mdarray 0.4.3.pre-java → 0.5.0-java
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- data/README.md +82 -14
- data/Rakefile +8 -2
- data/doc/BinaryOperator.html +227 -0
- data/doc/BitwiseOperators.html +135 -0
- data/doc/BooleanFunctions.html +135 -0
- data/doc/BooleanMDArray.html +193 -0
- data/doc/ByteMDArray.html +271 -0
- data/doc/Colt.html +269 -0
- data/doc/ComparisonOperators.html +135 -0
- data/doc/Const.html +490 -0
- data/doc/Csv.html +589 -0
- data/doc/DDescriptive.html +4373 -0
- data/doc/DoubleMDArray.html +555 -0
- data/doc/DoubleStatList.html +256 -0
- data/doc/FastBinaryOperator.html +743 -0
- data/doc/FastBoolean.html +512 -0
- data/doc/FastUnaryOperator.html +583 -0
- data/doc/FloatMDArray.html +237 -0
- data/doc/FunctionCreation.html +520 -0
- data/doc/FunctionMap.html +813 -0
- data/doc/GenericFunctions.html +135 -0
- data/doc/IntMDArray.html +259 -0
- data/doc/LongMDArray.html +257 -0
- data/doc/MDArray.html +9639 -0
- data/doc/MDArray/Counter.html +2767 -0
- data/doc/MDArray/IteratorFast.html +872 -0
- data/doc/MDArray/IteratorFastBoolean.html +384 -0
- data/doc/MDArray/IteratorFastByte.html +373 -0
- data/doc/MDArray/IteratorFastChar.html +384 -0
- data/doc/MDArray/IteratorFastDouble.html +384 -0
- data/doc/MDArray/IteratorFastFloat.html +384 -0
- data/doc/MDArray/IteratorFastInt.html +384 -0
- data/doc/MDArray/IteratorFastLong.html +384 -0
- data/doc/MDArray/IteratorFastShort.html +384 -0
- data/doc/MDArrayTest.html +125 -0
- data/doc/NonNumericalMDArray.html +177 -0
- data/doc/NumericFunctions.html +297 -0
- data/doc/NumericalMDArray.html +278 -0
- data/doc/Operator.html +826 -0
- data/doc/Proc.html +1097 -0
- data/doc/RubyBinaryOperator.html +526 -0
- data/doc/RubyFunctions.html +232 -0
- data/doc/RubyMath.html +135 -0
- data/doc/RubyStats.html +135 -0
- data/doc/RubyUnaryOperator.html +510 -0
- data/doc/ShortMDArray.html +267 -0
- data/doc/StatList.html +1176 -0
- data/doc/StringMDArray.html +181 -0
- data/doc/StructureMDArray.html +181 -0
- data/doc/UnaryOperator.html +227 -0
- data/doc/UserFunction.html +297 -0
- data/doc/_index.html +467 -0
- data/doc/class_list.html +53 -0
- data/doc/css/common.css +1 -0
- data/doc/css/full_list.css +57 -0
- data/doc/css/style.css +338 -0
- data/doc/file.README.html +173 -0
- data/doc/file_list.html +55 -0
- data/doc/frames.html +28 -0
- data/doc/index.html +173 -0
- data/doc/js/app.js +214 -0
- data/doc/js/full_list.js +173 -0
- data/doc/js/jquery.js +4 -0
- data/doc/method_list.html +2524 -0
- data/doc/top-level-namespace.html +114 -0
- data/lib/colt/colt.rb +56 -0
- data/lib/colt/colt_mdarray.rb +95 -0
- data/lib/colt/double_descriptive.rb +636 -0
- data/lib/colt/probability.rb +12 -0
- data/lib/colt/stat_list.rb +192 -0
- data/lib/env.rb +5 -1
- data/lib/mdarray.rb +5 -0
- data/lib/mdarray/access.rb +2 -2
- data/lib/mdarray/creation.rb +34 -19
- data/lib/mdarray/csv.rb +61 -0
- data/lib/mdarray/fast_operators.rb +241 -0
- data/lib/mdarray/operators.rb +18 -0
- data/lib/mdarray/ruby_operators.rb +2 -18
- data/lib/mdarray/ruby_stats.rb +1 -1
- data/lib/mdarray/views.rb +8 -8
- data/target/helper.jar +0 -0
- data/test/colt/VALE3.csv +3437 -0
- data/test/colt/VALE3.xlsx +0 -0
- data/test/colt/VALE3_short-err.csv +20 -0
- data/test/colt/VALE3_short.csv +20 -0
- data/test/colt/VALE3_short.xlsx +0 -0
- data/test/colt/test_complete.rb +25 -0
- data/test/colt/test_stat_list.rb +128 -0
- data/test/colt/test_statistics.rb +114 -0
- data/test/complete.rb +25 -0
- data/test/env.rb +54 -30
- data/test/{arithmetic_casting.rb → mdarray/arithmetic_casting.rb} +0 -0
- data/test/{test_access.rb → mdarray/test_access.rb} +0 -0
- data/test/{test_boolean.rb → mdarray/test_boolean.rb} +0 -2
- data/test/{test_comparison.rb → mdarray/test_comparison.rb} +0 -0
- data/test/{test_complete.rb → mdarray/test_complete.rb} +3 -14
- data/test/{test_counter.rb → mdarray/test_counter.rb} +0 -0
- data/test/{test_creation.rb → mdarray/test_creation.rb} +0 -0
- data/test/{test_error.rb → mdarray/test_error.rb} +8 -5
- data/test/{test_operator.rb → mdarray/test_operator.rb} +6 -2
- data/test/{test_speed.rb → mdarray/test_performance.rb} +74 -39
- data/test/{test_printing.rb → mdarray/test_printing.rb} +0 -1
- data/test/{test_shape.rb → mdarray/test_shape.rb} +0 -0
- data/test/mdarray/test_statistics.rb +80 -0
- data/test/{test_trigonometry.rb → mdarray/test_trigonometry.rb} +0 -0
- data/test/{test_views.rb → mdarray/test_views.rb} +0 -0
- data/vendor/parallelcolt-0.10.0.jar +0 -0
- data/version.rb +1 -1
- metadata +122 -39
- data/test/test_lazy.rb +0 -52
- data/test/test_statistics.rb +0 -38
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— Documentation by YARD 0.8.5.2
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<div id="content"><div id='filecontents'><h1 id="mdarray">MDArray</h1>
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<p>MDArray is a multi dimensional array implemented for JRuby inspired by NumPy (www.numpy.org)
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and Narray (narray.rubyforge.org) by Masahiro Tanaka. MDArray stands on the shoulders of
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Java-NetCDF and Parallel Colt.</p>
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<p>NetCDF-Java Library is a Java interface to NetCDF files, as well as to many other types of
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scientific data formats. It is developed and distributed by Unidata (http://www.unidata.ucar.edu). </p>
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<p>Parallel Colt (sites.google.com/site/piotrwendykier/software/parallelcolt) is a multithreaded
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version of Colt (http://acs.lbl.gov/software/colt/). Colt provides a set of Open Source
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Libraries for High Performance Scientific and Technical Computing in Java. Scientific
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and technical computing is characterized by demanding problem sizes and a need for high
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performance at reasonably small memory footprint.</p>
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<h1 id="mdarray-and-sciruby">MDArray and SciRuby</h1>
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<p>MDArray subscribes fully to the SciRuby Manifesto (http://sciruby.com/). </p>
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<p>“Ruby has for some time had no equivalent to the beautifully constructed NumPy, SciPy,
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and matplotlib libraries for Python. </p>
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<p>We believe that the time for a Ruby science and visualization package has come. Sometimes
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when a solution of sugar and water becomes super-saturated, from it precipitates a pure,
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delicious, and diabetes-inducing crystal of sweetness, induced by no more than the tap
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of a finger. So is occurring now, we believe, with numeric and visualization libraries for Ruby.”</p>
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<h1 id="main-properties">Main properties</h1>
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<ul>
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<li>Homogeneous multidimensional array, a table of elements (usually numbers), all of the
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same type, indexed by a tuple of positive integers;</li>
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<li>Easy calculation for large numerical multi dimensional arrays;</li>
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<li>Basic types are: boolean, byte, short, int, long, float, double, string, structure;</li>
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<li>Based on JRuby, which allows importing Java libraries. Version 0.4.0 only imports
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Java-NetCDF;</li>
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<li>Operator: +,-,*,/,%,**, >, >=, etc.</li>
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<li>Functions: abs, ceil, floor, truncate, is_zero, square, cube, fourth;</li>
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<li>
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<table>
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<tbody>
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<tr>
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<td>Binary Operators: &,</td>
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<td>, ^, ~ (binary_ones_complement), «, »;</td>
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</tbody>
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</table>
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</li>
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<li>Ruby Math functions: acos, acosh, asin, asinh, atan, atan2, atanh, cbrt, cos, erf, exp,
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gamma, hypot, ldexp, log, log10, log2, sin, sinh, sqrt, tan, tanh, neg;</li>
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<li>Boolean operations on boolean arrays: and, or, not;</li>
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<li>Fast descriptive statistics from Parallel Colt (complete list found bellow);</li>
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<li>Easy manipulation of arrays: reshape, reduce dimension, permute, section, slice, etc.</li>
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<li>Reading of two dimensional arrays from CSV files (mainly for debugging and simple
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testing purposes);</li>
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<li>StatList: a list that can grow/shrink and that can compute Parallel Colt descriptive
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statistics. </li>
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</ul>
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<h1 id="descriptive-statistics-methods">Descriptive statistics methods</h1>
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<p>auto_correlation, correlation, covariance, durbin_watson, frequencies, geometric_mean,
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harmonic_mean, kurtosis, lag1, max, mean, mean_deviation, median, min, moment, moment3,
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moment4, pooled_mean, pooled_variance, product, quantile, quantile_inverse,
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rank_interpolated, rms, sample_covariance, sample_kurtosis,
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sample_kurtosis_standard_error, sample_skew, sample_skew_standard_error,
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sample_standard_deviation, sample_variance, sample_weighted_variance, skew, split,<br />
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standard_deviation, standard_error, sum, sum_of_inversions, sum_of_logarithms,
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sum_of_powers, sum_of_power_deviations, sum_of_squares, sum_of_squared_deviations,
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trimmed_mean, variance, weighted_mean, weighted_rms, weighted_sums, winsorized_mean.</p>
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<h1 id="installation-and-download">Installation and download</h1>
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<ul>
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<li>Install Jruby</li>
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<li>jruby –S gem install mdarray</li>
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</ul>
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<h1 id="contributors">Contributors</h1>
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<ul>
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<li>Contributors are welcome.</li>
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</ul>
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<h1 id="homepages">Homepages</h1>
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<ul>
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<li>http://rubygems.org/gems/mdarray</li>
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<li>https://github.com/rbotafogo/mdarray/wiki</li>
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</ul>
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<h1 id="history">HISTORY</h1>
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<ul>
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<li>16/05/2013: Version 0.5.0: All loops transfered to Java with over 50% performance
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improvement. Descriptive statistics from Parallel Colt.</li>
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<li>19/04/2013: Version 0.4.3: Fixes a simple (but fatal bug). No new features</li>
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<li>17/04/2013: Version 0.4.2: Adds simple statistics and boolean operators</li>
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<li>05/05/2013: Version 0.4.0: Initial release</li>
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</ul>
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</div></div>
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<div id="footer">
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Generated on Thu May 16 12:48:34 2013 by
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<a href="http://yardoc.org" title="Yay! A Ruby Documentation Tool" target="_parent">yard</a>
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0.8.5.2 (ruby-1.9.3).
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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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"http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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<meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
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File: README
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— Documentation by YARD 0.8.5.2
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</title>
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<link rel="stylesheet" href="css/style.css" type="text/css" media="screen" charset="utf-8" />
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<a href="_index.html">Index</a> »
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<span class="title">File: README</span>
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Class List
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Method List
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File List
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<div id="content"><div id='filecontents'><h1 id="mdarray">MDArray</h1>
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<p>MDArray is a multi dimensional array implemented for JRuby inspired by NumPy (www.numpy.org)
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and Narray (narray.rubyforge.org) by Masahiro Tanaka. MDArray stands on the shoulders of
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Java-NetCDF and Parallel Colt.</p>
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<p>NetCDF-Java Library is a Java interface to NetCDF files, as well as to many other types of
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scientific data formats. It is developed and distributed by Unidata (http://www.unidata.ucar.edu). </p>
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<p>Parallel Colt (sites.google.com/site/piotrwendykier/software/parallelcolt) is a multithreaded
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version of Colt (http://acs.lbl.gov/software/colt/). Colt provides a set of Open Source
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Libraries for High Performance Scientific and Technical Computing in Java. Scientific
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and technical computing is characterized by demanding problem sizes and a need for high
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performance at reasonably small memory footprint.</p>
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<h1 id="mdarray-and-sciruby">MDArray and SciRuby</h1>
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|
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<p>MDArray subscribes fully to the SciRuby Manifesto (http://sciruby.com/). </p>
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<p>“Ruby has for some time had no equivalent to the beautifully constructed NumPy, SciPy,
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and matplotlib libraries for Python. </p>
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<p>We believe that the time for a Ruby science and visualization package has come. Sometimes
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when a solution of sugar and water becomes super-saturated, from it precipitates a pure,
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delicious, and diabetes-inducing crystal of sweetness, induced by no more than the tap
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of a finger. So is occurring now, we believe, with numeric and visualization libraries for Ruby.”</p>
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<h1 id="main-properties">Main properties</h1>
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<ul>
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<li>Homogeneous multidimensional array, a table of elements (usually numbers), all of the
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same type, indexed by a tuple of positive integers;</li>
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<li>Easy calculation for large numerical multi dimensional arrays;</li>
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<li>Basic types are: boolean, byte, short, int, long, float, double, string, structure;</li>
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<li>Based on JRuby, which allows importing Java libraries. Version 0.4.0 only imports
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Java-NetCDF;</li>
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<li>Operator: +,-,*,/,%,**, >, >=, etc.</li>
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<li>
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|
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gamma, hypot, ldexp, log, log10, log2, sin, sinh, sqrt, tan, tanh, neg;</li>
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<li>Boolean operations on boolean arrays: and, or, not;</li>
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<li>Fast descriptive statistics from Parallel Colt (complete list found bellow);</li>
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<li>Easy manipulation of arrays: reshape, reduce dimension, permute, section, slice, etc.</li>
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<li>Reading of two dimensional arrays from CSV files (mainly for debugging and simple
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testing purposes);</li>
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<li>StatList: a list that can grow/shrink and that can compute Parallel Colt descriptive
|
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statistics. </li>
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</ul>
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<h1 id="descriptive-statistics-methods">Descriptive statistics methods</h1>
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<p>auto_correlation, correlation, covariance, durbin_watson, frequencies, geometric_mean,
|
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harmonic_mean, kurtosis, lag1, max, mean, mean_deviation, median, min, moment, moment3,
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moment4, pooled_mean, pooled_variance, product, quantile, quantile_inverse,
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rank_interpolated, rms, sample_covariance, sample_kurtosis,
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sample_kurtosis_standard_error, sample_skew, sample_skew_standard_error,
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sample_standard_deviation, sample_variance, sample_weighted_variance, skew, split,<br />
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standard_deviation, standard_error, sum, sum_of_inversions, sum_of_logarithms,
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sum_of_powers, sum_of_power_deviations, sum_of_squares, sum_of_squared_deviations,
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trimmed_mean, variance, weighted_mean, weighted_rms, weighted_sums, winsorized_mean.</p>
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<h1 id="installation-and-download">Installation and download</h1>
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<ul>
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<li>Install Jruby</li>
|
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<li>jruby –S gem install mdarray</li>
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</ul>
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<h1 id="contributors">Contributors</h1>
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<ul>
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<li>Contributors are welcome.</li>
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</ul>
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<h1 id="homepages">Homepages</h1>
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<ul>
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<li>http://rubygems.org/gems/mdarray</li>
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<li>https://github.com/rbotafogo/mdarray/wiki</li>
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</ul>
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<h1 id="history">HISTORY</h1>
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<ul>
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<li>16/05/2013: Version 0.5.0: All loops transfered to Java with over 50% performance
|
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improvement. Descriptive statistics from Parallel Colt.</li>
|
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<li>19/04/2013: Version 0.4.3: Fixes a simple (but fatal bug). No new features</li>
|
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<li>17/04/2013: Version 0.4.2: Adds simple statistics and boolean operators</li>
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<li>05/05/2013: Version 0.4.0: Initial release</li>
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</ul>
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</div></div>
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<div id="footer">
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Generated on Thu May 16 12:48:34 2013 by
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<a href="http://yardoc.org" title="Yay! A Ruby Documentation Tool" target="_parent">yard</a>
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0.8.5.2 (ruby-1.9.3).
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</body>
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ADDED
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function createSourceLinks() {
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$('.method_details_list .source_code').
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function createDefineLinks() {
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$(this).parent().prev().height($(this).parent().height());
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170
|
+
for (i = 0; i < thisTag - lastTag; i++) {
|
171
|
+
var tmp = $('<ol/>'); toc.append(tmp); toc = tmp;
|
172
|
+
}
|
173
|
+
}
|
174
|
+
if (thisTag < lastTag) {
|
175
|
+
for (i = 0; i < lastTag - thisTag; i++) toc = toc.parent();
|
176
|
+
}
|
177
|
+
var title = $(this).attr('toc-title');
|
178
|
+
if (typeof(title) == "undefined") title = $(this).text();
|
179
|
+
toc.append('<li><a href="#' + this.id + '">' + title + '</a></li>');
|
180
|
+
lastTag = thisTag;
|
181
|
+
});
|
182
|
+
if (!show) return;
|
183
|
+
html = '<div id="toc"><p class="title"><a class="hide_toc" href="#"><strong>Table of Contents</strong></a> <small>(<a href="#" class="float_toc">left</a>)</small></p></div>';
|
184
|
+
$('#content').prepend(html);
|
185
|
+
$('#toc').append(_toc);
|
186
|
+
$('#toc .hide_toc').toggle(function() {
|
187
|
+
$('#toc .top').slideUp('fast');
|
188
|
+
$('#toc').toggleClass('hidden');
|
189
|
+
$('#toc .title small').toggle();
|
190
|
+
}, function() {
|
191
|
+
$('#toc .top').slideDown('fast');
|
192
|
+
$('#toc').toggleClass('hidden');
|
193
|
+
$('#toc .title small').toggle();
|
194
|
+
});
|
195
|
+
$('#toc .float_toc').toggle(function() {
|
196
|
+
$(this).text('float');
|
197
|
+
$('#toc').toggleClass('nofloat');
|
198
|
+
}, function() {
|
199
|
+
$(this).text('left');
|
200
|
+
$('#toc').toggleClass('nofloat');
|
201
|
+
});
|
202
|
+
}
|
203
|
+
|
204
|
+
$(framesInit);
|
205
|
+
$(createSourceLinks);
|
206
|
+
$(createDefineLinks);
|
207
|
+
$(createFullTreeLinks);
|
208
|
+
$(fixBoxInfoHeights);
|
209
|
+
$(searchFrameLinks);
|
210
|
+
$(linkSummaries);
|
211
|
+
$(keyboardShortcuts);
|
212
|
+
$(summaryToggle);
|
213
|
+
$(fixOutsideWorldLinks);
|
214
|
+
$(generateTOC);
|