bio-incanter 0.1.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- data/Gemfile +14 -0
- data/Gemfile.lock +35 -0
- data/LICENSE.txt +20 -0
- data/README.rdoc +26 -0
- data/Rakefile +51 -0
- data/VERSION +1 -0
- data/bio-incanter.gemspec +136 -0
- data/doc/AreaChart.html +473 -0
- data/doc/BarChart.html +519 -0
- data/doc/BlandAltman.html +453 -0
- data/doc/BoxPlot.html +474 -0
- data/doc/FunctionPlot.html +496 -0
- data/doc/HeatMap.html +554 -0
- data/doc/Histogram.html +444 -0
- data/doc/LICENSE_txt.html +130 -0
- data/doc/LineChart.html +479 -0
- data/doc/Object.html +278 -0
- data/doc/PieChart.html +455 -0
- data/doc/README_rdoc.html +152 -0
- data/doc/ScatterPlot.html +489 -0
- data/doc/TimeChart.html +473 -0
- data/doc/TracePlot.html +416 -0
- data/doc/XyPlot.html +477 -0
- data/doc/created.rid +18 -0
- data/doc/images/add.png +0 -0
- data/doc/images/brick.png +0 -0
- data/doc/images/brick_link.png +0 -0
- data/doc/images/bug.png +0 -0
- data/doc/images/bullet_black.png +0 -0
- data/doc/images/bullet_toggle_minus.png +0 -0
- data/doc/images/bullet_toggle_plus.png +0 -0
- data/doc/images/date.png +0 -0
- data/doc/images/delete.png +0 -0
- data/doc/images/find.png +0 -0
- data/doc/images/loadingAnimation.gif +0 -0
- data/doc/images/macFFBgHack.png +0 -0
- data/doc/images/package.png +0 -0
- data/doc/images/page_green.png +0 -0
- data/doc/images/page_white_text.png +0 -0
- data/doc/images/page_white_width.png +0 -0
- data/doc/images/plugin.png +0 -0
- data/doc/images/ruby.png +0 -0
- data/doc/images/tag_blue.png +0 -0
- data/doc/images/tag_green.png +0 -0
- data/doc/images/transparent.png +0 -0
- data/doc/images/wrench.png +0 -0
- data/doc/images/wrench_orange.png +0 -0
- data/doc/images/zoom.png +0 -0
- data/doc/index.html +106 -0
- data/doc/js/darkfish.js +153 -0
- data/doc/js/jquery.js +18 -0
- data/doc/js/navigation.js +142 -0
- data/doc/js/search.js +94 -0
- data/doc/js/search_index.js +1 -0
- data/doc/js/searcher.js +228 -0
- data/doc/rdoc.css +543 -0
- data/doc/table_of_contents.html +295 -0
- data/lib/area_chart/area_chart.rb +106 -0
- data/lib/bar_chart/bar_chart.rb +142 -0
- data/lib/bio-incanter.rb +108 -0
- data/lib/bland_altman/bland_altman.rb +120 -0
- data/lib/box_plot/box_plot.rb +136 -0
- data/lib/function_plot/function_plot.rb +137 -0
- data/lib/histogram/histogram.rb +139 -0
- data/lib/java/clocomics-1.0.0-standalone.jar +0 -0
- data/lib/line_chart/line_chart.rb +148 -0
- data/lib/pie_chart/pie_chart.rb +121 -0
- data/lib/qq_plot/qq_plot.rb +105 -0
- data/lib/scatter_plot/scatter_plot.rb +162 -0
- data/lib/time_chart/time_chart.rb +142 -0
- data/lib/trace_plot/trace_plot.rb +108 -0
- data/lib/xy_plot/xy_plot.rb +149 -0
- data/spec/bar_chart_spec.rb +25 -0
- data/spec/bland_altman_spec.rb +26 -0
- data/spec/box_plot_spec.rb +25 -0
- data/spec/function_plot_spec.rb +27 -0
- data/spec/histogram_spec.rb +24 -0
- data/spec/line_chart_spec.rb +25 -0
- data/spec/pie_chart_spec.rb +25 -0
- data/spec/qq_plot_spec.rb +24 -0
- data/spec/scatter_plot_spec.rb +26 -0
- data/spec/spec_helper.rb +13 -0
- data/spec/time_chart_spec.rb +26 -0
- data/spec/trace_plot_spec.rb +24 -0
- data/spec/xy_plot_spec.rb +25 -0
- metadata +196 -0
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<h1 class="class">class FunctionPlot</h1>
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<!-- Methods -->
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<pre><span class="ruby-comment"># File lib/function_plot/function_plot.rb, line 2</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">initialize</span>(<span class="ruby-identifier">function</span>,<span class="ruby-identifier">min</span>,<span class="ruby-identifier">max</span>,<span class="ruby-identifier">params</span>)
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<span class="ruby-ivar">@params</span>=<span class="ruby-keyword">self</span>.<span class="ruby-identifier">check_par</span>(<span class="ruby-identifier">params</span>)
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<span class="ruby-ivar">@function</span>=<span class="ruby-identifier">function</span>
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<span class="ruby-keyword">end</span></pre>
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<pre><span class="ruby-comment"># File lib/function_plot/function_plot.rb, line 9</span>
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">check_par</span>(<span class="ruby-identifier">params</span>)
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<span class="ruby-identifier">hash</span> = <span class="ruby-constant">Hash</span>.<span class="ruby-identifier">new</span>
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<span class="ruby-identifier">permitted</span> = [<span class="ruby-string">"title"</span>,<span class="ruby-string">"x_label"</span>,<span class="ruby-string">"y_label"</span>,<span class="ruby-string">"legend"</span>,<span class="ruby-string">"width"</span>,<span class="ruby-string">"height"</span>,<span class="ruby-string">"file_name"</span>]
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<span class="ruby-identifier">keys</span> = <span class="ruby-identifier">params</span>.<span class="ruby-identifier">keys</span>
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<span class="ruby-identifier">keys</span>.<span class="ruby-identifier">each</span>{ <span class="ruby-operator">|</span><span class="ruby-identifier">key</span><span class="ruby-operator">|</span>
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<span class="ruby-keyword">if</span> <span class="ruby-identifier">params</span>[<span class="ruby-string">"title"</span>]<span class="ruby-operator">==</span><span class="ruby-keyword">nil</span>
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<span class="ruby-identifier">hash</span>[<span class="ruby-string">"title"</span>]=<span class="ruby-string">"A sample Graph"</span>
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<span class="ruby-identifier">hash</span>[<span class="ruby-string">"x_label"</span>]=<span class="ruby-string">"Categories"</span>
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<span class="ruby-identifier">hash</span>[<span class="ruby-string">"x_label"</span>]=<span class="ruby-identifier">params</span>[<span class="ruby-string">"x_label"</span>]
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<pre><span class="ruby-comment"># File lib/function_plot/function_plot.rb, line 67</span>
|
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">getFunction</span>
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<pre><span class="ruby-comment"># File lib/function_plot/function_plot.rb, line 75</span>
|
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<span class="ruby-keyword">end</span></pre>
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<span class="method-name">getMin</span><span
|
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|
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<pre><span class="ruby-comment"># File lib/function_plot/function_plot.rb, line 71</span>
|
|
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|
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<span class="ruby-keyword">def</span> <span class="ruby-identifier">getMin</span>
|
|
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|
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<span class="ruby-ivar">@min</span>
|
|
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|
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<span class="ruby-keyword">end</span></pre>
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|
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|
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<span class="method-name">getParams</span><span
|
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|
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class="method-args">()</span>
|
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|
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<pre><span class="ruby-comment"># File lib/function_plot/function_plot.rb, line 79</span>
|
|
401
|
+
<span class="ruby-keyword">def</span> <span class="ruby-identifier">getParams</span>
|
|
402
|
+
<span class="ruby-ivar">@params</span>
|
|
403
|
+
<span class="ruby-keyword">end</span></pre>
|
|
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|
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</div><!-- getParams-source -->
|
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|
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|
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|
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</div><!-- getParams-method -->
|
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|
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|
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|
|
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|
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<div id="method-i-save" class="method-detail ">
|
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|
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|
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416
|
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<div class="method-heading">
|
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417
|
+
<span class="method-name">save</span><span
|
|
418
|
+
class="method-args">()</span>
|
|
419
|
+
<span class="method-click-advice">click to toggle source</span>
|
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420
|
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</div>
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|
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|
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427
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|
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|
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|
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<div class="method-source-code" id="save-source">
|
|
430
|
+
<pre><span class="ruby-comment"># File lib/function_plot/function_plot.rb, line 84</span>
|
|
431
|
+
<span class="ruby-keyword">def</span> <span class="ruby-identifier">save</span>
|
|
432
|
+
<span class="ruby-keyword">begin</span>
|
|
433
|
+
<span class="ruby-identifier">a</span> = <span class="ruby-constant">Java</span><span class="ruby-operator">::</span><span class="ruby-constant">ComDomain</span><span class="ruby-operator">::</span><span class="ruby-identifier">clocomics</span>
|
|
434
|
+
<span class="ruby-identifier">a</span>.<span class="ruby-identifier">save_function</span>(<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getFunction</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getMin</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getMax</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getParams</span>)
|
|
435
|
+
<span class="ruby-keyword">rescue</span> <span class="ruby-constant">Exception</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">ex</span>
|
|
436
|
+
<span class="ruby-keyword">end</span>
|
|
437
|
+
<span class="ruby-keyword">end</span></pre>
|
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|
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</div><!-- save-source -->
|
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|
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|
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</div>
|
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|
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|
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|
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|
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</div><!-- save-method -->
|
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|
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|
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447
|
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|
|
448
|
+
<div id="method-i-view" class="method-detail ">
|
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449
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+
|
|
450
|
+
<div class="method-heading">
|
|
451
|
+
<span class="method-name">view</span><span
|
|
452
|
+
class="method-args">()</span>
|
|
453
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
454
|
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</div>
|
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|
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<div class="method-source-code" id="view-source">
|
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|
+
<pre><span class="ruby-comment"># File lib/function_plot/function_plot.rb, line 91</span>
|
|
465
|
+
<span class="ruby-keyword">def</span> <span class="ruby-identifier">view</span>
|
|
466
|
+
<span class="ruby-keyword">begin</span>
|
|
467
|
+
<span class="ruby-identifier">a</span> = <span class="ruby-constant">Java</span><span class="ruby-operator">::</span><span class="ruby-constant">ComDomain</span><span class="ruby-operator">::</span><span class="ruby-identifier">clocomics</span>
|
|
468
|
+
<span class="ruby-identifier">a</span>.<span class="ruby-identifier">view_function</span>(<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getFunction</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getMin</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getMax</span>,<span class="ruby-keyword">self</span>.<span class="ruby-identifier">getParams</span>)
|
|
469
|
+
<span class="ruby-keyword">rescue</span> <span class="ruby-constant">Exception</span> =<span class="ruby-operator">></span> <span class="ruby-identifier">ex</span>
|
|
470
|
+
<span class="ruby-keyword">end</span>
|
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|
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|
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|
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|
|
473
|
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<span class="ruby-keyword">end</span></pre>
|
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</div><!-- view-source -->
|
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|
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</div>
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|
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|
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</div><!-- view-method -->
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|
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</section><!-- public-instance-method-details -->
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</section><!-- 5Buntitled-5D -->
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</div><!-- documentation -->
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<footer id="validator-badges">
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<p><a href="http://validator.w3.org/check/referer">[Validate]</a>
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<p>Generated by <a href="https://github.com/rdoc/rdoc">RDoc</a> 3.12.
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<p>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish Rdoc Generator</a> 3.
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