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| <pre><span class="sourceLineNo">001</span>/*-<a name="line.1"></a> |
| <span class="sourceLineNo">002</span> *******************************************************************************<a name="line.2"></a> |
| <span class="sourceLineNo">003</span> * Copyright (c) 2011, 2016 Diamond Light Source Ltd.<a name="line.3"></a> |
| <span class="sourceLineNo">004</span> * All rights reserved. This program and the accompanying materials<a name="line.4"></a> |
| <span class="sourceLineNo">005</span> * are made available under the terms of the Eclipse Public License v1.0<a name="line.5"></a> |
| <span class="sourceLineNo">006</span> * which accompanies this distribution, and is available at<a name="line.6"></a> |
| <span class="sourceLineNo">007</span> * http://www.eclipse.org/legal/epl-v10.html<a name="line.7"></a> |
| <span class="sourceLineNo">008</span> *<a name="line.8"></a> |
| <span class="sourceLineNo">009</span> * Contributors:<a name="line.9"></a> |
| <span class="sourceLineNo">010</span> * Peter Chang - initial API and implementation and/or initial documentation<a name="line.10"></a> |
| <span class="sourceLineNo">011</span> *******************************************************************************/<a name="line.11"></a> |
| <span class="sourceLineNo">012</span><a name="line.12"></a> |
| <span class="sourceLineNo">013</span>package org.eclipse.january.dataset;<a name="line.13"></a> |
| <span class="sourceLineNo">014</span><a name="line.14"></a> |
| <span class="sourceLineNo">015</span>import java.util.Arrays;<a name="line.15"></a> |
| <span class="sourceLineNo">016</span>import java.util.Collection;<a name="line.16"></a> |
| <span class="sourceLineNo">017</span>import java.util.Iterator;<a name="line.17"></a> |
| <span class="sourceLineNo">018</span>import java.util.List;<a name="line.18"></a> |
| <span class="sourceLineNo">019</span><a name="line.19"></a> |
| <span class="sourceLineNo">020</span>/**<a name="line.20"></a> |
| <span class="sourceLineNo">021</span> * Statistics of data set lists. Used for image processing.<a name="line.21"></a> |
| <span class="sourceLineNo">022</span> */<a name="line.22"></a> |
| <span class="sourceLineNo">023</span>public class CollectionStats {<a name="line.23"></a> |
| <span class="sourceLineNo">024</span><a name="line.24"></a> |
| <span class="sourceLineNo">025</span> private static interface StatFunction {<a name="line.25"></a> |
| <span class="sourceLineNo">026</span> double evaluate(Dataset set);<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 name="line.29"></a> |
| <span class="sourceLineNo">030</span> * Used to get a mean image from a set of images for instance.<a name="line.30"></a> |
| <span class="sourceLineNo">031</span> * <a name="line.31"></a> |
| <span class="sourceLineNo">032</span> * @param sets<a name="line.32"></a> |
| <span class="sourceLineNo">033</span> * @return mean data set of the same shape as those passed in.<a name="line.33"></a> |
| <span class="sourceLineNo">034</span> * @throws Exception<a name="line.34"></a> |
| <span class="sourceLineNo">035</span> */<a name="line.35"></a> |
| <span class="sourceLineNo">036</span> public static Dataset mean(final List<IDataset> sets) throws Exception {<a name="line.36"></a> |
| <span class="sourceLineNo">037</span> <a name="line.37"></a> |
| <span class="sourceLineNo">038</span> return process(sets, new StatFunction() {<a name="line.38"></a> |
| <span class="sourceLineNo">039</span> @Override<a name="line.39"></a> |
| <span class="sourceLineNo">040</span> public double evaluate(Dataset set) {<a name="line.40"></a> |
| <span class="sourceLineNo">041</span> return (Double)set.mean();<a name="line.41"></a> |
| <span class="sourceLineNo">042</span> }<a name="line.42"></a> |
| <span class="sourceLineNo">043</span> });<a name="line.43"></a> |
| <span class="sourceLineNo">044</span> }<a name="line.44"></a> |
| <span class="sourceLineNo">045</span> <a name="line.45"></a> |
| <span class="sourceLineNo">046</span> /**<a name="line.46"></a> |
| <span class="sourceLineNo">047</span> * Used to get a median image from a set of images for instance.<a name="line.47"></a> |
| <span class="sourceLineNo">048</span> * <a name="line.48"></a> |
| <span class="sourceLineNo">049</span> * @param sets<a name="line.49"></a> |
| <span class="sourceLineNo">050</span> * @return median data set of the same shape as those passed in.<a name="line.50"></a> |
| <span class="sourceLineNo">051</span> * @throws Exception<a name="line.51"></a> |
| <span class="sourceLineNo">052</span> */<a name="line.52"></a> |
| <span class="sourceLineNo">053</span> public static Dataset median(final List<IDataset> sets) throws Exception {<a name="line.53"></a> |
| <span class="sourceLineNo">054</span> <a name="line.54"></a> |
| <span class="sourceLineNo">055</span> return process(sets, new StatFunction() {<a name="line.55"></a> |
| <span class="sourceLineNo">056</span> @Override<a name="line.56"></a> |
| <span class="sourceLineNo">057</span> public double evaluate(Dataset set) {<a name="line.57"></a> |
| <span class="sourceLineNo">058</span> return (Double)Stats.median(set);<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> }<a name="line.61"></a> |
| <span class="sourceLineNo">062</span><a name="line.62"></a> |
| <span class="sourceLineNo">063</span> /**<a name="line.63"></a> |
| <span class="sourceLineNo">064</span> * Used to get a median image from a set of images for instance.<a name="line.64"></a> |
| <span class="sourceLineNo">065</span> * <a name="line.65"></a> |
| <span class="sourceLineNo">066</span> * @param sets<a name="line.66"></a> |
| <span class="sourceLineNo">067</span> * @return median data set of the same shape as those passed in.<a name="line.67"></a> |
| <span class="sourceLineNo">068</span> * @throws Exception<a name="line.68"></a> |
| <span class="sourceLineNo">069</span> */<a name="line.69"></a> |
| <span class="sourceLineNo">070</span> private static Dataset process(final List<IDataset> sets,<a name="line.70"></a> |
| <span class="sourceLineNo">071</span> final StatFunction function) throws Exception {<a name="line.71"></a> |
| <span class="sourceLineNo">072</span> <a name="line.72"></a> |
| <span class="sourceLineNo">073</span> int[] shape = assertShapes(sets);<a name="line.73"></a> |
| <span class="sourceLineNo">074</span> final DoubleDataset result = DatasetFactory.zeros(DoubleDataset.class, shape);<a name="line.74"></a> |
| <span class="sourceLineNo">075</span> final double[] rData = result.getData();<a name="line.75"></a> |
| <span class="sourceLineNo">076</span> final IndexIterator iter = new PositionIterator(shape);<a name="line.76"></a> |
| <span class="sourceLineNo">077</span> final int[] pos = iter.getPos();<a name="line.77"></a> |
| <span class="sourceLineNo">078</span><a name="line.78"></a> |
| <span class="sourceLineNo">079</span> final int len = sets.size();<a name="line.79"></a> |
| <span class="sourceLineNo">080</span> final DoubleDataset pixel = DatasetFactory.zeros(DoubleDataset.class, len);<a name="line.80"></a> |
| <span class="sourceLineNo">081</span> final double[] pData = pixel.getData();<a name="line.81"></a> |
| <span class="sourceLineNo">082</span> for (int i = 0; iter.hasNext(); i++) {<a name="line.82"></a> |
| <span class="sourceLineNo">083</span> for (int ipix = 0; ipix < len; ipix++) {<a name="line.83"></a> |
| <span class="sourceLineNo">084</span> pData[ipix] = sets.get(ipix).getDouble(pos);<a name="line.84"></a> |
| <span class="sourceLineNo">085</span> }<a name="line.85"></a> |
| <span class="sourceLineNo">086</span> pixel.setDirty();<a name="line.86"></a> |
| <span class="sourceLineNo">087</span> rData[i] = function.evaluate(pixel);<a name="line.87"></a> |
| <span class="sourceLineNo">088</span> }<a name="line.88"></a> |
| <span class="sourceLineNo">089</span> <a name="line.89"></a> |
| <span class="sourceLineNo">090</span> return result;<a name="line.90"></a> |
| <span class="sourceLineNo">091</span> }<a name="line.91"></a> |
| <span class="sourceLineNo">092</span><a name="line.92"></a> |
| <span class="sourceLineNo">093</span> private static int[] assertShapes(final Collection<IDataset> sets) throws Exception{<a name="line.93"></a> |
| <span class="sourceLineNo">094</span> <a name="line.94"></a> |
| <span class="sourceLineNo">095</span> if (sets.size()<2) throw new Exception("You must take the median of at least two sets!");<a name="line.95"></a> |
| <span class="sourceLineNo">096</span> <a name="line.96"></a> |
| <span class="sourceLineNo">097</span> final Iterator<IDataset> it = sets.iterator();<a name="line.97"></a> |
| <span class="sourceLineNo">098</span> final int[] shape = it.next().getShape();<a name="line.98"></a> |
| <span class="sourceLineNo">099</span> while (it.hasNext()) {<a name="line.99"></a> |
| <span class="sourceLineNo">100</span> IDataset d = it.next();<a name="line.100"></a> |
| <span class="sourceLineNo">101</span> final int[] nextShape = d.getShape();<a name="line.101"></a> |
| <span class="sourceLineNo">102</span> if (!Arrays.equals(shape, nextShape)) throw new Exception("All data sets should be the same shape!");<a name="line.102"></a> |
| <span class="sourceLineNo">103</span> }<a name="line.103"></a> |
| <span class="sourceLineNo">104</span> return shape;<a name="line.104"></a> |
| <span class="sourceLineNo">105</span> }<a name="line.105"></a> |
| <span class="sourceLineNo">106</span>}<a name="line.106"></a> |
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| </pre> |
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