plugin != null && plugin.connect($hosted, $moduleName, window)) {
277
- return;
278
- }
279
- } catch (e) {
280
- }
281
- }
282
- loadIframe("http://gwt.google.com/missing-plugin");
283
- } else {
284
- if (plugin.connect(url, topWin.__gwt_SessionID, $hosted, $moduleName,
285
- $hostedHtmlVersion)) {
286
- window.onUnload = function() {
287
- try {
288
- // wrap in try/catch since plugins are not required to supply this
289
- plugin.disconnect();
290
- } catch (e) {
291
- }
292
- };
293
- } else {
294
- if (errFn) {
295
- errFn(modName);
296
- } else {
297
- __gwt_displayGlassMessage(
298
- "Plugin failed to connect to Development Mode server at " + simpleEscape($hosted),
299
- "Follow the troubleshooting instructions at "
300
- + "<a href='http://code.google.com/p/google-web-toolkit/wiki/TroubleshootingOOPHM'>"
301
- + "http://code.google.com/p/google-web-toolkit/wiki/TroubleshootingOOPHM</a>");
302
- }
303
- }
304
- }
305
- }
306
-
307
- function simpleEscape(originalString) {
308
- return originalString.replace(/&/g,"&amp;")
309
- .replace(/</g,"&lt;")
310
- .replace(/>/g,"&gt;")
311
- .replace(/\'/g, "&#39;")
312
- .replace(/\"/g,"&quot;");
313
- }
314
-
315
- window.onunload = function() {
316
- };
317
-
318
- // Lightweight metrics
319
- window.fireOnModuleLoadStart = function(className) {
320
- $stats && $stats({moduleName:$moduleName, sessionId:$sessionId, subSystem:'startup', evtGroup:'moduleStartup', millis:(new Date()).getTime(), type:'onModuleLoadStart', className:className});
321
- };
322
-
323
- window.__gwt_module_id = 0;
324
- </script></head>
325
- <body>
326
- <font face='arial' size='-1'>This html file is for Development Mode support.</font>
327
- <script><!--
328
- // Lightweight metrics
329
- $stats && $stats({moduleName:$moduleName, sessionId:$sessionId, subSystem:'startup', evtGroup:'moduleStartup', millis:(new Date()).getTime(), type:'moduleEvalEnd'});
330
-
331
- // OOPHM currently only supports IFrameLinker
332
- var query = parent.location.search;
333
- if (!findPluginXPCOM()) {
334
- document.write('<embed id="pluginEmbed" type="application/x-gwt-hosted-mode" width="10" height="10">');
335
- document.write('</embed>');
336
- document.write('<object id="pluginObject" CLASSID="CLSID:1D6156B6-002B-49E7-B5CA-C138FB843B4E">');
337
- document.write('</object>');
338
- }
339
-
340
- // look for the old query parameter if we don't find the new one
341
- var idx = query.indexOf("gwt.codesvr=");
342
- if (idx >= 0) {
343
- idx += 12; // "gwt.codesvr=".length() == 12
344
- } else {
345
- idx = query.indexOf("gwt.hosted=");
346
- if (idx >= 0) {
347
- idx += 11; // "gwt.hosted=".length() == 11
348
- }
349
- }
350
- if (idx >= 0) {
351
- var amp = query.indexOf("&", idx);
352
- if (amp >= 0) {
353
- $hosted = query.substring(idx, amp);
354
- } else {
355
- $hosted = query.substring(idx);
356
- }
357
-
358
- // According to RFC 3986, some of this component's characters (e.g., ':')
359
- // are reserved and *may* be escaped.
360
- $hosted = decodeURIComponent($hosted);
361
- }
362
-
363
- query = window.location.search.substring(1);
364
- if (query && $wnd[query]) setTimeout($wnd[query].onScriptLoad, 1);
365
- --></script></body></html>
@@ -1,67 +0,0 @@
1
- !!!
2
- %html{:xmlns => "http://www.w3.org/1999/xhtml", "xml:lang" => "en", :lang => "en"}
3
- %head
4
- %meta{'charset'=>"utf-8"}
5
- %meta{'http-equiv'=>"X-UA-Compatible", :content=>"IE=edge"}
6
- %meta{'name'=>"viewport", :content=>"width=device-width, initial-scale=1"}
7
- %title Lazar GUI FAQ
8
- %link{:rel=>'icon', :type=>'image/x-icon', :href=>'/images/favicon.ico'}
9
- %link{:rel=>'stylesheet', :href=>"#{'/css/bootstrap.min.css'}"}
10
- %link{:rel=>'stylesheet', :href=>"#{'/css/theme.default.min.css'}"}
11
- %link{:rel=>'stylesheet', :href=>"#{'/css/theme.bootstrap.min.css'}"}
12
- %link{ :href=>"/style.css", :rel=>"stylesheet"}
13
- %link{ :href=>"/stylesheets/jquery-ui.css", :rel=>"stylesheet"}
14
- %script{:src=>"/javascripts/jquery-1.11.2.min.js"}
15
- %script{:src=>"/javascripts/bootstrap.min.js"}
16
- %script{ :src=>"/javascripts/lazar-gui.js"}
17
- %body
18
- %noscript
19
- %div{ :style=>"width: 22em; position: absolute; left: 50%; margin-left: -11em; color: red; background-color: white; border: 1px solid red; padding: 4px; font-family: sans-serif"}
20
- Your web browser must have JavaScript enabled in order for this application to display correctly.
21
- %header.page-header
22
- %div.row
23
- %div.col-md-2
24
- %a{:href=> to("/predict")}
25
- %img.media-object{:src=>"/images/ist_logo.png", :alt=>"logo", :style=>"margin:0 3em 0 2em;"}
26
- %div.col-md-10
27
- %h1.media-heading{:style=>"margin: 0 0 0 1em;display:inline;"} Lazar GUI
28
- A Graphical User Interface for the <a href="http://github.com/opentox/lazar">Lazar</a> framework
29
-
30
- %div.container-fluid
31
- :javascript
32
- $(document).ready(function(){
33
- $("#back-top").hide();
34
- $(".blind").error(function(){
35
- $(this).attr('src', '/images/blind.png');
36
- });
37
- });
38
-
39
- = yield
40
-
41
- %footer.footer
42
- %div.container-fluid
43
- %p.text-muted
44
- &copy;
45
- %a{:href => 'http://www.in-silico.ch', :rel => "external"} <i style="font-family: serife">in silico</i> toxicology gmbh 2004 - #{Time.now.year.to_s}
46
-
47
- #back-top{:style => "z-index:100;position:fixed;bottom:1%;right:1%;"}
48
- %a{:href => "", :style=>"text:decoration:none;color:#ccc;"}
49
- %span.glyphicon.glyphicon-circle-arrow-up{:style => "font-size:3em;color:black;"}
50
- :javascript
51
- $("#back-top").hide();
52
- $(function () {
53
- $(window).scroll(function () {
54
- if ($(this).scrollTop() > 600) {
55
- $('#back-top').fadeIn();
56
- } else {
57
- $('#back-top').fadeOut();
58
- }
59
- });
60
- // scroll body to 0px on click
61
- $('#back-top a').click(function () {
62
- $('body,html').animate({
63
- scrollTop: 0
64
- }, 500);
65
- return false;
66
- });
67
- });
@@ -1,16 +0,0 @@
1
- - case @model_type
2
- - when "classification"
3
- - prediction = @cv.metadata["http://www.opentox.org/api/1.2#classificationStatistics"]["http://www.opentox.org/api/1.2#numCorrect"] + @cv.metadata["http://www.opentox.org/api/1.2#classificationStatistics"]["http://www.opentox.org/api/1.2#numIncorrect"]
4
- %p= "Number of predictions: #{prediction}"
5
- - percent = @cv.metadata["http://www.opentox.org/api/1.2#classificationStatistics"]["http://www.opentox.org/api/1.2#percentCorrect"]
6
- %p= "Correct predictions: #{percent.round(2)} %"
7
- - when "regression"
8
- - prediction = @cv.metadata["http://www.opentox.org/api/1.2#numInstances"].to_i - @cv.metadata["http://www.opentox.org/api/1.2#numUnpredicted"].to_i
9
- %p= "Number of predictions: #{prediction}"
10
- - rSquare = @cv.metadata["http://www.opentox.org/api/1.2#regressionStatistics"]["http://www.opentox.org/api/1.2#rSquare"]
11
- %p= "R-squared: #{rSquare.round(2)} %"
12
- - rootMeanSquaredError = @cv.metadata["http://www.opentox.org/api/1.2#regressionStatistics"]["http://www.opentox.org/api/1.2#rootMeanSquaredError"]
13
- %p= "Root Mean Square Error: #{rootMeanSquaredError.round(2)} %"
14
- - meanAbsoluteError = @cv.metadata["http://www.opentox.org/api/1.2#regressionStatistics"]["http://www.opentox.org/api/1.2#meanAbsoluteError"]
15
- %p= "Mean Absolute Error: #{meanAbsoluteError.round(2)} %"
16
-