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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.annotation.Annotation;<a name="line.16"></a>
<span class="sourceLineNo">017</span>import java.lang.reflect.Array;<a name="line.17"></a>
<span class="sourceLineNo">018</span>import java.lang.reflect.Field;<a name="line.18"></a>
<span class="sourceLineNo">019</span>import java.util.ArrayList;<a name="line.19"></a>
<span class="sourceLineNo">020</span>import java.util.Arrays;<a name="line.20"></a>
<span class="sourceLineNo">021</span>import java.util.Collection;<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>import java.util.concurrent.ConcurrentHashMap;<a name="line.23"></a>
<span class="sourceLineNo">024</span>import java.util.List;<a name="line.24"></a>
<span class="sourceLineNo">025</span>import java.util.Map;<a name="line.25"></a>
<span class="sourceLineNo">026</span><a name="line.26"></a>
<span class="sourceLineNo">027</span>import org.eclipse.january.DatasetException;<a name="line.27"></a>
<span class="sourceLineNo">028</span>import org.eclipse.january.MetadataException;<a name="line.28"></a>
<span class="sourceLineNo">029</span>import org.eclipse.january.metadata.Dirtiable;<a name="line.29"></a>
<span class="sourceLineNo">030</span>import org.eclipse.january.metadata.ErrorMetadata;<a name="line.30"></a>
<span class="sourceLineNo">031</span>import org.eclipse.january.metadata.IMetadata;<a name="line.31"></a>
<span class="sourceLineNo">032</span>import org.eclipse.january.metadata.MetadataFactory;<a name="line.32"></a>
<span class="sourceLineNo">033</span>import org.eclipse.january.metadata.MetadataType;<a name="line.33"></a>
<span class="sourceLineNo">034</span>import org.eclipse.january.metadata.Reshapeable;<a name="line.34"></a>
<span class="sourceLineNo">035</span>import org.eclipse.january.metadata.Sliceable;<a name="line.35"></a>
<span class="sourceLineNo">036</span>import org.eclipse.january.metadata.Transposable;<a name="line.36"></a>
<span class="sourceLineNo">037</span>import org.slf4j.Logger;<a name="line.37"></a>
<span class="sourceLineNo">038</span>import org.slf4j.LoggerFactory;<a name="line.38"></a>
<span class="sourceLineNo">039</span><a name="line.39"></a>
<span class="sourceLineNo">040</span>/**<a name="line.40"></a>
<span class="sourceLineNo">041</span> * Common base for both lazy and normal dataset implementations<a name="line.41"></a>
<span class="sourceLineNo">042</span> */<a name="line.42"></a>
<span class="sourceLineNo">043</span>public abstract class LazyDatasetBase implements ILazyDataset, Serializable {<a name="line.43"></a>
<span class="sourceLineNo">044</span><a name="line.44"></a>
<span class="sourceLineNo">045</span> private static final long serialVersionUID = 767926846438976050L;<a name="line.45"></a>
<span class="sourceLineNo">046</span><a name="line.46"></a>
<span class="sourceLineNo">047</span> protected static final Logger logger = LoggerFactory.getLogger(LazyDatasetBase.class);<a name="line.47"></a>
<span class="sourceLineNo">048</span><a name="line.48"></a>
<span class="sourceLineNo">049</span> protected static boolean catchExceptions;<a name="line.49"></a>
<span class="sourceLineNo">050</span> <a name="line.50"></a>
<span class="sourceLineNo">051</span> static {<a name="line.51"></a>
<span class="sourceLineNo">052</span> /**<a name="line.52"></a>
<span class="sourceLineNo">053</span> * Boolean to set to true if running jython scripts that utilise ScisoftPy in IDE<a name="line.53"></a>
<span class="sourceLineNo">054</span> */<a name="line.54"></a>
<span class="sourceLineNo">055</span> catchExceptions = Boolean.getBoolean("run.in.eclipse");<a name="line.55"></a>
<span class="sourceLineNo">056</span> }<a name="line.56"></a>
<span class="sourceLineNo">057</span><a name="line.57"></a>
<span class="sourceLineNo">058</span> protected String name = "";<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> * The shape or dimensions of the dataset<a name="line.61"></a>
<span class="sourceLineNo">062</span> */<a name="line.62"></a>
<span class="sourceLineNo">063</span> protected int[] shape;<a name="line.63"></a>
<span class="sourceLineNo">064</span><a name="line.64"></a>
<span class="sourceLineNo">065</span> protected ConcurrentMap&lt;Class&lt;? extends MetadataType&gt;, List&lt;MetadataType&gt;&gt; metadata = null;<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> * @return type of dataset item<a name="line.68"></a>
<span class="sourceLineNo">069</span> */<a name="line.69"></a>
<span class="sourceLineNo">070</span> abstract public int getDType();<a name="line.70"></a>
<span class="sourceLineNo">071</span><a name="line.71"></a>
<span class="sourceLineNo">072</span> @Override<a name="line.72"></a>
<span class="sourceLineNo">073</span> public Class&lt;?&gt; getElementClass() {<a name="line.73"></a>
<span class="sourceLineNo">074</span> return DTypeUtils.getElementClass(getDType());<a name="line.74"></a>
<span class="sourceLineNo">075</span> }<a name="line.75"></a>
<span class="sourceLineNo">076</span><a name="line.76"></a>
<span class="sourceLineNo">077</span> @Override<a name="line.77"></a>
<span class="sourceLineNo">078</span> public LazyDatasetBase clone() {<a name="line.78"></a>
<span class="sourceLineNo">079</span> return null;<a name="line.79"></a>
<span class="sourceLineNo">080</span> }<a name="line.80"></a>
<span class="sourceLineNo">081</span><a name="line.81"></a>
<span class="sourceLineNo">082</span> @Override<a name="line.82"></a>
<span class="sourceLineNo">083</span> public boolean equals(Object obj) {<a name="line.83"></a>
<span class="sourceLineNo">084</span> if (this == obj) {<a name="line.84"></a>
<span class="sourceLineNo">085</span> return true;<a name="line.85"></a>
<span class="sourceLineNo">086</span> }<a name="line.86"></a>
<span class="sourceLineNo">087</span> if (obj == null) {<a name="line.87"></a>
<span class="sourceLineNo">088</span> return false;<a name="line.88"></a>
<span class="sourceLineNo">089</span> }<a name="line.89"></a>
<span class="sourceLineNo">090</span> if (!getClass().equals(obj.getClass())) {<a name="line.90"></a>
<span class="sourceLineNo">091</span> return false;<a name="line.91"></a>
<span class="sourceLineNo">092</span> }<a name="line.92"></a>
<span class="sourceLineNo">093</span> <a name="line.93"></a>
<span class="sourceLineNo">094</span> LazyDatasetBase other = (LazyDatasetBase) obj;<a name="line.94"></a>
<span class="sourceLineNo">095</span> if (getDType() != other.getDType()) {<a name="line.95"></a>
<span class="sourceLineNo">096</span> return false;<a name="line.96"></a>
<span class="sourceLineNo">097</span> }<a name="line.97"></a>
<span class="sourceLineNo">098</span> if (getElementsPerItem() != other.getElementsPerItem()) {<a name="line.98"></a>
<span class="sourceLineNo">099</span> return false;<a name="line.99"></a>
<span class="sourceLineNo">100</span> }<a name="line.100"></a>
<span class="sourceLineNo">101</span> if (!Arrays.equals(shape, other.shape)) {<a name="line.101"></a>
<span class="sourceLineNo">102</span> return false;<a name="line.102"></a>
<span class="sourceLineNo">103</span> }<a name="line.103"></a>
<span class="sourceLineNo">104</span> return true;<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>
<span class="sourceLineNo">107</span> @Override<a name="line.107"></a>
<span class="sourceLineNo">108</span> public int hashCode() {<a name="line.108"></a>
<span class="sourceLineNo">109</span> int hash = getDType() * 17 + getElementsPerItem();<a name="line.109"></a>
<span class="sourceLineNo">110</span> int rank = shape.length;<a name="line.110"></a>
<span class="sourceLineNo">111</span> for (int i = 0; i &lt; rank; i++) {<a name="line.111"></a>
<span class="sourceLineNo">112</span> hash = hash*17 + shape[i];<a name="line.112"></a>
<span class="sourceLineNo">113</span> }<a name="line.113"></a>
<span class="sourceLineNo">114</span> return hash;<a name="line.114"></a>
<span class="sourceLineNo">115</span> }<a name="line.115"></a>
<span class="sourceLineNo">116</span><a name="line.116"></a>
<span class="sourceLineNo">117</span> @Override<a name="line.117"></a>
<span class="sourceLineNo">118</span> public String getName() {<a name="line.118"></a>
<span class="sourceLineNo">119</span> return name;<a name="line.119"></a>
<span class="sourceLineNo">120</span> }<a name="line.120"></a>
<span class="sourceLineNo">121</span><a name="line.121"></a>
<span class="sourceLineNo">122</span> @Override<a name="line.122"></a>
<span class="sourceLineNo">123</span> public void setName(String name) {<a name="line.123"></a>
<span class="sourceLineNo">124</span> this.name = name;<a name="line.124"></a>
<span class="sourceLineNo">125</span> }<a name="line.125"></a>
<span class="sourceLineNo">126</span><a name="line.126"></a>
<span class="sourceLineNo">127</span> @Override<a name="line.127"></a>
<span class="sourceLineNo">128</span> public int[] getShape() {<a name="line.128"></a>
<span class="sourceLineNo">129</span> return shape.clone();<a name="line.129"></a>
<span class="sourceLineNo">130</span> }<a name="line.130"></a>
<span class="sourceLineNo">131</span><a name="line.131"></a>
<span class="sourceLineNo">132</span> @Override<a name="line.132"></a>
<span class="sourceLineNo">133</span> public int getRank() {<a name="line.133"></a>
<span class="sourceLineNo">134</span> return shape.length;<a name="line.134"></a>
<span class="sourceLineNo">135</span> }<a name="line.135"></a>
<span class="sourceLineNo">136</span><a name="line.136"></a>
<span class="sourceLineNo">137</span> /**<a name="line.137"></a>
<span class="sourceLineNo">138</span> * Find first sub-interface of (or class that directly implements) MetadataType<a name="line.138"></a>
<span class="sourceLineNo">139</span> * @param clazz<a name="line.139"></a>
<span class="sourceLineNo">140</span> * @return sub-interface<a name="line.140"></a>
<span class="sourceLineNo">141</span> * @exception IllegalArgumentException when given class is {@link MetadataType} or an anonymous sub-class of it<a name="line.141"></a>
<span class="sourceLineNo">142</span> */<a name="line.142"></a>
<span class="sourceLineNo">143</span> @SuppressWarnings("unchecked")<a name="line.143"></a>
<span class="sourceLineNo">144</span> public static Class&lt;? extends MetadataType&gt; findMetadataTypeSubInterfaces(Class&lt;? extends MetadataType&gt; clazz) {<a name="line.144"></a>
<span class="sourceLineNo">145</span> if (clazz.equals(MetadataType.class)) {<a name="line.145"></a>
<span class="sourceLineNo">146</span> throw new IllegalArgumentException("Cannot accept MetadataType");<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> if (clazz.isInterface()) {<a name="line.149"></a>
<span class="sourceLineNo">150</span> return clazz;<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> if (clazz.isAnonymousClass()) { // special case<a name="line.153"></a>
<span class="sourceLineNo">154</span> Class&lt;?&gt; s = clazz.getSuperclass();<a name="line.154"></a>
<span class="sourceLineNo">155</span> if (!s.equals(Object.class)) {<a name="line.155"></a>
<span class="sourceLineNo">156</span> // only use super class if it is not an anonymous class of an interface<a name="line.156"></a>
<span class="sourceLineNo">157</span> clazz = (Class&lt;? extends MetadataType&gt;) s;<a name="line.157"></a>
<span class="sourceLineNo">158</span> }<a name="line.158"></a>
<span class="sourceLineNo">159</span> }<a name="line.159"></a>
<span class="sourceLineNo">160</span><a name="line.160"></a>
<span class="sourceLineNo">161</span> for (Class&lt;?&gt; c : clazz.getInterfaces()) {<a name="line.161"></a>
<span class="sourceLineNo">162</span> if (c.equals(MetadataType.class)) {<a name="line.162"></a>
<span class="sourceLineNo">163</span> if (clazz.isAnonymousClass()) {<a name="line.163"></a>
<span class="sourceLineNo">164</span> throw new IllegalArgumentException("Cannot accept anonymous subclasses of MetadataType");<a name="line.164"></a>
<span class="sourceLineNo">165</span> }<a name="line.165"></a>
<span class="sourceLineNo">166</span> return clazz;<a name="line.166"></a>
<span class="sourceLineNo">167</span> }<a name="line.167"></a>
<span class="sourceLineNo">168</span> if (MetadataType.class.isAssignableFrom(c)) {<a name="line.168"></a>
<span class="sourceLineNo">169</span> return (Class&lt;? extends MetadataType&gt;) c;<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> Class&lt;?&gt; c = clazz.getSuperclass(); // Naughty: someone has sub-classed a metadata class<a name="line.173"></a>
<span class="sourceLineNo">174</span> if (c != null) {<a name="line.174"></a>
<span class="sourceLineNo">175</span> return findMetadataTypeSubInterfaces((Class&lt;? extends MetadataType&gt;) c);<a name="line.175"></a>
<span class="sourceLineNo">176</span> }<a name="line.176"></a>
<span class="sourceLineNo">177</span><a name="line.177"></a>
<span class="sourceLineNo">178</span> logger.error("Somehow the search for metadata type interface ended in a bad place");<a name="line.178"></a>
<span class="sourceLineNo">179</span> assert false; // should not be able to get here!!!<a name="line.179"></a>
<span class="sourceLineNo">180</span> return null;<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> @Override<a name="line.183"></a>
<span class="sourceLineNo">184</span> public void setMetadata(MetadataType metadata) {<a name="line.184"></a>
<span class="sourceLineNo">185</span> addMetadata(metadata, true);<a name="line.185"></a>
<span class="sourceLineNo">186</span> }<a name="line.186"></a>
<span class="sourceLineNo">187</span><a name="line.187"></a>
<span class="sourceLineNo">188</span> @Override<a name="line.188"></a>
<span class="sourceLineNo">189</span> public void addMetadata(MetadataType metadata) {<a name="line.189"></a>
<span class="sourceLineNo">190</span> addMetadata(metadata, false);<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> private synchronized void addMetadata(MetadataType metadata, boolean clear) {<a name="line.193"></a>
<span class="sourceLineNo">194</span> if (metadata == null)<a name="line.194"></a>
<span class="sourceLineNo">195</span> return;<a name="line.195"></a>
<span class="sourceLineNo">196</span><a name="line.196"></a>
<span class="sourceLineNo">197</span> if (this.metadata == null) {<a name="line.197"></a>
<span class="sourceLineNo">198</span> this.metadata = 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><a name="line.200"></a>
<span class="sourceLineNo">201</span> Class&lt;? extends MetadataType&gt; clazz = findMetadataTypeSubInterfaces(metadata.getClass());<a name="line.201"></a>
<span class="sourceLineNo">202</span> if (!this.metadata.containsKey(clazz)) {<a name="line.202"></a>
<span class="sourceLineNo">203</span> this.metadata.put(clazz, new ArrayList&lt;MetadataType&gt;());<a name="line.203"></a>
<span class="sourceLineNo">204</span> } else if (clear) {<a name="line.204"></a>
<span class="sourceLineNo">205</span> this.metadata.get(clazz).clear();<a name="line.205"></a>
<span class="sourceLineNo">206</span> }<a name="line.206"></a>
<span class="sourceLineNo">207</span> this.metadata.get(clazz).add(metadata);<a name="line.207"></a>
<span class="sourceLineNo">208</span><a name="line.208"></a>
<span class="sourceLineNo">209</span> // add for special case of sub-interfaces of IMetadata<a name="line.209"></a>
<span class="sourceLineNo">210</span> if (!IMetadata.class.equals(clazz) &amp;&amp; IMetadata.class.isAssignableFrom(clazz)) {<a name="line.210"></a>
<span class="sourceLineNo">211</span> clazz = IMetadata.class;<a name="line.211"></a>
<span class="sourceLineNo">212</span> if (!this.metadata.containsKey(clazz)) {<a name="line.212"></a>
<span class="sourceLineNo">213</span> this.metadata.put(clazz, new ArrayList&lt;MetadataType&gt;());<a name="line.213"></a>
<span class="sourceLineNo">214</span> } else if (clear) {<a name="line.214"></a>
<span class="sourceLineNo">215</span> this.metadata.get(clazz).clear();<a name="line.215"></a>
<span class="sourceLineNo">216</span> }<a name="line.216"></a>
<span class="sourceLineNo">217</span> this.metadata.get(clazz).add(metadata);<a name="line.217"></a>
<span class="sourceLineNo">218</span> }<a name="line.218"></a>
<span class="sourceLineNo">219</span> }<a name="line.219"></a>
<span class="sourceLineNo">220</span><a name="line.220"></a>
<span class="sourceLineNo">221</span> @Override<a name="line.221"></a>
<span class="sourceLineNo">222</span> @Deprecated<a name="line.222"></a>
<span class="sourceLineNo">223</span> public synchronized IMetadata getMetadata() {<a name="line.223"></a>
<span class="sourceLineNo">224</span> return getFirstMetadata(IMetadata.class);<a name="line.224"></a>
<span class="sourceLineNo">225</span> }<a name="line.225"></a>
<span class="sourceLineNo">226</span><a name="line.226"></a>
<span class="sourceLineNo">227</span> @SuppressWarnings("unchecked")<a name="line.227"></a>
<span class="sourceLineNo">228</span> @Override<a name="line.228"></a>
<span class="sourceLineNo">229</span> public synchronized &lt;S extends MetadataType, T extends S&gt; List&lt;S&gt; getMetadata(Class&lt;T&gt; clazz) throws MetadataException {<a name="line.229"></a>
<span class="sourceLineNo">230</span> if (metadata == null)<a name="line.230"></a>
<span class="sourceLineNo">231</span> return null;<a name="line.231"></a>
<span class="sourceLineNo">232</span><a name="line.232"></a>
<span class="sourceLineNo">233</span> if (clazz == null) {<a name="line.233"></a>
<span class="sourceLineNo">234</span> List&lt;S&gt; all = new ArrayList&lt;S&gt;();<a name="line.234"></a>
<span class="sourceLineNo">235</span> for (Class&lt;? extends MetadataType&gt; c : metadata.keySet()) {<a name="line.235"></a>
<span class="sourceLineNo">236</span> all.addAll((Collection&lt;S&gt;) metadata.get(c));<a name="line.236"></a>
<span class="sourceLineNo">237</span> }<a name="line.237"></a>
<span class="sourceLineNo">238</span> return all;<a name="line.238"></a>
<span class="sourceLineNo">239</span> }<a name="line.239"></a>
<span class="sourceLineNo">240</span><a name="line.240"></a>
<span class="sourceLineNo">241</span> return (List&lt;S&gt;) metadata.get(findMetadataTypeSubInterfaces(clazz));<a name="line.241"></a>
<span class="sourceLineNo">242</span> }<a name="line.242"></a>
<span class="sourceLineNo">243</span><a name="line.243"></a>
<span class="sourceLineNo">244</span> @Override<a name="line.244"></a>
<span class="sourceLineNo">245</span> public synchronized &lt;S extends MetadataType, T extends S&gt; S getFirstMetadata(Class&lt;T&gt; clazz) {<a name="line.245"></a>
<span class="sourceLineNo">246</span> try {<a name="line.246"></a>
<span class="sourceLineNo">247</span> List&lt;S&gt; ml = getMetadata(clazz);<a name="line.247"></a>
<span class="sourceLineNo">248</span> if (ml == null) return null;<a name="line.248"></a>
<span class="sourceLineNo">249</span> for (S t : ml) {<a name="line.249"></a>
<span class="sourceLineNo">250</span> if (clazz.isInstance(t)) return t;<a name="line.250"></a>
<span class="sourceLineNo">251</span> }<a name="line.251"></a>
<span class="sourceLineNo">252</span> } catch (Exception e) {<a name="line.252"></a>
<span class="sourceLineNo">253</span> logger.error("Get metadata failed!",e);<a name="line.253"></a>
<span class="sourceLineNo">254</span> }<a name="line.254"></a>
<span class="sourceLineNo">255</span><a name="line.255"></a>
<span class="sourceLineNo">256</span> return null;<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 synchronized void clearMetadata(Class&lt;? extends MetadataType&gt; clazz) {<a name="line.260"></a>
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<span class="sourceLineNo">305</span> * &lt;p&gt;<a name="line.305"></a>
<span class="sourceLineNo">306</span> * When the field is not a container then the returned value<a name="line.306"></a>
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<span class="sourceLineNo">314</span> /**<a name="line.314"></a>
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<span class="sourceLineNo">318</span><a name="line.318"></a>
<span class="sourceLineNo">319</span> /**<a name="line.319"></a>
<span class="sourceLineNo">320</span> * @param axis<a name="line.320"></a>
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<span class="sourceLineNo">341</span> private int[] start;<a name="line.341"></a>
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<span class="sourceLineNo">345</span> private long oSize;<a name="line.345"></a>
<span class="sourceLineNo">346</span><a name="line.346"></a>
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<span class="sourceLineNo">371</span> @Override<a name="line.371"></a>
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<span class="sourceLineNo">376</span> @Override<a name="line.376"></a>
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<span class="sourceLineNo">385</span> int[] stp;<a name="line.385"></a>
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<span class="sourceLineNo">393</span> stp = stop.clone();<a name="line.393"></a>
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<span class="sourceLineNo">412</span> logger.error("Could not slice dataset in metadata", e);<a name="line.412"></a>
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<span class="sourceLineNo">418</span> class MdsReshape implements MetadatasetAnnotationOperation {<a name="line.418"></a>
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<span class="sourceLineNo">423</span> int[] differences;<a name="line.423"></a>
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<span class="sourceLineNo">427</span> * <a name="line.427"></a>
<span class="sourceLineNo">428</span> * if shape changing, find broadcasted dimensions and disallow<a name="line.428"></a>
<span class="sourceLineNo">429</span> * merging that include those dimensions<a name="line.429"></a>
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<span class="sourceLineNo">447</span> public Class&lt;? extends Annotation&gt; getAnnClass() {<a name="line.447"></a>
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<span class="sourceLineNo">451</span> @Override<a name="line.451"></a>
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<span class="sourceLineNo">530</span> // work out mapping: contiguous dimensions can be grouped or split<a name="line.530"></a>
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<span class="sourceLineNo">532</span> int ol = oldShape[ob];<a name="line.532"></a>
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<span class="sourceLineNo">534</span> ob++;<a name="line.534"></a>
<span class="sourceLineNo">535</span> ol = oldShape[ob];<a name="line.535"></a>
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<span class="sourceLineNo">537</span> int oe = ob + 1;<a name="line.537"></a>
<span class="sourceLineNo">538</span> int nl = newShape[nb];<a name="line.538"></a>
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<span class="sourceLineNo">540</span> nb++;<a name="line.540"></a>
<span class="sourceLineNo">541</span> nl = newShape[nb];<a name="line.541"></a>
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<span class="sourceLineNo">543</span> int ne = nb + 1;<a name="line.543"></a>
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<span class="sourceLineNo">545</span> differences[ob] = 1;<a name="line.545"></a>
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<span class="sourceLineNo">550</span> differences[oe] = 1;<a name="line.550"></a>
<span class="sourceLineNo">551</span> ol *= oldShape[oe++];<a name="line.551"></a>
<span class="sourceLineNo">552</span> } while (ol &lt; nl);<a name="line.552"></a>
<span class="sourceLineNo">553</span> differences[oe - 1] = oe - ob; // signal end with difference<a name="line.553"></a>
<span class="sourceLineNo">554</span> if (nl != ol) {<a name="line.554"></a>
<span class="sourceLineNo">555</span> logger.error("Single dimension is incompatible with subshape");<a name="line.555"></a>
<span class="sourceLineNo">556</span> throw new IllegalArgumentException("Single dimension is incompatible with subshape");<a name="line.556"></a>
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<span class="sourceLineNo">558</span> } else if (ol &gt; nl) {<a name="line.558"></a>
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<span class="sourceLineNo">560</span> if (ne == (nr + 1)) {<a name="line.560"></a>
<span class="sourceLineNo">561</span> break;<a name="line.561"></a>
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<span class="sourceLineNo">563</span> nl *= newShape[ne++];<a name="line.563"></a>
<span class="sourceLineNo">564</span> } while (nl &lt; ol);<a name="line.564"></a>
<span class="sourceLineNo">565</span> if (nl != ol) {<a name="line.565"></a>
<span class="sourceLineNo">566</span> logger.error("Subshape is incompatible with single dimension");<a name="line.566"></a>
<span class="sourceLineNo">567</span> throw new IllegalArgumentException("Subshape is incompatible with single dimension");<a name="line.567"></a>
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<span class="sourceLineNo">569</span><a name="line.569"></a>
<span class="sourceLineNo">570</span> }<a name="line.570"></a>
<span class="sourceLineNo">571</span><a name="line.571"></a>
<span class="sourceLineNo">572</span> ob = oe;<a name="line.572"></a>
<span class="sourceLineNo">573</span> nb = ne;<a name="line.573"></a>
<span class="sourceLineNo">574</span> }<a name="line.574"></a>
<span class="sourceLineNo">575</span><a name="line.575"></a>
<span class="sourceLineNo">576</span> }<a name="line.576"></a>
<span class="sourceLineNo">577</span> }<a name="line.577"></a>
<span class="sourceLineNo">578</span><a name="line.578"></a>
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<span class="sourceLineNo">580</span> public ILazyDataset run(ILazyDataset lz) {<a name="line.580"></a>
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<span class="sourceLineNo">582</span> init();<a name="line.582"></a>
<span class="sourceLineNo">583</span><a name="line.583"></a>
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<span class="sourceLineNo">588</span> int or = lz.getRank();<a name="line.588"></a>
<span class="sourceLineNo">589</span> int nr = newShape.length;<a name="line.589"></a>
<span class="sourceLineNo">590</span> int[] nshape = new int[nr];<a name="line.590"></a>
<span class="sourceLineNo">591</span> Arrays.fill(nshape, 1);<a name="line.591"></a>
<span class="sourceLineNo">592</span> if (onesOnly) {<a name="line.592"></a>
<span class="sourceLineNo">593</span> // ignore omit removed dimensions<a name="line.593"></a>
<span class="sourceLineNo">594</span> for (int i = 0, si = 0, di = 0; i &lt; (or+1) &amp;&amp; si &lt;= or &amp;&amp; di &lt; nr; i++) {<a name="line.594"></a>
<span class="sourceLineNo">595</span> int c = differences[i];<a name="line.595"></a>
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<span class="sourceLineNo">597</span> nshape[di++] = lshape[si++];<a name="line.597"></a>
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<span class="sourceLineNo">600</span> di++;<a name="line.600"></a>
<span class="sourceLineNo">601</span> }<a name="line.601"></a>
<span class="sourceLineNo">602</span> } else if (c &lt; 0) {<a name="line.602"></a>
<span class="sourceLineNo">603</span> si -= c; // remove dimensions by skipping forward in source array<a name="line.603"></a>
<span class="sourceLineNo">604</span> }<a name="line.604"></a>
<span class="sourceLineNo">605</span> }<a name="line.605"></a>
<span class="sourceLineNo">606</span> } else {<a name="line.606"></a>
<span class="sourceLineNo">607</span> boolean[] broadcast = new boolean[or];<a name="line.607"></a>
<span class="sourceLineNo">608</span> for (int ob = 0; ob &lt; or; ob++) {<a name="line.608"></a>
<span class="sourceLineNo">609</span> broadcast[ob] = oldShape[ob] != 1 &amp;&amp; lshape[ob] == 1;<a name="line.609"></a>
<span class="sourceLineNo">610</span> }<a name="line.610"></a>
<span class="sourceLineNo">611</span> int osize = lz.getSize();<a name="line.611"></a>
<span class="sourceLineNo">612</span><a name="line.612"></a>
<span class="sourceLineNo">613</span> // cannot do 3x5x... to 15x... if metadata is broadcasting (i.e. 1x5x...)<a name="line.613"></a>
<span class="sourceLineNo">614</span> int ob = 0;<a name="line.614"></a>
<span class="sourceLineNo">615</span> int nsize = 1;<a name="line.615"></a>
<span class="sourceLineNo">616</span> for (int i = 0; i &lt; nr; i++) {<a name="line.616"></a>
<span class="sourceLineNo">617</span> if (ob &lt; or &amp;&amp; broadcast[ob]) {<a name="line.617"></a>
<span class="sourceLineNo">618</span> if (differences[ob] != 0) {<a name="line.618"></a>
<span class="sourceLineNo">619</span> logger.error("Metadata contains a broadcast axis which cannot be reshaped");<a name="line.619"></a>
<span class="sourceLineNo">620</span> throw new IllegalArgumentException("Metadata contains a broadcast axis which cannot be reshaped");<a name="line.620"></a>
<span class="sourceLineNo">621</span> }<a name="line.621"></a>
<span class="sourceLineNo">622</span> } else {<a name="line.622"></a>
<span class="sourceLineNo">623</span> nshape[i] = nsize &lt; osize ? newShape[i] : 1;<a name="line.623"></a>
<span class="sourceLineNo">624</span> }<a name="line.624"></a>
<span class="sourceLineNo">625</span> nsize *= nshape[i];<a name="line.625"></a>
<span class="sourceLineNo">626</span> ob++;<a name="line.626"></a>
<span class="sourceLineNo">627</span> }<a name="line.627"></a>
<span class="sourceLineNo">628</span> }<a name="line.628"></a>
<span class="sourceLineNo">629</span><a name="line.629"></a>
<span class="sourceLineNo">630</span> ILazyDataset nlz = lz.getSliceView();<a name="line.630"></a>
<span class="sourceLineNo">631</span> if (lz instanceof Dataset) {<a name="line.631"></a>
<span class="sourceLineNo">632</span> nlz = ((Dataset) lz).reshape(nshape);<a name="line.632"></a>
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<span class="sourceLineNo">634</span> nlz = lz.getSliceView();<a name="line.634"></a>
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<span class="sourceLineNo">639</span> }<a name="line.639"></a>
<span class="sourceLineNo">640</span><a name="line.640"></a>
<span class="sourceLineNo">641</span> class MdsTranspose implements MetadatasetAnnotationOperation {<a name="line.641"></a>
<span class="sourceLineNo">642</span> int[] map;<a name="line.642"></a>
<span class="sourceLineNo">643</span><a name="line.643"></a>
<span class="sourceLineNo">644</span> public MdsTranspose(final int[] axesMap) {<a name="line.644"></a>
<span class="sourceLineNo">645</span> map = axesMap;<a name="line.645"></a>
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<span class="sourceLineNo">647</span><a name="line.647"></a>
<span class="sourceLineNo">648</span> @SuppressWarnings({ "rawtypes", "unchecked" })<a name="line.648"></a>
<span class="sourceLineNo">649</span> @Override<a name="line.649"></a>
<span class="sourceLineNo">650</span> public Object processField(Field f, Object o) {<a name="line.650"></a>
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<span class="sourceLineNo">653</span> int l = Array.getLength(o);<a name="line.653"></a>
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<span class="sourceLineNo">655</span> Object narray = Array.newInstance(o.getClass().getComponentType(), l);<a name="line.655"></a>
<span class="sourceLineNo">656</span> for (int i = 0; i &lt; l; i++) {<a name="line.656"></a>
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<span class="sourceLineNo">659</span> for (int i = 0; i &lt; l; i++) {<a name="line.659"></a>
<span class="sourceLineNo">660</span> Array.set(o, i, Array.get(narray, i));<a name="line.660"></a>
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<span class="sourceLineNo">665</span> int l = list.size();<a name="line.665"></a>
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<span class="sourceLineNo">667</span> Object narray = Array.newInstance(o.getClass().getComponentType(), l);<a name="line.667"></a>
<span class="sourceLineNo">668</span> for (int i = 0; i &lt; l; i++) {<a name="line.668"></a>
<span class="sourceLineNo">669</span> Array.set(narray, i, list.get(map[i]));<a name="line.669"></a>
<span class="sourceLineNo">670</span> }<a name="line.670"></a>
<span class="sourceLineNo">671</span> list.clear();<a name="line.671"></a>
<span class="sourceLineNo">672</span> for (int i = 0; i &lt; l; i++) {<a name="line.672"></a>
<span class="sourceLineNo">673</span> list.add(Array.get(narray, i));<a name="line.673"></a>
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<span class="sourceLineNo">675</span> }<a name="line.675"></a>
<span class="sourceLineNo">676</span> }<a name="line.676"></a>
<span class="sourceLineNo">677</span> return o;<a name="line.677"></a>
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<span class="sourceLineNo">679</span><a name="line.679"></a>
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<span class="sourceLineNo">681</span> public Class&lt;? extends Annotation&gt; getAnnClass() {<a name="line.681"></a>
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<span class="sourceLineNo">689</span><a name="line.689"></a>
<span class="sourceLineNo">690</span> @Override<a name="line.690"></a>
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<span class="sourceLineNo">700</span><a name="line.700"></a>
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<span class="sourceLineNo">720</span> @Override<a name="line.720"></a>
<span class="sourceLineNo">721</span> public int change(int axis) {<a name="line.721"></a>
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<span class="sourceLineNo">729</span><a name="line.729"></a>
<span class="sourceLineNo">730</span> @Override<a name="line.730"></a>
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<span class="sourceLineNo">737</span> * Slice all datasets in metadata that are annotated by @Sliceable. Call this on the new sliced<a name="line.737"></a>
<span class="sourceLineNo">738</span> * dataset after cloning the metadata<a name="line.738"></a>
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<span class="sourceLineNo">745</span><a name="line.745"></a>
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<span class="sourceLineNo">755</span><a name="line.755"></a>
<span class="sourceLineNo">756</span> /**<a name="line.756"></a>
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<span class="sourceLineNo">773</span> @SuppressWarnings("unchecked")<a name="line.773"></a>
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<span class="sourceLineNo">802</span> f.setAccessible(true);<a name="line.802"></a>
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<span class="sourceLineNo">809</span> f.set(m, no);<a name="line.809"></a>
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<span class="sourceLineNo">1030</span> }<a name="line.1030"></a>
<span class="sourceLineNo">1031</span><a name="line.1031"></a>
<span class="sourceLineNo">1032</span> @Override<a name="line.1032"></a>
<span class="sourceLineNo">1033</span> public boolean hasErrors() {<a name="line.1033"></a>
<span class="sourceLineNo">1034</span> return LazyDatasetBase.this.getErrors() != null;<a name="line.1034"></a>
<span class="sourceLineNo">1035</span> }<a name="line.1035"></a>
<span class="sourceLineNo">1036</span><a name="line.1036"></a>
<span class="sourceLineNo">1037</span> /**<a name="line.1037"></a>
<span class="sourceLineNo">1038</span> * Check permutation axes<a name="line.1038"></a>
<span class="sourceLineNo">1039</span> * @param shape<a name="line.1039"></a>
<span class="sourceLineNo">1040</span> * @param axes<a name="line.1040"></a>
<span class="sourceLineNo">1041</span> * @return cleaned up axes or null if trivial<a name="line.1041"></a>
<span class="sourceLineNo">1042</span> */<a name="line.1042"></a>
<span class="sourceLineNo">1043</span> public static int[] checkPermutatedAxes(int[] shape, int... axes) {<a name="line.1043"></a>
<span class="sourceLineNo">1044</span> int rank = shape.length;<a name="line.1044"></a>
<span class="sourceLineNo">1045</span> <a name="line.1045"></a>
<span class="sourceLineNo">1046</span> if (axes == null || axes.length == 0) {<a name="line.1046"></a>
<span class="sourceLineNo">1047</span> axes = new int[rank];<a name="line.1047"></a>
<span class="sourceLineNo">1048</span> for (int i = 0; i &lt; rank; i++) {<a name="line.1048"></a>
<span class="sourceLineNo">1049</span> axes[i] = rank - 1 - i;<a name="line.1049"></a>
<span class="sourceLineNo">1050</span> }<a name="line.1050"></a>
<span class="sourceLineNo">1051</span> }<a name="line.1051"></a>
<span class="sourceLineNo">1052</span><a name="line.1052"></a>
<span class="sourceLineNo">1053</span> if (axes.length != rank) {<a name="line.1053"></a>
<span class="sourceLineNo">1054</span> logger.error("axis permutation has length {} that does not match dataset's rank {}", axes.length, rank);<a name="line.1054"></a>
<span class="sourceLineNo">1055</span> throw new IllegalArgumentException("axis permutation does not match shape of dataset");<a name="line.1055"></a>
<span class="sourceLineNo">1056</span> }<a name="line.1056"></a>
<span class="sourceLineNo">1057</span> <a name="line.1057"></a>
<span class="sourceLineNo">1058</span> // check all permutation values are within bounds<a name="line.1058"></a>
<span class="sourceLineNo">1059</span> for (int d : axes) {<a name="line.1059"></a>
<span class="sourceLineNo">1060</span> if (d &lt; 0 || d &gt;= rank) {<a name="line.1060"></a>
<span class="sourceLineNo">1061</span> logger.error("axis permutation contains element {} outside rank of dataset", d);<a name="line.1061"></a>
<span class="sourceLineNo">1062</span> throw new IllegalArgumentException("axis permutation contains element outside rank of dataset");<a name="line.1062"></a>
<span class="sourceLineNo">1063</span> }<a name="line.1063"></a>
<span class="sourceLineNo">1064</span> }<a name="line.1064"></a>
<span class="sourceLineNo">1065</span> <a name="line.1065"></a>
<span class="sourceLineNo">1066</span> // check for a valid permutation (is this an unnecessary restriction?)<a name="line.1066"></a>
<span class="sourceLineNo">1067</span> int[] perm = axes.clone();<a name="line.1067"></a>
<span class="sourceLineNo">1068</span> Arrays.sort(perm);<a name="line.1068"></a>
<span class="sourceLineNo">1069</span><a name="line.1069"></a>
<span class="sourceLineNo">1070</span> for (int i = 0; i &lt; rank; i++) {<a name="line.1070"></a>
<span class="sourceLineNo">1071</span> if (perm[i] != i) {<a name="line.1071"></a>
<span class="sourceLineNo">1072</span> logger.error("axis permutation is not valid: it does not contain complete set of axes");<a name="line.1072"></a>
<span class="sourceLineNo">1073</span> throw new IllegalArgumentException("axis permutation does not contain complete set of axes"); <a name="line.1073"></a>
<span class="sourceLineNo">1074</span> }<a name="line.1074"></a>
<span class="sourceLineNo">1075</span> }<a name="line.1075"></a>
<span class="sourceLineNo">1076</span><a name="line.1076"></a>
<span class="sourceLineNo">1077</span> if (Arrays.equals(axes, perm))<a name="line.1077"></a>
<span class="sourceLineNo">1078</span> return null; // signal identity or trivial permutation<a name="line.1078"></a>
<span class="sourceLineNo">1079</span><a name="line.1079"></a>
<span class="sourceLineNo">1080</span> return axes;<a name="line.1080"></a>
<span class="sourceLineNo">1081</span> }<a name="line.1081"></a>
<span class="sourceLineNo">1082</span>}<a name="line.1082"></a>
</pre>
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