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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.io.Serializable;<a name="line.15"></a>
<span class="sourceLineNo">016</span>import java.lang.reflect.Array;<a name="line.16"></a>
<span class="sourceLineNo">017</span>import java.text.Format;<a name="line.17"></a>
<span class="sourceLineNo">018</span>import java.util.ArrayList;<a name="line.18"></a>
<span class="sourceLineNo">019</span>import java.util.Arrays;<a name="line.19"></a>
<span class="sourceLineNo">020</span>import java.util.List;<a name="line.20"></a>
<span class="sourceLineNo">021</span>import java.util.concurrent.ConcurrentHashMap;<a name="line.21"></a>
<span class="sourceLineNo">022</span>import java.util.concurrent.ConcurrentMap;<a name="line.22"></a>
<span class="sourceLineNo">023</span><a name="line.23"></a>
<span class="sourceLineNo">024</span>import org.eclipse.january.DatasetException;<a name="line.24"></a>
<span class="sourceLineNo">025</span>import org.eclipse.january.IMonitor;<a name="line.25"></a>
<span class="sourceLineNo">026</span>import org.eclipse.january.MetadataException;<a name="line.26"></a>
<span class="sourceLineNo">027</span>import org.eclipse.january.metadata.ErrorMetadata;<a name="line.27"></a>
<span class="sourceLineNo">028</span>import org.eclipse.january.metadata.MetadataFactory;<a name="line.28"></a>
<span class="sourceLineNo">029</span>import org.eclipse.january.metadata.MetadataType;<a name="line.29"></a>
<span class="sourceLineNo">030</span>import org.eclipse.january.metadata.StatisticsMetadata;<a name="line.30"></a>
<span class="sourceLineNo">031</span>import org.eclipse.january.metadata.internal.ErrorMetadataImpl;<a name="line.31"></a>
<span class="sourceLineNo">032</span>import org.eclipse.january.metadata.internal.StatisticsMetadataImpl;<a name="line.32"></a>
<span class="sourceLineNo">033</span><a name="line.33"></a>
<span class="sourceLineNo">034</span>/**<a name="line.34"></a>
<span class="sourceLineNo">035</span> * Generic container class for data <a name="line.35"></a>
<span class="sourceLineNo">036</span> * &lt;p/&gt;<a name="line.36"></a>
<span class="sourceLineNo">037</span> * Each subclass has an array of primitive types, elements of this array are grouped or<a name="line.37"></a>
<span class="sourceLineNo">038</span> * compounded to make items <a name="line.38"></a>
<span class="sourceLineNo">039</span> * &lt;p/&gt;<a name="line.39"></a>
<span class="sourceLineNo">040</span> * Data items can be boolean, integer, float, complex float, vector float, etc<a name="line.40"></a>
<span class="sourceLineNo">041</span> */<a name="line.41"></a>
<span class="sourceLineNo">042</span>public abstract class AbstractDataset extends LazyDatasetBase implements Dataset {<a name="line.42"></a>
<span class="sourceLineNo">043</span> // pin UID to base class<a name="line.43"></a>
<span class="sourceLineNo">044</span> private static final long serialVersionUID = Dataset.serialVersionUID;<a name="line.44"></a>
<span class="sourceLineNo">045</span><a name="line.45"></a>
<span class="sourceLineNo">046</span> protected int size; // number of items<a name="line.46"></a>
<span class="sourceLineNo">047</span><a name="line.47"></a>
<span class="sourceLineNo">048</span> transient protected AbstractDataset base; // is null when not a view<a name="line.48"></a>
<span class="sourceLineNo">049</span> protected int[] stride; // can be null for row-major, contiguous datasets<a name="line.49"></a>
<span class="sourceLineNo">050</span> protected int offset;<a name="line.50"></a>
<span class="sourceLineNo">051</span><a name="line.51"></a>
<span class="sourceLineNo">052</span> /**<a name="line.52"></a>
<span class="sourceLineNo">053</span> * The data itself, held in a 1D array, but the object will wrap it to appear as possessing as many dimensions as<a name="line.53"></a>
<span class="sourceLineNo">054</span> * wanted<a name="line.54"></a>
<span class="sourceLineNo">055</span> */<a name="line.55"></a>
<span class="sourceLineNo">056</span> protected Serializable odata = null;<a name="line.56"></a>
<span class="sourceLineNo">057</span><a name="line.57"></a>
<span class="sourceLineNo">058</span> /**<a name="line.58"></a>
<span class="sourceLineNo">059</span> * Set aliased data as base data<a name="line.59"></a>
<span class="sourceLineNo">060</span> */<a name="line.60"></a>
<span class="sourceLineNo">061</span> abstract protected void setData();<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> * Constructor required for serialisation.<a name="line.64"></a>
<span class="sourceLineNo">065</span> */<a name="line.65"></a>
<span class="sourceLineNo">066</span> public AbstractDataset() {<a name="line.66"></a>
<span class="sourceLineNo">067</span> }<a name="line.67"></a>
<span class="sourceLineNo">068</span><a name="line.68"></a>
<span class="sourceLineNo">069</span> @Override<a name="line.69"></a>
<span class="sourceLineNo">070</span> public synchronized Dataset synchronizedCopy() {<a name="line.70"></a>
<span class="sourceLineNo">071</span> return clone();<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> @Override<a name="line.74"></a>
<span class="sourceLineNo">075</span> public boolean equals(Object obj) {<a name="line.75"></a>
<span class="sourceLineNo">076</span> if (this == obj) {<a name="line.76"></a>
<span class="sourceLineNo">077</span> return true;<a name="line.77"></a>
<span class="sourceLineNo">078</span> }<a name="line.78"></a>
<span class="sourceLineNo">079</span> if (obj == null) {<a name="line.79"></a>
<span class="sourceLineNo">080</span> return false;<a name="line.80"></a>
<span class="sourceLineNo">081</span> }<a name="line.81"></a>
<span class="sourceLineNo">082</span> if (!getClass().equals(obj.getClass())) {<a name="line.82"></a>
<span class="sourceLineNo">083</span> if (getRank() == 0) // for zero-rank datasets<a name="line.83"></a>
<span class="sourceLineNo">084</span> return obj.equals(getObjectAbs(0));<a name="line.84"></a>
<span class="sourceLineNo">085</span> return false;<a name="line.85"></a>
<span class="sourceLineNo">086</span> }<a name="line.86"></a>
<span class="sourceLineNo">087</span><a name="line.87"></a>
<span class="sourceLineNo">088</span> Dataset other = (Dataset) obj;<a name="line.88"></a>
<span class="sourceLineNo">089</span> if (getElementsPerItem() != other.getElementsPerItem())<a name="line.89"></a>
<span class="sourceLineNo">090</span> return false;<a name="line.90"></a>
<span class="sourceLineNo">091</span> if (size != other.getSize())<a name="line.91"></a>
<span class="sourceLineNo">092</span> return false;<a name="line.92"></a>
<span class="sourceLineNo">093</span> if (!Arrays.equals(shape, other.getShapeRef())) {<a name="line.93"></a>
<span class="sourceLineNo">094</span> return false;<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> return true;<a name="line.97"></a>
<span class="sourceLineNo">098</span> }<a name="line.98"></a>
<span class="sourceLineNo">099</span><a name="line.99"></a>
<span class="sourceLineNo">100</span> @Override<a name="line.100"></a>
<span class="sourceLineNo">101</span> public int hashCode() {<a name="line.101"></a>
<span class="sourceLineNo">102</span> return getStats().getHash(shape);<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> @Override<a name="line.105"></a>
<span class="sourceLineNo">106</span> abstract public AbstractDataset clone();<a name="line.106"></a>
<span class="sourceLineNo">107</span><a name="line.107"></a>
<span class="sourceLineNo">108</span> protected Format stringFormat = null;<a name="line.108"></a>
<span class="sourceLineNo">109</span><a name="line.109"></a>
<span class="sourceLineNo">110</span> @Override<a name="line.110"></a>
<span class="sourceLineNo">111</span> public void setStringFormat(Format format) {<a name="line.111"></a>
<span class="sourceLineNo">112</span> stringFormat = format;<a name="line.112"></a>
<span class="sourceLineNo">113</span> }<a name="line.113"></a>
<span class="sourceLineNo">114</span><a name="line.114"></a>
<span class="sourceLineNo">115</span> @Override<a name="line.115"></a>
<span class="sourceLineNo">116</span> public Dataset copy(final int dtype) {<a name="line.116"></a>
<span class="sourceLineNo">117</span> if (getDType() == dtype) {<a name="line.117"></a>
<span class="sourceLineNo">118</span> return clone();<a name="line.118"></a>
<span class="sourceLineNo">119</span> }<a name="line.119"></a>
<span class="sourceLineNo">120</span> return DatasetUtils.copy(this, dtype);<a name="line.120"></a>
<span class="sourceLineNo">121</span> }<a name="line.121"></a>
<span class="sourceLineNo">122</span><a name="line.122"></a>
<span class="sourceLineNo">123</span> @Override<a name="line.123"></a>
<span class="sourceLineNo">124</span> public &lt;T extends Dataset&gt; T copy(Class&lt;T&gt; clazz) {<a name="line.124"></a>
<span class="sourceLineNo">125</span> return DatasetUtils.copy(clazz, this);<a name="line.125"></a>
<span class="sourceLineNo">126</span> }<a name="line.126"></a>
<span class="sourceLineNo">127</span><a name="line.127"></a>
<span class="sourceLineNo">128</span> @Override<a name="line.128"></a>
<span class="sourceLineNo">129</span> public Dataset cast(final int dtype) {<a name="line.129"></a>
<span class="sourceLineNo">130</span> if (getDType() == dtype) {<a name="line.130"></a>
<span class="sourceLineNo">131</span> return this;<a name="line.131"></a>
<span class="sourceLineNo">132</span> }<a name="line.132"></a>
<span class="sourceLineNo">133</span> return DatasetUtils.cast(this, dtype);<a name="line.133"></a>
<span class="sourceLineNo">134</span> }<a name="line.134"></a>
<span class="sourceLineNo">135</span><a name="line.135"></a>
<span class="sourceLineNo">136</span> @Override<a name="line.136"></a>
<span class="sourceLineNo">137</span> public &lt;T extends Dataset&gt; T cast(Class&lt;T&gt; clazz) {<a name="line.137"></a>
<span class="sourceLineNo">138</span> return DatasetUtils.cast(clazz, this);<a name="line.138"></a>
<span class="sourceLineNo">139</span> }<a name="line.139"></a>
<span class="sourceLineNo">140</span><a name="line.140"></a>
<span class="sourceLineNo">141</span> @Override<a name="line.141"></a>
<span class="sourceLineNo">142</span> public Dataset cast(final boolean repeat, final int dtype, final int isize) {<a name="line.142"></a>
<span class="sourceLineNo">143</span> if (getDType() == dtype &amp;&amp; getElementsPerItem() == isize) {<a name="line.143"></a>
<span class="sourceLineNo">144</span> return this;<a name="line.144"></a>
<span class="sourceLineNo">145</span> }<a name="line.145"></a>
<span class="sourceLineNo">146</span> return DatasetUtils.cast(this, repeat, dtype, isize);<a name="line.146"></a>
<span class="sourceLineNo">147</span> }<a name="line.147"></a>
<span class="sourceLineNo">148</span><a name="line.148"></a>
<span class="sourceLineNo">149</span> @Override<a name="line.149"></a>
<span class="sourceLineNo">150</span> abstract public AbstractDataset getView(boolean deepCopyMetadata);<a name="line.150"></a>
<span class="sourceLineNo">151</span><a name="line.151"></a>
<span class="sourceLineNo">152</span> /**<a name="line.152"></a>
<span class="sourceLineNo">153</span> * Copy fields from original to view<a name="line.153"></a>
<span class="sourceLineNo">154</span> * @param orig<a name="line.154"></a>
<span class="sourceLineNo">155</span> * @param view<a name="line.155"></a>
<span class="sourceLineNo">156</span> * @param clone if true, then clone everything but bulk data<a name="line.156"></a>
<span class="sourceLineNo">157</span> * @param cloneMetadata if true, clone metadata<a name="line.157"></a>
<span class="sourceLineNo">158</span> */<a name="line.158"></a>
<span class="sourceLineNo">159</span> protected static void copyToView(Dataset orig, AbstractDataset view, boolean clone, boolean cloneMetadata) {<a name="line.159"></a>
<span class="sourceLineNo">160</span> view.name = orig.getName();<a name="line.160"></a>
<span class="sourceLineNo">161</span> view.size = orig.getSize();<a name="line.161"></a>
<span class="sourceLineNo">162</span> view.odata = orig.getBuffer();<a name="line.162"></a>
<span class="sourceLineNo">163</span> view.offset = orig.getOffset();<a name="line.163"></a>
<span class="sourceLineNo">164</span> view.base = orig instanceof AbstractDataset ? ((AbstractDataset) orig).base : null;<a name="line.164"></a>
<span class="sourceLineNo">165</span><a name="line.165"></a>
<span class="sourceLineNo">166</span> if (clone) {<a name="line.166"></a>
<span class="sourceLineNo">167</span> view.shape = orig.getShape();<a name="line.167"></a>
<span class="sourceLineNo">168</span> view.stride = orig instanceof AbstractDataset &amp;&amp; ((AbstractDataset) orig).stride != null ?<a name="line.168"></a>
<span class="sourceLineNo">169</span> ((AbstractDataset) orig).stride.clone() : null;<a name="line.169"></a>
<span class="sourceLineNo">170</span> } else {<a name="line.170"></a>
<span class="sourceLineNo">171</span> view.shape = orig.getShapeRef();<a name="line.171"></a>
<span class="sourceLineNo">172</span> view.stride = orig instanceof AbstractDataset ? ((AbstractDataset) orig).stride : null;<a name="line.172"></a>
<span class="sourceLineNo">173</span> }<a name="line.173"></a>
<span class="sourceLineNo">174</span><a name="line.174"></a>
<span class="sourceLineNo">175</span> view.metadata = getMetadataMap(orig, cloneMetadata);<a name="line.175"></a>
<span class="sourceLineNo">176</span> int odtype = orig.getDType();<a name="line.176"></a>
<span class="sourceLineNo">177</span> int vdtype = view.getDType();<a name="line.177"></a>
<span class="sourceLineNo">178</span> if (odtype != vdtype) {<a name="line.178"></a>
<span class="sourceLineNo">179</span> view.setDirty();<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> /**<a name="line.183"></a>
<span class="sourceLineNo">184</span> * @since 2.0<a name="line.184"></a>
<span class="sourceLineNo">185</span> */<a name="line.185"></a>
<span class="sourceLineNo">186</span> protected static ConcurrentMap&lt;Class&lt;? extends MetadataType&gt;, List&lt;MetadataType&gt;&gt; getMetadataMap(Dataset a, boolean clone) {<a name="line.186"></a>
<span class="sourceLineNo">187</span> if (a == null)<a name="line.187"></a>
<span class="sourceLineNo">188</span> return null;<a name="line.188"></a>
<span class="sourceLineNo">189</span><a name="line.189"></a>
<span class="sourceLineNo">190</span> List&lt;MetadataType&gt; all = null;<a name="line.190"></a>
<span class="sourceLineNo">191</span> try {<a name="line.191"></a>
<span class="sourceLineNo">192</span> all = a.getMetadata(null);<a name="line.192"></a>
<span class="sourceLineNo">193</span> } catch (Exception e) {<a name="line.193"></a>
<span class="sourceLineNo">194</span> }<a name="line.194"></a>
<span class="sourceLineNo">195</span> if (all == null)<a name="line.195"></a>
<span class="sourceLineNo">196</span> return null;<a name="line.196"></a>
<span class="sourceLineNo">197</span><a name="line.197"></a>
<span class="sourceLineNo">198</span> ConcurrentMap&lt;Class&lt;? extends MetadataType&gt;, List&lt;MetadataType&gt;&gt; map = new ConcurrentHashMap&lt;Class&lt;? extends MetadataType&gt;, List&lt;MetadataType&gt;&gt;();<a name="line.198"></a>
<span class="sourceLineNo">199</span><a name="line.199"></a>
<span class="sourceLineNo">200</span> for (MetadataType m : all) {<a name="line.200"></a>
<span class="sourceLineNo">201</span> if (m == null) {<a name="line.201"></a>
<span class="sourceLineNo">202</span> continue;<a name="line.202"></a>
<span class="sourceLineNo">203</span> }<a name="line.203"></a>
<span class="sourceLineNo">204</span> Class&lt;? extends MetadataType&gt; c = findMetadataTypeSubInterfaces(m.getClass());<a name="line.204"></a>
<span class="sourceLineNo">205</span> List&lt;MetadataType&gt; l = map.get(c);<a name="line.205"></a>
<span class="sourceLineNo">206</span> if (l == null) {<a name="line.206"></a>
<span class="sourceLineNo">207</span> l = new ArrayList&lt;MetadataType&gt;();<a name="line.207"></a>
<span class="sourceLineNo">208</span> map.put(c, l);<a name="line.208"></a>
<span class="sourceLineNo">209</span> }<a name="line.209"></a>
<span class="sourceLineNo">210</span> if (clone)<a name="line.210"></a>
<span class="sourceLineNo">211</span> m = m.clone();<a name="line.211"></a>
<span class="sourceLineNo">212</span> l.add(m);<a name="line.212"></a>
<span class="sourceLineNo">213</span> }<a name="line.213"></a>
<span class="sourceLineNo">214</span> return map;<a name="line.214"></a>
<span class="sourceLineNo">215</span> }<a name="line.215"></a>
<span class="sourceLineNo">216</span><a name="line.216"></a>
<span class="sourceLineNo">217</span> @Override<a name="line.217"></a>
<span class="sourceLineNo">218</span> public IntegerDataset getIndices() {<a name="line.218"></a>
<span class="sourceLineNo">219</span> final IntegerDataset ret = DatasetUtils.indices(shape);<a name="line.219"></a>
<span class="sourceLineNo">220</span> if (getName() != null) {<a name="line.220"></a>
<span class="sourceLineNo">221</span> ret.setName("Indices of " + getName());<a name="line.221"></a>
<span class="sourceLineNo">222</span> }<a name="line.222"></a>
<span class="sourceLineNo">223</span> return ret;<a name="line.223"></a>
<span class="sourceLineNo">224</span> }<a name="line.224"></a>
<span class="sourceLineNo">225</span><a name="line.225"></a>
<span class="sourceLineNo">226</span> @Override<a name="line.226"></a>
<span class="sourceLineNo">227</span> public Dataset getTransposedView(int... axes) {<a name="line.227"></a>
<span class="sourceLineNo">228</span> axes = checkPermutatedAxes(shape, axes);<a name="line.228"></a>
<span class="sourceLineNo">229</span><a name="line.229"></a>
<span class="sourceLineNo">230</span> AbstractDataset t = getView(true);<a name="line.230"></a>
<span class="sourceLineNo">231</span> if (axes == null || getRank() == 1)<a name="line.231"></a>
<span class="sourceLineNo">232</span> return t;<a name="line.232"></a>
<span class="sourceLineNo">233</span><a name="line.233"></a>
<span class="sourceLineNo">234</span> int rank = shape.length;<a name="line.234"></a>
<span class="sourceLineNo">235</span> int[] tstride = new int[rank];<a name="line.235"></a>
<span class="sourceLineNo">236</span> int[] toffset = new int[1];<a name="line.236"></a>
<span class="sourceLineNo">237</span> int[] nshape = createStrides(new SliceND(shape), this, tstride, toffset);<a name="line.237"></a>
<span class="sourceLineNo">238</span> int[] nstride = new int[rank];<a name="line.238"></a>
<span class="sourceLineNo">239</span> for (int i = 0; i &lt; rank; i++) {<a name="line.239"></a>
<span class="sourceLineNo">240</span> final int ax = axes[i];<a name="line.240"></a>
<span class="sourceLineNo">241</span> nstride[i] = tstride[ax];<a name="line.241"></a>
<span class="sourceLineNo">242</span> nshape[i] = shape[ax];<a name="line.242"></a>
<span class="sourceLineNo">243</span> }<a name="line.243"></a>
<span class="sourceLineNo">244</span> t.shape = nshape;<a name="line.244"></a>
<span class="sourceLineNo">245</span> t.stride = nstride;<a name="line.245"></a>
<span class="sourceLineNo">246</span> t.offset = toffset[0];<a name="line.246"></a>
<span class="sourceLineNo">247</span> t.base = this;<a name="line.247"></a>
<span class="sourceLineNo">248</span> t.setDirty();<a name="line.248"></a>
<span class="sourceLineNo">249</span> t.transposeMetadata(axes);<a name="line.249"></a>
<span class="sourceLineNo">250</span> return t;<a name="line.250"></a>
<span class="sourceLineNo">251</span> }<a name="line.251"></a>
<span class="sourceLineNo">252</span><a name="line.252"></a>
<span class="sourceLineNo">253</span> @Override<a name="line.253"></a>
<span class="sourceLineNo">254</span> public Dataset transpose(int... axes) {<a name="line.254"></a>
<span class="sourceLineNo">255</span> Dataset t = getTransposedView(axes);<a name="line.255"></a>
<span class="sourceLineNo">256</span> return t == null ? clone() : t.clone();<a name="line.256"></a>
<span class="sourceLineNo">257</span> }<a name="line.257"></a>
<span class="sourceLineNo">258</span><a name="line.258"></a>
<span class="sourceLineNo">259</span> @Override<a name="line.259"></a>
<span class="sourceLineNo">260</span> public Dataset swapAxes(int axis1, int axis2) {<a name="line.260"></a>
<span class="sourceLineNo">261</span> int rank = shape.length;<a name="line.261"></a>
<span class="sourceLineNo">262</span> if (axis1 &lt; 0)<a name="line.262"></a>
<span class="sourceLineNo">263</span> axis1 += rank;<a name="line.263"></a>
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<span class="sourceLineNo">531</span> public int[] getShape() {<a name="line.531"></a>
<span class="sourceLineNo">532</span> // make a copy of the dimensions data, and put that out<a name="line.532"></a>
<span class="sourceLineNo">533</span> if (shape == null) {<a name="line.533"></a>
<span class="sourceLineNo">534</span> logger.warn("Shape is null!!!");<a name="line.534"></a>
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<span class="sourceLineNo">539</span><a name="line.539"></a>
<span class="sourceLineNo">540</span> @Override<a name="line.540"></a>
<span class="sourceLineNo">541</span> public int getRank() {<a name="line.541"></a>
<span class="sourceLineNo">542</span> return shape == null ? 0 : shape.length;<a name="line.542"></a>
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<span class="sourceLineNo">545</span> @Override<a name="line.545"></a>
<span class="sourceLineNo">546</span> public int getNbytes() {<a name="line.546"></a>
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<span class="sourceLineNo">550</span> /**<a name="line.550"></a>
<span class="sourceLineNo">551</span> * Check for -1 placeholder in shape and replace if necessary<a name="line.551"></a>
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<span class="sourceLineNo">560</span> int d = shape[i];<a name="line.560"></a>
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<span class="sourceLineNo">565</span> logger.error("Can only have one -1 placeholder in shape");<a name="line.565"></a>
<span class="sourceLineNo">566</span> throw new IllegalArgumentException("Can only have one -1 placeholder in shape");<a name="line.566"></a>
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<span class="sourceLineNo">575</span> logger.error("New shape is not same size as old shape");<a name="line.575"></a>
<span class="sourceLineNo">576</span> throw new IllegalArgumentException("New size is not same as the old size. Old size is "+size+" new size is "+nsize+" and shape is "+Arrays.toString(shape));<a name="line.576"></a>
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<span class="sourceLineNo">578</span> }<a name="line.578"></a>
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<span class="sourceLineNo">580</span> @Override<a name="line.580"></a>
<span class="sourceLineNo">581</span> public void setShape(final int... shape) {<a name="line.581"></a>
<span class="sourceLineNo">582</span> int[] nshape = shape.clone();<a name="line.582"></a>
<span class="sourceLineNo">583</span> checkShape(nshape, size);<a name="line.583"></a>
<span class="sourceLineNo">584</span> if (Arrays.equals(this.shape, nshape)) {<a name="line.584"></a>
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<span class="sourceLineNo">587</span><a name="line.587"></a>
<span class="sourceLineNo">588</span> if (stride != null) {<a name="line.588"></a>
<span class="sourceLineNo">589</span> // the only compatible shapes are ones where new dimensions are factors of old dimensions<a name="line.589"></a>
<span class="sourceLineNo">590</span> // or are combined adjacent old dimensions <a name="line.590"></a>
<span class="sourceLineNo">591</span> int[] oshape = this.shape;<a name="line.591"></a>
<span class="sourceLineNo">592</span> int orank = oshape.length;<a name="line.592"></a>
<span class="sourceLineNo">593</span> int nrank = nshape.length;<a name="line.593"></a>
<span class="sourceLineNo">594</span> int diff = nrank - orank;<a name="line.594"></a>
<span class="sourceLineNo">595</span> int[] nstride = new int[nrank];<a name="line.595"></a>
<span class="sourceLineNo">596</span> boolean ones = true;<a name="line.596"></a>
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<span class="sourceLineNo">600</span> nstride[j++] = stride[i++];<a name="line.600"></a>
<span class="sourceLineNo">601</span> } else if (j &lt; nrank &amp;&amp; nshape[j] == 1) {<a name="line.601"></a>
<span class="sourceLineNo">602</span> nstride[j++] = 0;<a name="line.602"></a>
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<span class="sourceLineNo">604</span> i++;<a name="line.604"></a>
<span class="sourceLineNo">605</span> } else {<a name="line.605"></a>
<span class="sourceLineNo">606</span> if (j &lt; nrank)<a name="line.606"></a>
<span class="sourceLineNo">607</span> j++;<a name="line.607"></a>
<span class="sourceLineNo">608</span> if (i &lt; orank)<a name="line.608"></a>
<span class="sourceLineNo">609</span> i++;<a name="line.609"></a>
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<span class="sourceLineNo">612</span> }<a name="line.612"></a>
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<span class="sourceLineNo">614</span> int[] ostride = stride;<a name="line.614"></a>
<span class="sourceLineNo">615</span> int ob = 0;<a name="line.615"></a>
<span class="sourceLineNo">616</span> int oe = 1;<a name="line.616"></a>
<span class="sourceLineNo">617</span> int nb = 0;<a name="line.617"></a>
<span class="sourceLineNo">618</span> int ne = 1;<a name="line.618"></a>
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<span class="sourceLineNo">620</span> int ol = oshape[ob];<a name="line.620"></a>
<span class="sourceLineNo">621</span> int nl = nshape[nb];<a name="line.621"></a>
<span class="sourceLineNo">622</span> <a name="line.622"></a>
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<span class="sourceLineNo">625</span> if (ne == nrank) {<a name="line.625"></a>
<span class="sourceLineNo">626</span> break;<a name="line.626"></a>
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<span class="sourceLineNo">628</span> nl *= nshape[ne++];<a name="line.628"></a>
<span class="sourceLineNo">629</span> } while (nl &lt; ol);<a name="line.629"></a>
<span class="sourceLineNo">630</span> if (nl != ol) {<a name="line.630"></a>
<span class="sourceLineNo">631</span> logger.error("Subshape is incompatible with single dimension");<a name="line.631"></a>
<span class="sourceLineNo">632</span> throw new IllegalArgumentException("Subshape is incompatible with single dimension");<a name="line.632"></a>
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<span class="sourceLineNo">634</span> int on = ne - 1;<a name="line.634"></a>
<span class="sourceLineNo">635</span> while (nshape[on] == 1) {<a name="line.635"></a>
<span class="sourceLineNo">636</span> on--;<a name="line.636"></a>
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<span class="sourceLineNo">638</span><a name="line.638"></a>
<span class="sourceLineNo">639</span> nstride[on] = ostride[ob];<a name="line.639"></a>
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<span class="sourceLineNo">641</span> if (nshape[n] == 1)<a name="line.641"></a>
<span class="sourceLineNo">642</span> continue;<a name="line.642"></a>
<span class="sourceLineNo">643</span><a name="line.643"></a>
<span class="sourceLineNo">644</span> nstride[n] = nshape[on] * nstride[on];<a name="line.644"></a>
<span class="sourceLineNo">645</span> on = n;<a name="line.645"></a>
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<span class="sourceLineNo">649</span> if (oe == orank) {<a name="line.649"></a>
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<span class="sourceLineNo">652</span> ol *= oshape[oe++];<a name="line.652"></a>
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<span class="sourceLineNo">655</span> logger.error("Single dimension is incompatible with subshape");<a name="line.655"></a>
<span class="sourceLineNo">656</span> throw new IllegalArgumentException("Single dimension is incompatible with subshape");<a name="line.656"></a>
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<span class="sourceLineNo">658</span><a name="line.658"></a>
<span class="sourceLineNo">659</span> int oo = oe - 1;<a name="line.659"></a>
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<span class="sourceLineNo">663</span> int os = ostride[oo];<a name="line.663"></a>
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<span class="sourceLineNo">666</span> continue;<a name="line.666"></a>
<span class="sourceLineNo">667</span> if (ostride[o] != oshape[oo] * ostride[oo]) {<a name="line.667"></a>
<span class="sourceLineNo">668</span> logger.error("Subshape cannot be a non-contiguous view");<a name="line.668"></a>
<span class="sourceLineNo">669</span> throw new IllegalArgumentException("Subshape cannot be a non-contiguous view");<a name="line.669"></a>
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<span class="sourceLineNo">671</span> oo = o;<a name="line.671"></a>
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<span class="sourceLineNo">673</span> nstride[nb] = os;<a name="line.673"></a>
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<span class="sourceLineNo">675</span> nstride[nb] = ostride[ob];<a name="line.675"></a>
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<span class="sourceLineNo">677</span><a name="line.677"></a>
<span class="sourceLineNo">678</span> ob = oe++;<a name="line.678"></a>
<span class="sourceLineNo">679</span> nb = ne++;<a name="line.679"></a>
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<span class="sourceLineNo">682</span> <a name="line.682"></a>
<span class="sourceLineNo">683</span> stride = nstride;<a name="line.683"></a>
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<span class="sourceLineNo">685</span><a name="line.685"></a>
<span class="sourceLineNo">686</span> setDirty();<a name="line.686"></a>
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<span class="sourceLineNo">688</span> reshapeMetadata(this.shape, nshape);<a name="line.688"></a>
<span class="sourceLineNo">689</span> this.shape = nshape;<a name="line.689"></a>
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<span class="sourceLineNo">693</span> @Override<a name="line.693"></a>
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<span class="sourceLineNo">698</span> @Override<a name="line.698"></a>
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<span class="sourceLineNo">707</span><a name="line.707"></a>
<span class="sourceLineNo">708</span> @Override<a name="line.708"></a>
<span class="sourceLineNo">709</span> public Serializable getBuffer() {<a name="line.709"></a>
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<span class="sourceLineNo">713</span> @Override<a name="line.713"></a>
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<span class="sourceLineNo">722</span> this.shape = shape.clone();<a name="line.722"></a>
<span class="sourceLineNo">723</span> size = ShapeUtils.calcSize(this.shape);<a name="line.723"></a>
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<span class="sourceLineNo">726</span><a name="line.726"></a>
<span class="sourceLineNo">727</span> /**<a name="line.727"></a>
<span class="sourceLineNo">728</span> * Create a stride array from dataset<a name="line.728"></a>
<span class="sourceLineNo">729</span> * @param a dataset<a name="line.729"></a>
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<span class="sourceLineNo">736</span><a name="line.736"></a>
<span class="sourceLineNo">737</span> /**<a name="line.737"></a>
<span class="sourceLineNo">738</span> * Create a stride array from dataset<a name="line.738"></a>
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<span class="sourceLineNo">740</span> * @param shape<a name="line.740"></a>
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<span class="sourceLineNo">743</span> * @param offset output offset<a name="line.743"></a>
<span class="sourceLineNo">744</span> * @return new strides<a name="line.744"></a>
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<span class="sourceLineNo">746</span> public static int[] createStrides(final int isize, final int[] shape, final int[] oStride, final int oOffset, final int[] offset) {<a name="line.746"></a>
<span class="sourceLineNo">747</span> int rank = shape.length;<a name="line.747"></a>
<span class="sourceLineNo">748</span> final int[] stride;<a name="line.748"></a>
<span class="sourceLineNo">749</span> if (oStride == null) {<a name="line.749"></a>
<span class="sourceLineNo">750</span> offset[0] = 0;<a name="line.750"></a>
<span class="sourceLineNo">751</span> stride = new int[rank];<a name="line.751"></a>
<span class="sourceLineNo">752</span> int s = isize;<a name="line.752"></a>
<span class="sourceLineNo">753</span> for (int j = rank - 1; j &gt;= 0; j--) {<a name="line.753"></a>
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<span class="sourceLineNo">759</span> stride = oStride.clone();<a name="line.759"></a>
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<span class="sourceLineNo">764</span> /**<a name="line.764"></a>
<span class="sourceLineNo">765</span> * Create a stride array from slice information and a dataset<a name="line.765"></a>
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<span class="sourceLineNo">772</span> public static int[] createStrides(final SliceND slice, final Dataset a, final int[] stride, final int[] offset) {<a name="line.772"></a>
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<span class="sourceLineNo">775</span><a name="line.775"></a>
<span class="sourceLineNo">776</span> /**<a name="line.776"></a>
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<span class="sourceLineNo">788</span> int[] lstart = slice.getStart();<a name="line.788"></a>
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<span class="sourceLineNo">1081</span> @Override<a name="line.1081"></a>
<span class="sourceLineNo">1082</span> public int checkAxis(int axis) {<a name="line.1082"></a>
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<span class="sourceLineNo">1097</span><a name="line.1097"></a>
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<span class="sourceLineNo">1107</span> @Override<a name="line.1107"></a>
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<span class="sourceLineNo">1121</span> out.append(") ");<a name="line.1121"></a>
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<span class="sourceLineNo">1125</span> if (name != null &amp;&amp; name.length() &gt; 0) {<a name="line.1125"></a>
<span class="sourceLineNo">1126</span> out.append("'");<a name="line.1126"></a>
<span class="sourceLineNo">1127</span> out.append(name);<a name="line.1127"></a>
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<span class="sourceLineNo">1132</span><a name="line.1132"></a>
<span class="sourceLineNo">1133</span> out.append(BLOCK_OPEN);<a name="line.1133"></a>
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<span class="sourceLineNo">1137</span> for (int i = 1; i &lt; rank; i++) {<a name="line.1137"></a>
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<span class="sourceLineNo">1148</span> if (rank &gt; 0) {<a name="line.1148"></a>
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<span class="sourceLineNo">1182</span><a name="line.1182"></a>
<span class="sourceLineNo">1183</span> private final static String SEPARATOR = ",";<a name="line.1183"></a>
<span class="sourceLineNo">1184</span> private final static String SPACE = " ";<a name="line.1184"></a>
<span class="sourceLineNo">1185</span> private final static String ELLIPSIS = "...";<a name="line.1185"></a>
<span class="sourceLineNo">1186</span> private final static String NEWLINE = "\n";<a name="line.1186"></a>
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<span class="sourceLineNo">1189</span> * Make a line of output for last dimension of dataset<a name="line.1189"></a>
<span class="sourceLineNo">1190</span> * <a name="line.1190"></a>
<span class="sourceLineNo">1191</span> * @param start<a name="line.1191"></a>
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<span class="sourceLineNo">1195</span> StringBuilder line = new StringBuilder();<a name="line.1195"></a>
<span class="sourceLineNo">1196</span> final int[] pos;<a name="line.1196"></a>
<span class="sourceLineNo">1197</span> if (end &gt;= start.length) {<a name="line.1197"></a>
<span class="sourceLineNo">1198</span> pos = Arrays.copyOf(start, end + 1);<a name="line.1198"></a>
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<span class="sourceLineNo">1202</span> pos[end] = 0;<a name="line.1202"></a>
<span class="sourceLineNo">1203</span> line.append(BLOCK_OPEN);<a name="line.1203"></a>
<span class="sourceLineNo">1204</span> line.append(getString(pos));<a name="line.1204"></a>
<span class="sourceLineNo">1205</span><a name="line.1205"></a>
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<span class="sourceLineNo">1207</span><a name="line.1207"></a>
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<span class="sourceLineNo">1209</span> int excess = length - maxStringLength / 3; // space + number + separator<a name="line.1209"></a>
<span class="sourceLineNo">1210</span> if (excess &gt; 0) {<a name="line.1210"></a>
<span class="sourceLineNo">1211</span> int index = (length - excess) / 2;<a name="line.1211"></a>
<span class="sourceLineNo">1212</span> for (int y = 1; y &lt; index; y++) {<a name="line.1212"></a>
<span class="sourceLineNo">1213</span> line.append(SEPARATOR + SPACE);<a name="line.1213"></a>
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<span class="sourceLineNo">1215</span> line.append(getString(pos));<a name="line.1215"></a>
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<span class="sourceLineNo">1217</span> index = (length + excess) / 2;<a name="line.1217"></a>
<span class="sourceLineNo">1218</span> for (int y = index; y &lt; length; y++) {<a name="line.1218"></a>
<span class="sourceLineNo">1219</span> line.append(SEPARATOR + SPACE);<a name="line.1219"></a>
<span class="sourceLineNo">1220</span> pos[end] = y;<a name="line.1220"></a>
<span class="sourceLineNo">1221</span> line.append(getString(pos));<a name="line.1221"></a>
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<span class="sourceLineNo">1223</span> } else {<a name="line.1223"></a>
<span class="sourceLineNo">1224</span> for (int y = 1; y &lt; length; y++) {<a name="line.1224"></a>
<span class="sourceLineNo">1225</span> line.append(SEPARATOR + SPACE);<a name="line.1225"></a>
<span class="sourceLineNo">1226</span> pos[end] = y;<a name="line.1226"></a>
<span class="sourceLineNo">1227</span> line.append(getString(pos));<a name="line.1227"></a>
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<span class="sourceLineNo">1229</span> }<a name="line.1229"></a>
<span class="sourceLineNo">1230</span> line.append(BLOCK_CLOSE);<a name="line.1230"></a>
<span class="sourceLineNo">1231</span><a name="line.1231"></a>
<span class="sourceLineNo">1232</span> // trim string down to limit<a name="line.1232"></a>
<span class="sourceLineNo">1233</span> excess = line.length() - maxStringLength - ELLIPSIS.length() - 1;<a name="line.1233"></a>
<span class="sourceLineNo">1234</span> if (excess &gt; 0) {<a name="line.1234"></a>
<span class="sourceLineNo">1235</span> int index = line.substring(0, (line.length() - excess) / 2).lastIndexOf(SEPARATOR) + 2;<a name="line.1235"></a>
<span class="sourceLineNo">1236</span> StringBuilder out = new StringBuilder(line.subSequence(0, index));<a name="line.1236"></a>
<span class="sourceLineNo">1237</span> out.append(ELLIPSIS + SEPARATOR);<a name="line.1237"></a>
<span class="sourceLineNo">1238</span> index = line.substring((line.length() + excess) / 2).indexOf(SEPARATOR) + (line.length() + excess) / 2 + 1;<a name="line.1238"></a>
<span class="sourceLineNo">1239</span> out.append(line.subSequence(index, line.length()));<a name="line.1239"></a>
<span class="sourceLineNo">1240</span> return out;<a name="line.1240"></a>
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<span class="sourceLineNo">1242</span><a name="line.1242"></a>
<span class="sourceLineNo">1243</span> return line;<a name="line.1243"></a>
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<span class="sourceLineNo">1246</span> /**<a name="line.1246"></a>
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<span class="sourceLineNo">1249</span> private void printBlocks(final StringBuilder out, final StringBuilder lead, final int level, final int[] pos) {<a name="line.1249"></a>
<span class="sourceLineNo">1250</span> if (out.length() &gt; 0) {<a name="line.1250"></a>
<span class="sourceLineNo">1251</span> char last = out.charAt(out.length() - 1);<a name="line.1251"></a>
<span class="sourceLineNo">1252</span> if (last != BLOCK_OPEN) {<a name="line.1252"></a>
<span class="sourceLineNo">1253</span> out.append(lead);<a name="line.1253"></a>
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<span class="sourceLineNo">1256</span> final int end = getRank() - 1;<a name="line.1256"></a>
<span class="sourceLineNo">1257</span> if (level != end) {<a name="line.1257"></a>
<span class="sourceLineNo">1258</span> out.append(BLOCK_OPEN);<a name="line.1258"></a>
<span class="sourceLineNo">1259</span> int length = shape[level];<a name="line.1259"></a>
<span class="sourceLineNo">1260</span><a name="line.1260"></a>
<span class="sourceLineNo">1261</span> // first sub-block<a name="line.1261"></a>
<span class="sourceLineNo">1262</span> pos[level] = 0;<a name="line.1262"></a>
<span class="sourceLineNo">1263</span> StringBuilder newlead = new StringBuilder(lead);<a name="line.1263"></a>
<span class="sourceLineNo">1264</span> newlead.append(SPACE);<a name="line.1264"></a>
<span class="sourceLineNo">1265</span> printBlocks(out, newlead, level + 1, pos);<a name="line.1265"></a>
<span class="sourceLineNo">1266</span> if (length &lt; 2) { // escape<a name="line.1266"></a>
<span class="sourceLineNo">1267</span> out.append(BLOCK_CLOSE);<a name="line.1267"></a>
<span class="sourceLineNo">1268</span> return;<a name="line.1268"></a>
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<span class="sourceLineNo">1270</span><a name="line.1270"></a>
<span class="sourceLineNo">1271</span> out.append(SEPARATOR + NEWLINE);<a name="line.1271"></a>
<span class="sourceLineNo">1272</span> for (int i = level + 1; i &lt; end; i++) {<a name="line.1272"></a>
<span class="sourceLineNo">1273</span> out.append(NEWLINE);<a name="line.1273"></a>
<span class="sourceLineNo">1274</span> }<a name="line.1274"></a>
<span class="sourceLineNo">1275</span><a name="line.1275"></a>
<span class="sourceLineNo">1276</span> // middle sub-blocks<a name="line.1276"></a>
<span class="sourceLineNo">1277</span> if (length &lt; MAX_SUBBLOCKS) {<a name="line.1277"></a>
<span class="sourceLineNo">1278</span> for (int x = 1; x &lt; length - 1; x++) {<a name="line.1278"></a>
<span class="sourceLineNo">1279</span> pos[level] = x;<a name="line.1279"></a>
<span class="sourceLineNo">1280</span> printBlocks(out, newlead, level + 1, pos);<a name="line.1280"></a>
<span class="sourceLineNo">1281</span> if (end &lt;= level + 1) {<a name="line.1281"></a>
<span class="sourceLineNo">1282</span> out.append(SEPARATOR + NEWLINE);<a name="line.1282"></a>
<span class="sourceLineNo">1283</span> } else {<a name="line.1283"></a>
<span class="sourceLineNo">1284</span> out.append(SEPARATOR + NEWLINE + NEWLINE);<a name="line.1284"></a>
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<span class="sourceLineNo">1286</span> }<a name="line.1286"></a>
<span class="sourceLineNo">1287</span> } else {<a name="line.1287"></a>
<span class="sourceLineNo">1288</span> final int excess = length - MAX_SUBBLOCKS;<a name="line.1288"></a>
<span class="sourceLineNo">1289</span> int xmax = (length - excess) / 2;<a name="line.1289"></a>
<span class="sourceLineNo">1290</span> for (int x = 1; x &lt; xmax; x++) {<a name="line.1290"></a>
<span class="sourceLineNo">1291</span> pos[level] = x;<a name="line.1291"></a>
<span class="sourceLineNo">1292</span> printBlocks(out, newlead, level + 1, pos);<a name="line.1292"></a>
<span class="sourceLineNo">1293</span> if (end &lt;= level + 1) {<a name="line.1293"></a>
<span class="sourceLineNo">1294</span> out.append(SEPARATOR + NEWLINE);<a name="line.1294"></a>
<span class="sourceLineNo">1295</span> } else {<a name="line.1295"></a>
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<span class="sourceLineNo">1300</span> out.append(ELLIPSIS + SEPARATOR + NEWLINE);<a name="line.1300"></a>
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<span class="sourceLineNo">1359</span> for (int i = 0; i &lt; rank; i++) {<a name="line.1359"></a>
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<span class="sourceLineNo">1361</span> tstride[t++] = stride[i];<a name="line.1361"></a>
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