http://git-wip-us.apache.org/repos/asf/commons-complex/blob/b3576eeb/site-content/.svn/pristine/01/019a39efbb775602a7666dc02926deacb70fcd96.svn-base ---------------------------------------------------------------------- diff --git a/site-content/.svn/pristine/01/019a39efbb775602a7666dc02926deacb70fcd96.svn-base b/site-content/.svn/pristine/01/019a39efbb775602a7666dc02926deacb70fcd96.svn-base deleted file mode 100644 index bf5a99f..0000000 --- a/site-content/.svn/pristine/01/019a39efbb775602a7666dc02926deacb70fcd96.svn-base +++ /dev/null @@ -1,277 +0,0 @@ -<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd";> -<html lang="en"> -<head> -<title>Source code</title> -<link rel="stylesheet" type="text/css" href="../../../../../../../stylesheet.css" title="Style"> -</head> -<body> -<div class="sourceContainer"> -<pre><span class="sourceLineNo">001</span>/*<a name="line.1"></a> -<span class="sourceLineNo">002</span> * Licensed to the Apache Software Foundation (ASF) under one or more<a name="line.2"></a> -<span class="sourceLineNo">003</span> * contributor license agreements. See the NOTICE file distributed with<a name="line.3"></a> -<span class="sourceLineNo">004</span> * this work for additional information regarding copyright ownership.<a name="line.4"></a> -<span class="sourceLineNo">005</span> * The ASF licenses this file to You under the Apache License, Version 2.0<a name="line.5"></a> -<span class="sourceLineNo">006</span> * (the "License"); you may not use this file except in compliance with<a name="line.6"></a> -<span class="sourceLineNo">007</span> * the License. You may obtain a copy of the License at<a name="line.7"></a> -<span class="sourceLineNo">008</span> *<a name="line.8"></a> -<span class="sourceLineNo">009</span> * http://www.apache.org/licenses/LICENSE-2.0<a name="line.9"></a> -<span class="sourceLineNo">010</span> *<a name="line.10"></a> -<span class="sourceLineNo">011</span> * Unless required by applicable law or agreed to in writing, software<a name="line.11"></a> -<span class="sourceLineNo">012</span> * distributed under the License is distributed on an "AS IS" BASIS,<a name="line.12"></a> -<span class="sourceLineNo">013</span> * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.<a name="line.13"></a> -<span class="sourceLineNo">014</span> * See the License for the specific language governing permissions and<a name="line.14"></a> -<span class="sourceLineNo">015</span> * limitations under the License.<a name="line.15"></a> -<span class="sourceLineNo">016</span> */<a name="line.16"></a> -<span class="sourceLineNo">017</span><a name="line.17"></a> -<span class="sourceLineNo">018</span>package org.apache.commons.math3.analysis.function;<a name="line.18"></a> -<span class="sourceLineNo">019</span><a name="line.19"></a> -<span class="sourceLineNo">020</span>import org.apache.commons.math3.analysis.DifferentiableUnivariateFunction;<a name="line.20"></a> -<span class="sourceLineNo">021</span>import org.apache.commons.math3.analysis.FunctionUtils;<a name="line.21"></a> -<span class="sourceLineNo">022</span>import org.apache.commons.math3.analysis.UnivariateFunction;<a name="line.22"></a> -<span class="sourceLineNo">023</span>import org.apache.commons.math3.analysis.differentiation.DerivativeStructure;<a name="line.23"></a> -<span class="sourceLineNo">024</span>import org.apache.commons.math3.analysis.differentiation.UnivariateDifferentiableFunction;<a name="line.24"></a> -<span class="sourceLineNo">025</span>import org.apache.commons.math3.exception.DimensionMismatchException;<a name="line.25"></a> -<span class="sourceLineNo">026</span>import org.apache.commons.math3.util.FastMath;<a name="line.26"></a> -<span class="sourceLineNo">027</span><a name="line.27"></a> -<span class="sourceLineNo">028</span>/**<a name="line.28"></a> -<span class="sourceLineNo">029</span> * <a href="http://en.wikipedia.org/wiki/Sinc_function">Sinc</a> function,<a name="line.29"></a> -<span class="sourceLineNo">030</span> * defined by<a name="line.30"></a> -<span class="sourceLineNo">031</span> * <pre><code><a name="line.31"></a> -<span class="sourceLineNo">032</span> * sinc(x) = 1 if x = 0,<a name="line.32"></a> -<span class="sourceLineNo">033</span> * sin(x) / x otherwise.<a name="line.33"></a> -<span class="sourceLineNo">034</span> * </code></pre><a name="line.34"></a> -<span class="sourceLineNo">035</span> *<a name="line.35"></a> -<span class="sourceLineNo">036</span> * @since 3.0<a name="line.36"></a> -<span class="sourceLineNo">037</span> */<a name="line.37"></a> -<span class="sourceLineNo">038</span>public class Sinc implements UnivariateDifferentiableFunction, DifferentiableUnivariateFunction {<a name="line.38"></a> -<span class="sourceLineNo">039</span> /**<a name="line.39"></a> -<span class="sourceLineNo">040</span> * Value below which the computations are done using Taylor series.<a name="line.40"></a> -<span class="sourceLineNo">041</span> * <p><a name="line.41"></a> -<span class="sourceLineNo">042</span> * The Taylor series for sinc even order derivatives are:<a name="line.42"></a> -<span class="sourceLineNo">043</span> * <pre><a name="line.43"></a> -<span class="sourceLineNo">044</span> * d^(2n)sinc/dx^(2n) = Sum_(k>=0) (-1)^(n+k) / ((2k)!(2n+2k+1)) x^(2k)<a name="line.44"></a> -<span class="sourceLineNo">045</span> * = (-1)^n [ 1/(2n+1) - x^2/(4n+6) + x^4/(48n+120) - x^6/(1440n+5040) + O(x^8) ]<a name="line.45"></a> -<span class="sourceLineNo">046</span> * </pre><a name="line.46"></a> -<span class="sourceLineNo">047</span> * </p><a name="line.47"></a> -<span class="sourceLineNo">048</span> * <p><a name="line.48"></a> -<span class="sourceLineNo">049</span> * The Taylor series for sinc odd order derivatives are:<a name="line.49"></a> -<span class="sourceLineNo">050</span> * <pre><a name="line.50"></a> -<span class="sourceLineNo">051</span> * d^(2n+1)sinc/dx^(2n+1) = Sum_(k>=0) (-1)^(n+k+1) / ((2k+1)!(2n+2k+3)) x^(2k+1)<a name="line.51"></a> -<span class="sourceLineNo">052</span> * = (-1)^(n+1) [ x/(2n+3) - x^3/(12n+30) + x^5/(240n+840) - x^7/(10080n+45360) + O(x^9) ]<a name="line.52"></a> -<span class="sourceLineNo">053</span> * </pre><a name="line.53"></a> -<span class="sourceLineNo">054</span> * </p><a name="line.54"></a> -<span class="sourceLineNo">055</span> * <p><a name="line.55"></a> -<span class="sourceLineNo">056</span> * So the ratio of the fourth term with respect to the first term<a name="line.56"></a> -<span class="sourceLineNo">057</span> * is always smaller than x^6/720, for all derivative orders.<a name="line.57"></a> -<span class="sourceLineNo">058</span> * This implies that neglecting this term and using only the first three terms induces<a name="line.58"></a> -<span class="sourceLineNo">059</span> * a relative error bounded by x^6/720. The SHORTCUT value is chosen such that this<a name="line.59"></a> -<span class="sourceLineNo">060</span> * relative error is below double precision accuracy when |x| <= SHORTCUT.<a name="line.60"></a> -<span class="sourceLineNo">061</span> * </p><a name="line.61"></a> -<span class="sourceLineNo">062</span> */<a name="line.62"></a> -<span class="sourceLineNo">063</span> private static final double SHORTCUT = 6.0e-3;<a name="line.63"></a> -<span class="sourceLineNo">064</span> /** For normalized sinc function. */<a name="line.64"></a> -<span class="sourceLineNo">065</span> private final boolean normalized;<a name="line.65"></a> -<span class="sourceLineNo">066</span><a name="line.66"></a> -<span class="sourceLineNo">067</span> /**<a name="line.67"></a> -<span class="sourceLineNo">068</span> * The sinc function, {@code sin(x) / x}.<a name="line.68"></a> -<span class="sourceLineNo">069</span> */<a name="line.69"></a> -<span class="sourceLineNo">070</span> public Sinc() {<a name="line.70"></a> -<span class="sourceLineNo">071</span> this(false);<a name="line.71"></a> -<span class="sourceLineNo">072</span> }<a name="line.72"></a> -<span class="sourceLineNo">073</span><a name="line.73"></a> -<span class="sourceLineNo">074</span> /**<a name="line.74"></a> -<span class="sourceLineNo">075</span> * Instantiates the sinc function.<a name="line.75"></a> -<span class="sourceLineNo">076</span> *<a name="line.76"></a> -<span class="sourceLineNo">077</span> * @param normalized If {@code true}, the function is<a name="line.77"></a> -<span class="sourceLineNo">078</span> * <code> sin(&pi;x) / &pi;x</code>, otherwise {@code sin(x) / x}.<a name="line.78"></a> -<span class="sourceLineNo">079</span> */<a name="line.79"></a> -<span class="sourceLineNo">080</span> public Sinc(boolean normalized) {<a name="line.80"></a> -<span class="sourceLineNo">081</span> this.normalized = normalized;<a name="line.81"></a> -<span class="sourceLineNo">082</span> }<a name="line.82"></a> -<span class="sourceLineNo">083</span><a name="line.83"></a> -<span class="sourceLineNo">084</span> /** {@inheritDoc} */<a name="line.84"></a> -<span class="sourceLineNo">085</span> public double value(final double x) {<a name="line.85"></a> -<span class="sourceLineNo">086</span> final double scaledX = normalized ? FastMath.PI * x : x;<a name="line.86"></a> -<span class="sourceLineNo">087</span> if (FastMath.abs(scaledX) <= SHORTCUT) {<a name="line.87"></a> -<span class="sourceLineNo">088</span> // use Taylor series<a name="line.88"></a> -<span class="sourceLineNo">089</span> final double scaledX2 = scaledX * scaledX;<a name="line.89"></a> -<span class="sourceLineNo">090</span> return ((scaledX2 - 20) * scaledX2 + 120) / 120;<a name="line.90"></a> -<span class="sourceLineNo">091</span> } else {<a name="line.91"></a> -<span class="sourceLineNo">092</span> // use definition expression<a name="line.92"></a> -<span class="sourceLineNo">093</span> return FastMath.sin(scaledX) / scaledX;<a name="line.93"></a> -<span class="sourceLineNo">094</span> }<a name="line.94"></a> -<span class="sourceLineNo">095</span> }<a name="line.95"></a> -<span class="sourceLineNo">096</span><a name="line.96"></a> -<span class="sourceLineNo">097</span> /** {@inheritDoc}<a name="line.97"></a> -<span class="sourceLineNo">098</span> * @deprecated as of 3.1, replaced by {@link #value(DerivativeStructure)}<a name="line.98"></a> -<span class="sourceLineNo">099</span> */<a name="line.99"></a> -<span class="sourceLineNo">100</span> @Deprecated<a name="line.100"></a> -<span class="sourceLineNo">101</span> public UnivariateFunction derivative() {<a name="line.101"></a> -<span class="sourceLineNo">102</span> return FunctionUtils.toDifferentiableUnivariateFunction(this).derivative();<a name="line.102"></a> -<span class="sourceLineNo">103</span> }<a name="line.103"></a> -<span class="sourceLineNo">104</span><a name="line.104"></a> -<span class="sourceLineNo">105</span> /** {@inheritDoc}<a name="line.105"></a> -<span class="sourceLineNo">106</span> * @since 3.1<a name="line.106"></a> -<span class="sourceLineNo">107</span> */<a name="line.107"></a> -<span class="sourceLineNo">108</span> public DerivativeStructure value(final DerivativeStructure t)<a name="line.108"></a> -<span class="sourceLineNo">109</span> throws DimensionMismatchException {<a name="line.109"></a> -<span class="sourceLineNo">110</span><a name="line.110"></a> -<span class="sourceLineNo">111</span> final double scaledX = (normalized ? FastMath.PI : 1) * t.getValue();<a name="line.111"></a> -<span class="sourceLineNo">112</span> final double scaledX2 = scaledX * scaledX;<a name="line.112"></a> -<span class="sourceLineNo">113</span><a name="line.113"></a> -<span class="sourceLineNo">114</span> double[] f = new double[t.getOrder() + 1];<a name="line.114"></a> -<span class="sourceLineNo">115</span><a name="line.115"></a> -<span class="sourceLineNo">116</span> if (FastMath.abs(scaledX) <= SHORTCUT) {<a name="line.116"></a> -<span class="sourceLineNo">117</span><a name="line.117"></a> -<span class="sourceLineNo">118</span> for (int i = 0; i < f.length; ++i) {<a name="line.118"></a> -<span class="sourceLineNo">119</span> final int k = i / 2;<a name="line.119"></a> -<span class="sourceLineNo">120</span> if ((i & 0x1) == 0) {<a name="line.120"></a> -<span class="sourceLineNo">121</span> // even derivation order<a name="line.121"></a> -<span class="sourceLineNo">122</span> f[i] = (((k & 0x1) == 0) ? 1 : -1) *<a name="line.122"></a> -<span class="sourceLineNo">123</span> (1.0 / (i + 1) - scaledX2 * (1.0 / (2 * i + 6) - scaledX2 / (24 * i + 120)));<a name="line.123"></a> -<span class="sourceLineNo">124</span> } else {<a name="line.124"></a> -<span class="sourceLineNo">125</span> // odd derivation order<a name="line.125"></a> -<span class="sourceLineNo">126</span> f[i] = (((k & 0x1) == 0) ? -scaledX : scaledX) *<a name="line.126"></a> -<span class="sourceLineNo">127</span> (1.0 / (i + 2) - scaledX2 * (1.0 / (6 * i + 24) - scaledX2 / (120 * i + 720)));<a name="line.127"></a> -<span class="sourceLineNo">128</span> }<a name="line.128"></a> -<span class="sourceLineNo">129</span> }<a name="line.129"></a> -<span class="sourceLineNo">130</span><a name="line.130"></a> -<span class="sourceLineNo">131</span> } else {<a name="line.131"></a> -<span class="sourceLineNo">132</span><a name="line.132"></a> -<span class="sourceLineNo">133</span> final double inv = 1 / scaledX;<a name="line.133"></a> -<span class="sourceLineNo">134</span> final double cos = FastMath.cos(scaledX);<a name="line.134"></a> -<span class="sourceLineNo">135</span> final double sin = FastMath.sin(scaledX);<a name="line.135"></a> -<span class="sourceLineNo">136</span><a name="line.136"></a> -<span class="sourceLineNo">137</span> f[0] = inv * sin;<a name="line.137"></a> -<span class="sourceLineNo">138</span><a name="line.138"></a> -<span class="sourceLineNo">139</span> // the nth order derivative of sinc has the form:<a name="line.139"></a> -<span class="sourceLineNo">140</span> // dn(sinc(x)/dxn = [S_n(x) sin(x) + C_n(x) cos(x)] / x^(n+1)<a name="line.140"></a> -<span class="sourceLineNo">141</span> // where S_n(x) is an even polynomial with degree n-1 or n (depending on parity)<a name="line.141"></a> -<span class="sourceLineNo">142</span> // and C_n(x) is an odd polynomial with degree n-1 or n (depending on parity)<a name="line.142"></a> -<span class="sourceLineNo">143</span> // S_0(x) = 1, S_1(x) = -1, S_2(x) = -x^2 + 2, S_3(x) = 3x^2 - 6...<a name="line.143"></a> -<span class="sourceLineNo">144</span> // C_0(x) = 0, C_1(x) = x, C_2(x) = -2x, C_3(x) = -x^3 + 6x...<a name="line.144"></a> -<span class="sourceLineNo">145</span> // the general recurrence relations for S_n and C_n are:<a name="line.145"></a> -<span class="sourceLineNo">146</span> // S_n(x) = x S_(n-1)'(x) - n S_(n-1)(x) - x C_(n-1)(x)<a name="line.146"></a> -<span class="sourceLineNo">147</span> // C_n(x) = x C_(n-1)'(x) - n C_(n-1)(x) + x S_(n-1)(x)<a name="line.147"></a> -<span class="sourceLineNo">148</span> // as per polynomials parity, we can store both S_n and C_n in the same array<a name="line.148"></a> -<span class="sourceLineNo">149</span> final double[] sc = new double[f.length];<a name="line.149"></a> -<span class="sourceLineNo">150</span> sc[0] = 1;<a name="line.150"></a> -<span class="sourceLineNo">151</span><a name="line.151"></a> -<span class="sourceLineNo">152</span> double coeff = inv;<a name="line.152"></a> -<span class="sourceLineNo">153</span> for (int n = 1; n < f.length; ++n) {<a name="line.153"></a> -<span class="sourceLineNo">154</span><a name="line.154"></a> -<span class="sourceLineNo">155</span> double s = 0;<a name="line.155"></a> -<span class="sourceLineNo">156</span> double c = 0;<a name="line.156"></a> -<span class="sourceLineNo">157</span><a name="line.157"></a> -<span class="sourceLineNo">158</span> // update and evaluate polynomials S_n(x) and C_n(x)<a name="line.158"></a> -<span class="sourceLineNo">159</span> final int kStart;<a name="line.159"></a> -<span class="sourceLineNo">160</span> if ((n & 0x1) == 0) {<a name="line.160"></a> -<span class="sourceLineNo">161</span> // even derivation order, S_n is degree n and C_n is degree n-1<a name="line.161"></a> -<span class="sourceLineNo">162</span> sc[n] = 0;<a name="line.162"></a> -<span class="sourceLineNo">163</span> kStart = n;<a name="line.163"></a> -<span class="sourceLineNo">164</span> } else {<a name="line.164"></a> -<span class="sourceLineNo">165</span> // odd derivation order, S_n is degree n-1 and C_n is degree n<a name="line.165"></a> -<span class="sourceLineNo">166</span> sc[n] = sc[n - 1];<a name="line.166"></a> -<span class="sourceLineNo">167</span> c = sc[n];<a name="line.167"></a> -<span class="sourceLineNo">168</span> kStart = n - 1;<a name="line.168"></a> -<span class="sourceLineNo">169</span> }<a name="line.169"></a> -<span class="sourceLineNo">170</span><a name="line.170"></a> -<span class="sourceLineNo">171</span> // in this loop, k is always even<a name="line.171"></a> -<span class="sourceLineNo">172</span> for (int k = kStart; k > 1; k -= 2) {<a name="line.172"></a> -<span class="sourceLineNo">173</span><a name="line.173"></a> -<span class="sourceLineNo">174</span> // sine part<a name="line.174"></a> -<span class="sourceLineNo">175</span> sc[k] = (k - n) * sc[k] - sc[k - 1];<a name="line.175"></a> -<span class="sourceLineNo">176</span> s = s * scaledX2 + sc[k];<a name="line.176"></a> -<span class="sourceLineNo">177</span><a name="line.177"></a> -<span class="sourceLineNo">178</span> // cosine part<a name="line.178"></a> -<span class="sourceLineNo">179</span> sc[k - 1] = (k - 1 - n) * sc[k - 1] + sc[k -2];<a name="line.179"></a> -<span class="sourceLineNo">180</span> c = c * scaledX2 + sc[k - 1];<a name="line.180"></a> -<span class="sourceLineNo">181</span><a name="line.181"></a> -<span class="sourceLineNo">182</span> }<a name="line.182"></a> -<span class="sourceLineNo">183</span> sc[0] *= -n;<a name="line.183"></a> -<span class="sourceLineNo">184</span> s = s * scaledX2 + sc[0];<a name="line.184"></a> -<span class="sourceLineNo">185</span><a name="line.185"></a> -<span class="sourceLineNo">186</span> coeff *= inv;<a name="line.186"></a> -<span class="sourceLineNo">187</span> f[n] = coeff * (s * sin + c * scaledX * cos);<a name="line.187"></a> -<span class="sourceLineNo">188</span><a name="line.188"></a> -<span class="sourceLineNo">189</span> }<a name="line.189"></a> -<span class="sourceLineNo">190</span><a name="line.190"></a> -<span class="sourceLineNo">191</span> }<a name="line.191"></a> -<span class="sourceLineNo">192</span><a name="line.192"></a> -<span class="sourceLineNo">193</span> if (normalized) {<a name="line.193"></a> -<span class="sourceLineNo">194</span> double scale = FastMath.PI;<a name="line.194"></a> -<span class="sourceLineNo">195</span> for (int i = 1; i < f.length; ++i) {<a name="line.195"></a> -<span class="sourceLineNo">196</span> f[i] *= scale;<a name="line.196"></a> -<span class="sourceLineNo">197</span> scale *= FastMath.PI;<a name="line.197"></a> -<span class="sourceLineNo">198</span> }<a name="line.198"></a> -<span class="sourceLineNo">199</span> }<a name="line.199"></a> -<span class="sourceLineNo">200</span><a name="line.200"></a> -<span class="sourceLineNo">201</span> return t.compose(f);<a name="line.201"></a> -<span class="sourceLineNo">202</span><a name="line.202"></a> -<span class="sourceLineNo">203</span> }<a name="line.203"></a> -<span class="sourceLineNo">204</span><a name="line.204"></a> -<span class="sourceLineNo">205</span>}<a name="line.205"></a> - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -</pre> -</div> -</body> -</html>
http://git-wip-us.apache.org/repos/asf/commons-complex/blob/b3576eeb/site-content/.svn/pristine/01/019ba2079f43dde18533cc55b38d33e7f822ae6f.svn-base ---------------------------------------------------------------------- diff --git a/site-content/.svn/pristine/01/019ba2079f43dde18533cc55b38d33e7f822ae6f.svn-base b/site-content/.svn/pristine/01/019ba2079f43dde18533cc55b38d33e7f822ae6f.svn-base deleted file mode 100644 index e167fa2..0000000 --- a/site-content/.svn/pristine/01/019ba2079f43dde18533cc55b38d33e7f822ae6f.svn-base +++ /dev/null @@ -1,442 +0,0 @@ -<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd";> -<html lang="en"> -<head> -<title>Source code</title> -<link rel="stylesheet" type="text/css" href="../../../../../../../stylesheet.css" title="Style"> -</head> -<body> -<div class="sourceContainer"> -<pre><span class="sourceLineNo">001</span>/*<a name="line.1"></a> -<span class="sourceLineNo">002</span> * Licensed to the Apache Software Foundation (ASF) under one or more<a name="line.2"></a> -<span class="sourceLineNo">003</span> * contributor license agreements. See the NOTICE file distributed with<a name="line.3"></a> -<span class="sourceLineNo">004</span> * this work for additional information regarding copyright ownership.<a name="line.4"></a> -<span class="sourceLineNo">005</span> * The ASF licenses this file to You under the Apache License, Version 2.0<a name="line.5"></a> -<span class="sourceLineNo">006</span> * (the "License"); you may not use this file except in compliance with<a name="line.6"></a> -<span class="sourceLineNo">007</span> * the License. You may obtain a copy of the License at<a name="line.7"></a> -<span class="sourceLineNo">008</span> *<a name="line.8"></a> -<span class="sourceLineNo">009</span> * http://www.apache.org/licenses/LICENSE-2.0<a name="line.9"></a> -<span class="sourceLineNo">010</span> *<a name="line.10"></a> -<span class="sourceLineNo">011</span> * Unless required by applicable law or agreed to in writing, software<a name="line.11"></a> -<span class="sourceLineNo">012</span> * distributed under the License is distributed on an "AS IS" BASIS,<a name="line.12"></a> -<span class="sourceLineNo">013</span> * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.<a name="line.13"></a> -<span class="sourceLineNo">014</span> * See the License for the specific language governing permissions and<a name="line.14"></a> -<span class="sourceLineNo">015</span> * limitations under the License.<a name="line.15"></a> -<span class="sourceLineNo">016</span> */<a name="line.16"></a> -<span class="sourceLineNo">017</span>package org.apache.commons.math3.fitting.leastsquares;<a name="line.17"></a> -<span class="sourceLineNo">018</span><a name="line.18"></a> -<span class="sourceLineNo">019</span>import java.io.BufferedReader;<a name="line.19"></a> -<span class="sourceLineNo">020</span>import java.io.IOException;<a name="line.20"></a> -<span class="sourceLineNo">021</span>import java.util.ArrayList;<a name="line.21"></a> -<span class="sourceLineNo">022</span>import org.apache.commons.math3.analysis.MultivariateVectorFunction;<a name="line.22"></a> -<span class="sourceLineNo">023</span>import org.apache.commons.math3.analysis.MultivariateMatrixFunction;<a name="line.23"></a> -<span class="sourceLineNo">024</span>import org.apache.commons.math3.util.MathArrays;<a name="line.24"></a> -<span class="sourceLineNo">025</span><a name="line.25"></a> -<span class="sourceLineNo">026</span>/**<a name="line.26"></a> -<span class="sourceLineNo">027</span> * This class gives access to the statistical reference datasets provided by the<a name="line.27"></a> -<span class="sourceLineNo">028</span> * NIST (available<a name="line.28"></a> -<span class="sourceLineNo">029</span> * <a href="http://www.itl.nist.gov/div898/strd/general/dataarchive.html">here</a>).<a name="line.29"></a> -<span class="sourceLineNo">030</span> * Instances of this class can be created by invocation of the<a name="line.30"></a> -<span class="sourceLineNo">031</span> * {@link StatisticalReferenceDatasetFactory}.<a name="line.31"></a> -<span class="sourceLineNo">032</span> */<a name="line.32"></a> -<span class="sourceLineNo">033</span>public abstract class StatisticalReferenceDataset {<a name="line.33"></a> -<span class="sourceLineNo">034</span> /** The name of this dataset. */<a name="line.34"></a> -<span class="sourceLineNo">035</span> private final String name;<a name="line.35"></a> -<span class="sourceLineNo">036</span> /** The total number of observations (data points). */<a name="line.36"></a> -<span class="sourceLineNo">037</span> private final int numObservations;<a name="line.37"></a> -<span class="sourceLineNo">038</span> /** The total number of parameters. */<a name="line.38"></a> -<span class="sourceLineNo">039</span> private final int numParameters;<a name="line.39"></a> -<span class="sourceLineNo">040</span> /** The total number of starting points for the optimizations. */<a name="line.40"></a> -<span class="sourceLineNo">041</span> private final int numStartingPoints;<a name="line.41"></a> -<span class="sourceLineNo">042</span> /** The values of the predictor. */<a name="line.42"></a> -<span class="sourceLineNo">043</span> private final double[] x;<a name="line.43"></a> -<span class="sourceLineNo">044</span> /** The values of the response. */<a name="line.44"></a> -<span class="sourceLineNo">045</span> private final double[] y;<a name="line.45"></a> -<span class="sourceLineNo">046</span> /**<a name="line.46"></a> -<span class="sourceLineNo">047</span> * The starting values. {@code startingValues[j][i]} is the value of the<a name="line.47"></a> -<span class="sourceLineNo">048</span> * {@code i}-th parameter in the {@code j}-th set of starting values.<a name="line.48"></a> -<span class="sourceLineNo">049</span> */<a name="line.49"></a> -<span class="sourceLineNo">050</span> private final double[][] startingValues;<a name="line.50"></a> -<span class="sourceLineNo">051</span> /** The certified values of the parameters. */<a name="line.51"></a> -<span class="sourceLineNo">052</span> private final double[] a;<a name="line.52"></a> -<span class="sourceLineNo">053</span> /** The certified values of the standard deviation of the parameters. */<a name="line.53"></a> -<span class="sourceLineNo">054</span> private final double[] sigA;<a name="line.54"></a> -<span class="sourceLineNo">055</span> /** The certified value of the residual sum of squares. */<a name="line.55"></a> -<span class="sourceLineNo">056</span> private double residualSumOfSquares;<a name="line.56"></a> -<span class="sourceLineNo">057</span> /** The least-squares problem. */<a name="line.57"></a> -<span class="sourceLineNo">058</span> private final LeastSquaresProblem problem;<a name="line.58"></a> -<span class="sourceLineNo">059</span><a name="line.59"></a> -<span class="sourceLineNo">060</span> /**<a name="line.60"></a> -<span class="sourceLineNo">061</span> * Creates a new instance of this class from the specified data file. The<a name="line.61"></a> -<span class="sourceLineNo">062</span> * file must follow the StRD format.<a name="line.62"></a> -<span class="sourceLineNo">063</span> *<a name="line.63"></a> -<span class="sourceLineNo">064</span> * @param in the data file<a name="line.64"></a> -<span class="sourceLineNo">065</span> * @throws IOException if an I/O error occurs<a name="line.65"></a> -<span class="sourceLineNo">066</span> */<a name="line.66"></a> -<span class="sourceLineNo">067</span> public StatisticalReferenceDataset(final BufferedReader in)<a name="line.67"></a> -<span class="sourceLineNo">068</span> throws IOException {<a name="line.68"></a> -<span class="sourceLineNo">069</span><a name="line.69"></a> -<span class="sourceLineNo">070</span> final ArrayList<String> lines = new ArrayList<String>();<a name="line.70"></a> -<span class="sourceLineNo">071</span> for (String line = in.readLine(); line != null; line = in.readLine()) {<a name="line.71"></a> -<span class="sourceLineNo">072</span> lines.add(line);<a name="line.72"></a> -<span class="sourceLineNo">073</span> }<a name="line.73"></a> -<span class="sourceLineNo">074</span> int[] index = findLineNumbers("Data", lines);<a name="line.74"></a> -<span class="sourceLineNo">075</span> if (index == null) {<a name="line.75"></a> -<span class="sourceLineNo">076</span> throw new AssertionError("could not find line indices for data");<a name="line.76"></a> -<span class="sourceLineNo">077</span> }<a name="line.77"></a> -<span class="sourceLineNo">078</span> this.numObservations = index[1] - index[0] + 1;<a name="line.78"></a> -<span class="sourceLineNo">079</span> this.x = new double[this.numObservations];<a name="line.79"></a> -<span class="sourceLineNo">080</span> this.y = new double[this.numObservations];<a name="line.80"></a> -<span class="sourceLineNo">081</span> for (int i = 0; i < this.numObservations; i++) {<a name="line.81"></a> -<span class="sourceLineNo">082</span> final String line = lines.get(index[0] + i - 1);<a name="line.82"></a> -<span class="sourceLineNo">083</span> final String[] tokens = line.trim().split(" ++");<a name="line.83"></a> -<span class="sourceLineNo">084</span> // Data columns are in reverse order!!!<a name="line.84"></a> -<span class="sourceLineNo">085</span> this.y[i] = Double.parseDouble(tokens[0]);<a name="line.85"></a> -<span class="sourceLineNo">086</span> this.x[i] = Double.parseDouble(tokens[1]);<a name="line.86"></a> -<span class="sourceLineNo">087</span> }<a name="line.87"></a> -<span class="sourceLineNo">088</span><a name="line.88"></a> -<span class="sourceLineNo">089</span> index = findLineNumbers("Starting Values", lines);<a name="line.89"></a> -<span class="sourceLineNo">090</span> if (index == null) {<a name="line.90"></a> -<span class="sourceLineNo">091</span> throw new AssertionError(<a name="line.91"></a> -<span class="sourceLineNo">092</span> "could not find line indices for starting values");<a name="line.92"></a> -<span class="sourceLineNo">093</span> }<a name="line.93"></a> -<span class="sourceLineNo">094</span> this.numParameters = index[1] - index[0] + 1;<a name="line.94"></a> -<span class="sourceLineNo">095</span><a name="line.95"></a> -<span class="sourceLineNo">096</span> double[][] start = null;<a name="line.96"></a> -<span class="sourceLineNo">097</span> this.a = new double[numParameters];<a name="line.97"></a> -<span class="sourceLineNo">098</span> this.sigA = new double[numParameters];<a name="line.98"></a> -<span class="sourceLineNo">099</span> for (int i = 0; i < numParameters; i++) {<a name="line.99"></a> -<span class="sourceLineNo">100</span> final String line = lines.get(index[0] + i - 1);<a name="line.100"></a> -<span class="sourceLineNo">101</span> final String[] tokens = line.trim().split(" ++");<a name="line.101"></a> -<span class="sourceLineNo">102</span> if (start == null) {<a name="line.102"></a> -<span class="sourceLineNo">103</span> start = new double[tokens.length - 4][numParameters];<a name="line.103"></a> -<span class="sourceLineNo">104</span> }<a name="line.104"></a> -<span class="sourceLineNo">105</span> for (int j = 2; j < tokens.length - 2; j++) {<a name="line.105"></a> -<span class="sourceLineNo">106</span> start[j - 2][i] = Double.parseDouble(tokens[j]);<a name="line.106"></a> -<span class="sourceLineNo">107</span> }<a name="line.107"></a> -<span class="sourceLineNo">108</span> this.a[i] = Double.parseDouble(tokens[tokens.length - 2]);<a name="line.108"></a> -<span class="sourceLineNo">109</span> this.sigA[i] = Double.parseDouble(tokens[tokens.length - 1]);<a name="line.109"></a> -<span class="sourceLineNo">110</span> }<a name="line.110"></a> -<span class="sourceLineNo">111</span> if (start == null) {<a name="line.111"></a> -<span class="sourceLineNo">112</span> throw new IOException("could not find starting values");<a name="line.112"></a> -<span class="sourceLineNo">113</span> }<a name="line.113"></a> -<span class="sourceLineNo">114</span> this.numStartingPoints = start.length;<a name="line.114"></a> -<span class="sourceLineNo">115</span> this.startingValues = start;<a name="line.115"></a> -<span class="sourceLineNo">116</span><a name="line.116"></a> -<span class="sourceLineNo">117</span> double dummyDouble = Double.NaN;<a name="line.117"></a> -<span class="sourceLineNo">118</span> String dummyString = null;<a name="line.118"></a> -<span class="sourceLineNo">119</span> for (String line : lines) {<a name="line.119"></a> -<span class="sourceLineNo">120</span> if (line.contains("Dataset Name:")) {<a name="line.120"></a> -<span class="sourceLineNo">121</span> dummyString = line<a name="line.121"></a> -<span class="sourceLineNo">122</span> .substring(line.indexOf("Dataset Name:") + 13,<a name="line.122"></a> -<span class="sourceLineNo">123</span> line.indexOf("(")).trim();<a name="line.123"></a> -<span class="sourceLineNo">124</span> }<a name="line.124"></a> -<span class="sourceLineNo">125</span> if (line.contains("Residual Sum of Squares")) {<a name="line.125"></a> -<span class="sourceLineNo">126</span> final String[] tokens = line.split(" ++");<a name="line.126"></a> -<span class="sourceLineNo">127</span> dummyDouble = Double.parseDouble(tokens[4].trim());<a name="line.127"></a> -<span class="sourceLineNo">128</span> }<a name="line.128"></a> -<span class="sourceLineNo">129</span> }<a name="line.129"></a> -<span class="sourceLineNo">130</span> if (Double.isNaN(dummyDouble)) {<a name="line.130"></a> -<span class="sourceLineNo">131</span> throw new IOException(<a name="line.131"></a> -<span class="sourceLineNo">132</span> "could not find certified value of residual sum of squares");<a name="line.132"></a> -<span class="sourceLineNo">133</span> }<a name="line.133"></a> -<span class="sourceLineNo">134</span> this.residualSumOfSquares = dummyDouble;<a name="line.134"></a> -<span class="sourceLineNo">135</span><a name="line.135"></a> -<span class="sourceLineNo">136</span> if (dummyString == null) {<a name="line.136"></a> -<span class="sourceLineNo">137</span> throw new IOException("could not find dataset name");<a name="line.137"></a> -<span class="sourceLineNo">138</span> }<a name="line.138"></a> -<span class="sourceLineNo">139</span> this.name = dummyString;<a name="line.139"></a> -<span class="sourceLineNo">140</span><a name="line.140"></a> -<span class="sourceLineNo">141</span> this.problem = new LeastSquaresProblem();<a name="line.141"></a> -<span class="sourceLineNo">142</span> }<a name="line.142"></a> -<span class="sourceLineNo">143</span><a name="line.143"></a> -<span class="sourceLineNo">144</span> class LeastSquaresProblem {<a name="line.144"></a> -<span class="sourceLineNo">145</span> public MultivariateVectorFunction getModelFunction() {<a name="line.145"></a> -<span class="sourceLineNo">146</span> return new MultivariateVectorFunction() {<a name="line.146"></a> -<span class="sourceLineNo">147</span> public double[] value(final double[] a) {<a name="line.147"></a> -<span class="sourceLineNo">148</span> final int n = getNumObservations();<a name="line.148"></a> -<span class="sourceLineNo">149</span> final double[] yhat = new double[n];<a name="line.149"></a> -<span class="sourceLineNo">150</span> for (int i = 0; i < n; i++) {<a name="line.150"></a> -<span class="sourceLineNo">151</span> yhat[i] = getModelValue(getX(i), a);<a name="line.151"></a> -<span class="sourceLineNo">152</span> }<a name="line.152"></a> -<span class="sourceLineNo">153</span> return yhat;<a name="line.153"></a> -<span class="sourceLineNo">154</span> }<a name="line.154"></a> -<span class="sourceLineNo">155</span> };<a name="line.155"></a> -<span class="sourceLineNo">156</span> }<a name="line.156"></a> -<span class="sourceLineNo">157</span><a name="line.157"></a> -<span class="sourceLineNo">158</span> public MultivariateMatrixFunction getModelFunctionJacobian() {<a name="line.158"></a> -<span class="sourceLineNo">159</span> return new MultivariateMatrixFunction() {<a name="line.159"></a> -<span class="sourceLineNo">160</span> public double[][] value(final double[] a)<a name="line.160"></a> -<span class="sourceLineNo">161</span> throws IllegalArgumentException {<a name="line.161"></a> -<span class="sourceLineNo">162</span> final int n = getNumObservations();<a name="line.162"></a> -<span class="sourceLineNo">163</span> final double[][] j = new double[n][];<a name="line.163"></a> -<span class="sourceLineNo">164</span> for (int i = 0; i < n; i++) {<a name="line.164"></a> -<span class="sourceLineNo">165</span> j[i] = getModelDerivatives(getX(i), a);<a name="line.165"></a> -<span class="sourceLineNo">166</span> }<a name="line.166"></a> -<span class="sourceLineNo">167</span> return j;<a name="line.167"></a> -<span class="sourceLineNo">168</span> }<a name="line.168"></a> -<span class="sourceLineNo">169</span> };<a name="line.169"></a> -<span class="sourceLineNo">170</span> }<a name="line.170"></a> -<span class="sourceLineNo">171</span> }<a name="line.171"></a> -<span class="sourceLineNo">172</span><a name="line.172"></a> -<span class="sourceLineNo">173</span> /**<a name="line.173"></a> -<span class="sourceLineNo">174</span> * Returns the name of this dataset.<a name="line.174"></a> -<span class="sourceLineNo">175</span> *<a name="line.175"></a> -<span class="sourceLineNo">176</span> * @return the name of the dataset<a name="line.176"></a> -<span class="sourceLineNo">177</span> */<a name="line.177"></a> -<span class="sourceLineNo">178</span> public String getName() {<a name="line.178"></a> -<span class="sourceLineNo">179</span> return name;<a name="line.179"></a> -<span class="sourceLineNo">180</span> }<a name="line.180"></a> -<span class="sourceLineNo">181</span><a name="line.181"></a> -<span class="sourceLineNo">182</span> /**<a name="line.182"></a> -<span class="sourceLineNo">183</span> * Returns the total number of observations (data points).<a name="line.183"></a> -<span class="sourceLineNo">184</span> *<a name="line.184"></a> -<span class="sourceLineNo">185</span> * @return the number of observations<a name="line.185"></a> -<span class="sourceLineNo">186</span> */<a name="line.186"></a> -<span class="sourceLineNo">187</span> public int getNumObservations() {<a name="line.187"></a> -<span class="sourceLineNo">188</span> return numObservations;<a name="line.188"></a> -<span class="sourceLineNo">189</span> }<a name="line.189"></a> -<span class="sourceLineNo">190</span><a name="line.190"></a> -<span class="sourceLineNo">191</span> /**<a name="line.191"></a> -<span class="sourceLineNo">192</span> * Returns a copy of the data arrays. The data is laid out as follows <li><a name="line.192"></a> -<span class="sourceLineNo">193</span> * {@code data[0][i] = x[i]},</li> <li>{@code data[1][i] = y[i]},</li><a name="line.193"></a> -<span class="sourceLineNo">194</span> *<a name="line.194"></a> -<span class="sourceLineNo">195</span> * @return the array of data points.<a name="line.195"></a> -<span class="sourceLineNo">196</span> */<a name="line.196"></a> -<span class="sourceLineNo">197</span> public double[][] getData() {<a name="line.197"></a> -<span class="sourceLineNo">198</span> return new double[][] {<a name="line.198"></a> -<span class="sourceLineNo">199</span> MathArrays.copyOf(x), MathArrays.copyOf(y)<a name="line.199"></a> -<span class="sourceLineNo">200</span> };<a name="line.200"></a> -<span class="sourceLineNo">201</span> }<a name="line.201"></a> -<span class="sourceLineNo">202</span><a name="line.202"></a> -<span class="sourceLineNo">203</span> /**<a name="line.203"></a> -<span class="sourceLineNo">204</span> * Returns the x-value of the {@code i}-th data point.<a name="line.204"></a> -<span class="sourceLineNo">205</span> *<a name="line.205"></a> -<span class="sourceLineNo">206</span> * @param i the index of the data point<a name="line.206"></a> -<span class="sourceLineNo">207</span> * @return the x-value<a name="line.207"></a> -<span class="sourceLineNo">208</span> */<a name="line.208"></a> -<span class="sourceLineNo">209</span> public double getX(final int i) {<a name="line.209"></a> -<span class="sourceLineNo">210</span> return x[i];<a name="line.210"></a> -<span class="sourceLineNo">211</span> }<a name="line.211"></a> -<span class="sourceLineNo">212</span><a name="line.212"></a> -<span class="sourceLineNo">213</span> /**<a name="line.213"></a> -<span class="sourceLineNo">214</span> * Returns the y-value of the {@code i}-th data point.<a name="line.214"></a> -<span class="sourceLineNo">215</span> *<a name="line.215"></a> -<span class="sourceLineNo">216</span> * @param i the index of the data point<a name="line.216"></a> -<span class="sourceLineNo">217</span> * @return the y-value<a name="line.217"></a> -<span class="sourceLineNo">218</span> */<a name="line.218"></a> -<span class="sourceLineNo">219</span> public double getY(final int i) {<a name="line.219"></a> -<span class="sourceLineNo">220</span> return y[i];<a name="line.220"></a> -<span class="sourceLineNo">221</span> }<a name="line.221"></a> -<span class="sourceLineNo">222</span><a name="line.222"></a> -<span class="sourceLineNo">223</span> /**<a name="line.223"></a> -<span class="sourceLineNo">224</span> * Returns the total number of parameters.<a name="line.224"></a> -<span class="sourceLineNo">225</span> *<a name="line.225"></a> -<span class="sourceLineNo">226</span> * @return the number of parameters<a name="line.226"></a> -<span class="sourceLineNo">227</span> */<a name="line.227"></a> -<span class="sourceLineNo">228</span> public int getNumParameters() {<a name="line.228"></a> -<span 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class="sourceLineNo">242</span> * Returns the certified value of the {@code i}-th parameter.<a name="line.242"></a> -<span class="sourceLineNo">243</span> *<a name="line.243"></a> -<span class="sourceLineNo">244</span> * @param i the index of the parameter<a name="line.244"></a> -<span class="sourceLineNo">245</span> * @return the value of the parameter<a name="line.245"></a> -<span class="sourceLineNo">246</span> */<a name="line.246"></a> -<span class="sourceLineNo">247</span> public double getParameter(final int i) {<a name="line.247"></a> -<span class="sourceLineNo">248</span> return a[i];<a name="line.248"></a> -<span class="sourceLineNo">249</span> }<a name="line.249"></a> -<span class="sourceLineNo">250</span><a name="line.250"></a> -<span class="sourceLineNo">251</span> /**<a name="line.251"></a> -<span class="sourceLineNo">252</span> * Reurns the certified values of the standard deviations of the parameters.<a name="line.252"></a> -<span class="sourceLineNo">253</span> *<a 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class="sourceLineNo">265</span> * @return the standard deviation of the parameter<a name="line.265"></a> -<span class="sourceLineNo">266</span> */<a name="line.266"></a> -<span class="sourceLineNo">267</span> public double getParameterStandardDeviation(final int i) {<a name="line.267"></a> -<span class="sourceLineNo">268</span> return sigA[i];<a name="line.268"></a> -<span class="sourceLineNo">269</span> }<a name="line.269"></a> -<span class="sourceLineNo">270</span><a name="line.270"></a> -<span class="sourceLineNo">271</span> /**<a name="line.271"></a> -<span class="sourceLineNo">272</span> * Returns the certified value of the residual sum of squares.<a name="line.272"></a> -<span class="sourceLineNo">273</span> *<a name="line.273"></a> -<span class="sourceLineNo">274</span> * @return the residual sum of squares<a name="line.274"></a> -<span class="sourceLineNo">275</span> */<a name="line.275"></a> -<span class="sourceLineNo">276</span> public double getResidualSumOfSquares() {<a name="line.276"></a> -<span class="sourceLineNo">277</span> return residualSumOfSquares;<a name="line.277"></a> -<span class="sourceLineNo">278</span> }<a name="line.278"></a> -<span class="sourceLineNo">279</span><a name="line.279"></a> -<span class="sourceLineNo">280</span> /**<a name="line.280"></a> -<span class="sourceLineNo">281</span> * Returns the total number of starting points (initial guesses for the<a name="line.281"></a> -<span class="sourceLineNo">282</span> * optimization process).<a name="line.282"></a> -<span class="sourceLineNo">283</span> *<a name="line.283"></a> -<span class="sourceLineNo">284</span> * @return the number of starting points<a name="line.284"></a> -<span class="sourceLineNo">285</span> */<a name="line.285"></a> -<span class="sourceLineNo">286</span> public int getNumStartingPoints() {<a name="line.286"></a> -<span class="sourceLineNo">287</span> return numStartingPoints;<a name="line.287"></a> -<span class="sourceLineNo">288</span> }<a name="line.288"></a> -<span class="sourceLineNo">289</span><a name="line.289"></a> -<span class="sourceLineNo">290</span> /**<a name="line.290"></a> -<span class="sourceLineNo">291</span> * Returns the {@code i}-th set of initial values of the parameters.<a name="line.291"></a> -<span class="sourceLineNo">292</span> *<a name="line.292"></a> -<span class="sourceLineNo">293</span> * @param i the index of the starting point<a name="line.293"></a> -<span class="sourceLineNo">294</span> * @return the starting point<a name="line.294"></a> -<span class="sourceLineNo">295</span> */<a name="line.295"></a> -<span class="sourceLineNo">296</span> public double[] getStartingPoint(final int i) {<a name="line.296"></a> -<span class="sourceLineNo">297</span> return MathArrays.copyOf(startingValues[i]);<a name="line.297"></a> -<span class="sourceLineNo">298</span> }<a name="line.298"></a> -<span class="sourceLineNo">299</span><a name="line.299"></a> -<span class="sourceLineNo">300</span> /**<a name="line.300"></a> -<span class="sourceLineNo">301</span> * Returns the least-squares problem corresponding to fitting the model to<a name="line.301"></a> -<span class="sourceLineNo">302</span> * the specified data.<a name="line.302"></a> -<span class="sourceLineNo">303</span> *<a name="line.303"></a> -<span class="sourceLineNo">304</span> * @return the least-squares problem<a name="line.304"></a> -<span class="sourceLineNo">305</span> */<a name="line.305"></a> -<span class="sourceLineNo">306</span> public LeastSquaresProblem getLeastSquaresProblem() {<a name="line.306"></a> -<span class="sourceLineNo">307</span> return problem;<a name="line.307"></a> -<span class="sourceLineNo">308</span> }<a name="line.308"></a> -<span class="sourceLineNo">309</span><a name="line.309"></a> -<span class="sourceLineNo">310</span> /**<a name="line.310"></a> -<span class="sourceLineNo">311</span> * Returns the value of the model for the specified values of the predictor<a name="line.311"></a> -<span class="sourceLineNo">312</span> * variable and the parameters.<a name="line.312"></a> -<span class="sourceLineNo">313</span> *<a name="line.313"></a> -<span class="sourceLineNo">314</span> * @param x the predictor variable<a name="line.314"></a> -<span class="sourceLineNo">315</span> * @param a the parameters<a name="line.315"></a> -<span class="sourceLineNo">316</span> * @return the value of the model<a name="line.316"></a> -<span class="sourceLineNo">317</span> */<a name="line.317"></a> -<span class="sourceLineNo">318</span> public abstract double getModelValue(final double x, final double[] a);<a name="line.318"></a> -<span class="sourceLineNo">319</span><a name="line.319"></a> -<span class="sourceLineNo">320</span> /**<a name="line.320"></a> -<span class="sourceLineNo">321</span> * Returns the values of the partial derivatives of the model with respect<a name="line.321"></a> -<span class="sourceLineNo">322</span> * to the parameters.<a name="line.322"></a> -<span class="sourceLineNo">323</span> *<a name="line.323"></a> -<span class="sourceLineNo">324</span> * @param x the predictor variable<a name="line.324"></a> -<span class="sourceLineNo">325</span> * @param a the parameters<a name="line.325"></a> -<span class="sourceLineNo">326</span> * @return the partial derivatives<a name="line.326"></a> -<span class="sourceLineNo">327</span> */<a name="line.327"></a> -<span class="sourceLineNo">328</span> public abstract double[] getModelDerivatives(final double x,<a name="line.328"></a> -<span class="sourceLineNo">329</span> final double[] a);<a name="line.329"></a> -<span class="sourceLineNo">330</span><a name="line.330"></a> -<span class="sourceLineNo">331</span> /**<a name="line.331"></a> -<span class="sourceLineNo">332</span> * <p><a name="line.332"></a> -<span class="sourceLineNo">333</span> * Parses the specified text lines, and extracts the indices of the first<a name="line.333"></a> -<span class="sourceLineNo">334</span> * and last lines of the data defined by the specified {@code key}. 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First value is the index of the<a name="line.348"></a> -<span class="sourceLineNo">349</span> * first line, second value is the index of the last line.<a name="line.349"></a> -<span class="sourceLineNo">350</span> * {@code null} if the line could not be parsed.<a name="line.350"></a> -<span class="sourceLineNo">351</span> */<a name="line.351"></a> -<span class="sourceLineNo">352</span> private static int[] findLineNumbers(final String key,<a name="line.352"></a> -<span class="sourceLineNo">353</span> final Iterable<String> lines) {<a name="line.353"></a> -<span class="sourceLineNo">354</span> for (String text : lines) {<a name="line.354"></a> -<span class="sourceLineNo">355</span> boolean flag = text.contains(key) && text.contains("lines") &&<a name="line.355"></a> -<span class="sourceLineNo">356</span> text.contains("to") && text.contains(")");<a name="line.356"></a> -<span class="sourceLineNo">357</span> if (flag) {<a name="line.357"></a> -<span class="sourceLineNo">358</span> final int[] numbers = new int[2];<a name="line.358"></a> -<span class="sourceLineNo">359</span> final String from = text.substring(text.indexOf("lines") + 5,<a name="line.359"></a> -<span class="sourceLineNo">360</span> text.indexOf("to"));<a name="line.360"></a> -<span class="sourceLineNo">361</span> numbers[0] = Integer.parseInt(from.trim());<a name="line.361"></a> -<span class="sourceLineNo">362</span> final String to = text.substring(text.indexOf("to") + 2,<a name="line.362"></a> -<span class="sourceLineNo">363</span> text.indexOf(")"));<a name="line.363"></a> -<span class="sourceLineNo">364</span> numbers[1] = Integer.parseInt(to.trim());<a name="line.364"></a> -<span class="sourceLineNo">365</span> return numbers;<a name="line.365"></a> -<span class="sourceLineNo">366</span> }<a name="line.366"></a> -<span class="sourceLineNo">367</span> }<a name="line.367"></a> -<span class="sourceLineNo">368</span> return null;<a name="line.368"></a> -<span class="sourceLineNo">369</span> }<a name="line.369"></a> -<span class="sourceLineNo">370</span>}<a name="line.370"></a> - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -</pre> -</div> -</body> -</html> http://git-wip-us.apache.org/repos/asf/commons-complex/blob/b3576eeb/site-content/.svn/pristine/01/01a1b81a27e3e75ac3704cf69c156c20f29374d6.svn-base ---------------------------------------------------------------------- diff --git a/site-content/.svn/pristine/01/01a1b81a27e3e75ac3704cf69c156c20f29374d6.svn-base b/site-content/.svn/pristine/01/01a1b81a27e3e75ac3704cf69c156c20f29374d6.svn-base deleted file mode 100644 index 37d3d5a..0000000 --- a/site-content/.svn/pristine/01/01a1b81a27e3e75ac3704cf69c156c20f29374d6.svn-base +++ /dev/null @@ -1 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?><!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd";><html xmlns="http://www.w3.org/1999/xhtml"; lang="en"><head><meta http-equiv="Content-Type" content="text/html;charset=UTF-8"/><link rel="stylesheet" href="../.resources/report.css" type="text/css"/><link rel="shortcut icon" href="../.resources/report.gif" type="image/gif"/><title>GaussNewtonOptimizer</title><script type="text/javascript" src="../.resources/sort.js"></script></head><body onload="initialSort(['breadcrumb'])"><div class="breadcrumb" id="breadcrumb"><span class="info"><a href="../.sessions.html" class="el_session">Sessions</a></span><a href="../index.html" class="el_report">Apache Commons Math</a> > <a href="index.html" class="el_package">org.apache.commons.math3.optimization.general</a> > <span class="el_class">GaussNewtonOptimizer</span></div><h1>GaussNewtonOptimizer</h1><table class="coverage" cellspacing="0" id="cov eragetable"><thead><tr><td class="sortable" id="a" onclick="toggleSort(this)">Element</td><td class="down sortable bar" id="b" onclick="toggleSort(this)">Missed Instructions</td><td class="sortable ctr2" id="c" onclick="toggleSort(this)">Cov.</td><td class="sortable bar" id="d" onclick="toggleSort(this)">Missed Branches</td><td class="sortable ctr2" id="e" onclick="toggleSort(this)">Cov.</td><td class="sortable ctr1" id="f" onclick="toggleSort(this)">Missed</td><td class="sortable ctr2" id="g" onclick="toggleSort(this)">Cxty</td><td class="sortable ctr1" id="h" onclick="toggleSort(this)">Missed</td><td class="sortable ctr2" id="i" onclick="toggleSort(this)">Lines</td><td class="sortable ctr1" id="j" onclick="toggleSort(this)">Missed</td><td class="sortable ctr2" id="k" onclick="toggleSort(this)">Methods</td></tr></thead><tfoot><tr><td>Total</td><td class="bar">24 of 256</td><td class="ctr2">91%</td><td class="bar">3 of 22</td><td class="ctr2">86%</td><td class="ctr1">5</td><td class ="ctr2">16</td><td class="ctr1">6</td><td class="ctr2">59</td><td class="ctr1">2</td><td class="ctr2">5</td></tr></tfoot><tbody><tr><td id="a0"><a href="GaussNewtonOptimizer.java.html#L105" class="el_method">doOptimize()</a></td><td class="bar" id="b0"><img src="../.resources/redbar.gif" width="6" height="10" title="13" alt="13"/><img src="../.resources/greenbar.gif" width="113" height="10" title="220" alt="220"/></td><td class="ctr2" id="c2">94%</td><td class="bar" id="d0"><img src="../.resources/redbar.gif" width="16" height="10" title="3" alt="3"/><img src="../.resources/greenbar.gif" width="103" height="10" title="19" alt="19"/></td><td class="ctr2" id="e0">86%</td><td class="ctr1" id="f0">3</td><td class="ctr2" id="g0">12</td><td class="ctr1" id="h0">2</td><td class="ctr2" id="i0">50</td><td class="ctr1" id="j2">0</td><td class="ctr2" id="k0">1</td></tr><tr><td id="a2"><a href="GaussNewtonOptimizer.java.html#L87" class="el_method">GaussNewtonOptimizer(boolean)</a></td><td class ="bar" id="b1"><img src="../.resources/redbar.gif" width="3" height="10" title="7" alt="7"/></td><td class="ctr2" id="c3">0%</td><td class="bar" id="d1"/><td class="ctr2" id="e1">n/a</td><td class="ctr1" id="f1">1</td><td class="ctr2" id="g1">1</td><td class="ctr1" id="h1">2</td><td class="ctr2" id="i2">2</td><td class="ctr1" id="j0">1</td><td class="ctr2" id="k1">1</td></tr><tr><td id="a1"><a href="GaussNewtonOptimizer.java.html#L62" class="el_method">GaussNewtonOptimizer()</a></td><td class="bar" id="b2"><img src="../.resources/redbar.gif" width="2" height="10" title="4" alt="4"/></td><td class="ctr2" id="c4">0%</td><td class="bar" id="d2"/><td class="ctr2" id="e2">n/a</td><td class="ctr1" id="f2">1</td><td class="ctr2" id="g2">1</td><td class="ctr1" id="h2">2</td><td class="ctr2" id="i3">2</td><td class="ctr1" id="j1">1</td><td class="ctr2" id="k2">1</td></tr><tr><td id="a3"><a href="GaussNewtonOptimizer.java.html#L98" class="el_method">GaussNewtonOptimizer(boolean, ConvergenceCh ecker)</a></td><td class="bar" id="b3"><img src="../.resources/greenbar.gif" width="3" height="10" title="7" alt="7"/></td><td class="ctr2" id="c0">100%</td><td class="bar" id="d3"/><td class="ctr2" id="e3">n/a</td><td class="ctr1" id="f3">0</td><td class="ctr2" id="g3">1</td><td class="ctr1" id="h3">0</td><td class="ctr2" id="i1">3</td><td class="ctr1" id="j3">0</td><td class="ctr2" id="k3">1</td></tr><tr><td id="a4"><a href="GaussNewtonOptimizer.java.html#L72" class="el_method">GaussNewtonOptimizer(ConvergenceChecker)</a></td><td class="bar" id="b4"><img src="../.resources/greenbar.gif" width="2" height="10" title="5" alt="5"/></td><td class="ctr2" id="c1">100%</td><td class="bar" id="d4"/><td class="ctr2" id="e4">n/a</td><td class="ctr1" id="f4">0</td><td class="ctr2" id="g4">1</td><td class="ctr1" id="h4">0</td><td class="ctr2" id="i4">2</td><td class="ctr1" id="j4">0</td><td class="ctr2" id="k4">1</td></tr></tbody></table><div class="footer"><span class="right">Created with <a href="http://www.eclemma.org/jacoco";>JaCoCo</a> 0.7.5.201505241946</span></div></body></html> \ No newline at end of file http://git-wip-us.apache.org/repos/asf/commons-complex/blob/b3576eeb/site-content/.svn/pristine/01/01a5b514be40045297beae48242576ba96a19dd8.svn-base ---------------------------------------------------------------------- diff --git a/site-content/.svn/pristine/01/01a5b514be40045297beae48242576ba96a19dd8.svn-base b/site-content/.svn/pristine/01/01a5b514be40045297beae48242576ba96a19dd8.svn-base deleted file mode 100644 index abeac14..0000000 --- a/site-content/.svn/pristine/01/01a5b514be40045297beae48242576ba96a19dd8.svn-base +++ /dev/null @@ -1,322 +0,0 @@ -<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd";> -<!-- NewPage --> -<html lang="en"> -<head> -<meta http-equiv="Content-Type" content="text/html; charset=UTF-8"> -<title>Sigmoid.Parametric (Apache Commons Math 3.6.1 API)</title> -<link rel="stylesheet" type="text/css" href="../../../../../../stylesheet.css" title="Style"> -</head> -<body> -<script type="text/javascript"><!-- - if 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class="inheritance"> -<li><a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true"; title="class or interface in java.lang">java.lang.Object</a></li> -<li> -<ul class="inheritance"> -<li>org.apache.commons.math3.analysis.function.Sigmoid.Parametric</li> -</ul> -</li> -</ul> -<div class="description"> -<ul class="blockList"> -<li class="blockList"> -<dl> -<dt>All Implemented Interfaces:</dt> -<dd><a href="../../../../../../org/apache/commons/math3/analysis/ParametricUnivariateFunction.html" title="interface in org.apache.commons.math3.analysis">ParametricUnivariateFunction</a></dd> -</dl> -<dl> -<dt>Enclosing class:</dt> -<dd><a href="../../../../../../org/apache/commons/math3/analysis/function/Sigmoid.html" title="class in org.apache.commons.math3.analysis.function">Sigmoid</a></dd> -</dl> -<hr> -<br> -<pre>public static class <a href="../../../../../../src-html/org/apache/commons/math3/analysis/function/Sigmoid.html#line.89">Sigmoid.Parametric</a> -extends <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true"; title="class or interface in java.lang">Object</a> -implements <a href="../../../../../../org/apache/commons/math3/analysis/ParametricUnivariateFunction.html" title="interface in org.apache.commons.math3.analysis">ParametricUnivariateFunction</a></pre> -<div class="block">Parametric function where the input array contains the parameters of - the <a href="../../../../../../org/apache/commons/math3/analysis/function/Sigmoid.html#Sigmoid(double,%20double)"><code>sigmoid function</code></a>, ordered - as follows: - <ul> - <li>Lower asymptote</li> - <li>Higher asymptote</li> - </ul></div> -</li> -</ul> -</div> -<div class="summary"> -<ul class="blockList"> -<li class="blockList"> -<!-- ======== CONSTRUCTOR SUMMARY ======== --> -<ul class="blockList"> -<li class="blockList"><a name="constructor_summary"> -<!-- --> -</a> -<h3>Constructor Summary</h3> -<table class="overviewSummary" border="0" cellpadding="3" cellspacing="0" summary="Constructor Summary table, listing constructors, and an explanation"> -<caption><span>Constructors</span><span class="tabEnd"> </span></caption> -<tr> -<th class="colOne" scope="col">Constructor and Description</th> -</tr> -<tr class="altColor"> -<td class="colOne"><code><strong><a href="../../../../../../org/apache/commons/math3/analysis/function/Sigmoid.Parametric.html#Sigmoid.Parametric()">Sigmoid.Parametric</a></strong>()</code> </td> -</tr> -</table> -</li> -</ul> -<!-- ========== METHOD SUMMARY =========== --> -<ul class="blockList"> -<li class="blockList"><a name="method_summary"> -<!-- --> -</a> -<h3>Method Summary</h3> -<table class="overviewSummary" border="0" cellpadding="3" cellspacing="0" summary="Method Summary table, listing methods, and an explanation"> -<caption><span>Methods</span><span class="tabEnd"> </span></caption> -<tr> -<th class="colFirst" scope="col">Modifier and Type</th> -<th class="colLast" scope="col">Method and Description</th> -</tr> -<tr class="altColor"> -<td class="colFirst"><code>double[]</code></td> -<td class="colLast"><code><strong><a href="../../../../../../org/apache/commons/math3/analysis/function/Sigmoid.Parametric.html#gradient(double,%20double...)">gradient</a></strong>(double x, - double... param)</code> -<div class="block">Computes the value of the gradient at <code>x</code>.</div> -</td> -</tr> -<tr class="rowColor"> -<td class="colFirst"><code>double</code></td> -<td class="colLast"><code><strong><a href="../../../../../../org/apache/commons/math3/analysis/function/Sigmoid.Parametric.html#value(double,%20double...)">value</a></strong>(double x, - double... param)</code> -<div class="block">Computes the value of the sigmoid at <code>x</code>.</div> -</td> -</tr> -</table> -<ul class="blockList"> -<li class="blockList"><a name="methods_inherited_from_class_java.lang.Object"> -<!-- --> -</a> -<h3>Methods inherited from class java.lang.<a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true"; title="class or interface in java.lang">Object</a></h3> -<code><a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#clone()" title="class or interface in java.lang">clone</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#equals(java.lang.Object)" title="class or interface in java.lang">equals</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#finalize()" title="class or interface in java.lang">finalize</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#getClass()" title="class or interface in java.lang">getClass</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#hashCode()" title="class or interface in java.lang">hashCode</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#notify()" title="class or interface in java.lang">notify</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang /Object.html?is-external=true#notifyAll()" title="class or interface in java.lang">notifyAll</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#toString()" title="class or interface in java.lang">toString</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#wait()" title="class or interface in java.lang">wait</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#wait(long)" title="class or interface in java.lang">wait</a>, <a href="http://docs.oracle.com/javase/7/docs/api/java/lang/Object.html?is-external=true#wait(long,%20int)" title="class or interface in java.lang">wait</a></code></li> -</ul> -</li> -</ul> -</li> -</ul> -</div> -<div class="details"> -<ul class="blockList"> -<li class="blockList"> -<!-- ========= CONSTRUCTOR DETAIL ======== --> -<ul class="blockList"> -<li class="blockList"><a name="constructor_detail"> -<!-- --> -</a> -<h3>Constructor Detail</h3> -<a name="Sigmoid.Parametric()"> -<!-- --> -</a> -<ul class="blockListLast"> -<li class="blockList"> -<h4>Sigmoid.Parametric</h4> -<pre>public <a href="../../../../../../src-html/org/apache/commons/math3/analysis/function/Sigmoid.Parametric.html#line.89">Sigmoid.Parametric</a>()</pre> -</li> -</ul> -</li> -</ul> -<!-- ============ METHOD DETAIL ========== --> -<ul class="blockList"> -<li class="blockList"><a name="method_detail"> -<!-- --> -</a> -<h3>Method Detail</h3> -<a name="value(double, double...)"> -<!-- --> -</a> -<ul class="blockList"> -<li class="blockList"> -<h4>value</h4> -<pre>public double <a href="../../../../../../src-html/org/apache/commons/math3/analysis/function/Sigmoid.Parametric.html#line.100">value</a>(double x, - double... param) - throws <a href="../../../../../../org/apache/commons/math3/exception/NullArgumentException.html" title="class in org.apache.commons.math3.exception">NullArgumentException</a>, - <a href="../../../../../../org/apache/commons/math3/exception/DimensionMismatchException.html" title="class in org.apache.commons.math3.exception">DimensionMismatchException</a></pre> -<div class="block">Computes the value of the sigmoid at <code>x</code>.</div> -<dl> -<dt><strong>Specified by:</strong></dt> -<dd><code><a href="../../../../../../org/apache/commons/math3/analysis/ParametricUnivariateFunction.html#value(double,%20double...)">value</a></code> in interface <code><a href="../../../../../../org/apache/commons/math3/analysis/ParametricUnivariateFunction.html" title="interface in org.apache.commons.math3.analysis">ParametricUnivariateFunction</a></code></dd> -<dt><span class="strong">Parameters:</span></dt><dd><code>x</code> - Value for which the function must be computed.</dd><dd><code>param</code> - Values of lower asymptote and higher asymptote.</dd> -<dt><span class="strong">Returns:</span></dt><dd>the value of the function.</dd> -<dt><span class="strong">Throws:</span></dt> -<dd><code><a href="../../../../../../org/apache/commons/math3/exception/NullArgumentException.html" title="class in org.apache.commons.math3.exception">NullArgumentException</a></code> - if <code>param</code> is <code>null</code>.</dd> -<dd><code><a href="../../../../../../org/apache/commons/math3/exception/DimensionMismatchException.html" title="class in org.apache.commons.math3.exception">DimensionMismatchException</a></code> - if the size of <code>param</code> is - not 2.</dd></dl> -</li> -</ul> -<a name="gradient(double, double...)"> -<!-- --> -</a> -<ul class="blockListLast"> -<li class="blockList"> -<h4>gradient</h4> -<pre>public double[] <a href="../../../../../../src-html/org/apache/commons/math3/analysis/function/Sigmoid.Parametric.html#line.120">gradient</a>(double x, - double... param) - throws <a href="../../../../../../org/apache/commons/math3/exception/NullArgumentException.html" title="class in org.apache.commons.math3.exception">NullArgumentException</a>, - <a href="../../../../../../org/apache/commons/math3/exception/DimensionMismatchException.html" title="class in org.apache.commons.math3.exception">DimensionMismatchException</a></pre> -<div class="block">Computes the value of the gradient at <code>x</code>. - The components of the gradient vector are the partial - derivatives of the function with respect to each of the - <em>parameters</em> (lower asymptote and higher asymptote).</div> -<dl> -<dt><strong>Specified by:</strong></dt> -<dd><code><a href="../../../../../../org/apache/commons/math3/analysis/ParametricUnivariateFunction.html#gradient(double,%20double...)">gradient</a></code> in interface <code><a href="../../../../../../org/apache/commons/math3/analysis/ParametricUnivariateFunction.html" title="interface in org.apache.commons.math3.analysis">ParametricUnivariateFunction</a></code></dd> -<dt><span class="strong">Parameters:</span></dt><dd><code>x</code> - Value at which the gradient must be computed.</dd><dd><code>param</code> - Values for lower asymptote and higher asymptote.</dd> -<dt><span class="strong">Returns:</span></dt><dd>the gradient vector at <code>x</code>.</dd> -<dt><span class="strong">Throws:</span></dt> -<dd><code><a href="../../../../../../org/apache/commons/math3/exception/NullArgumentException.html" title="class in org.apache.commons.math3.exception">NullArgumentException</a></code> - if <code>param</code> is <code>null</code>.</dd> -<dd><code><a href="../../../../../../org/apache/commons/math3/exception/DimensionMismatchException.html" title="class in org.apache.commons.math3.exception">DimensionMismatchException</a></code> - if the size of <code>param</code> is - not 2.</dd></dl> -</li> -</ul> -</li> -</ul> -</li> -</ul> -</div> -</div> -<!-- ========= END OF CLASS 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