svn commit: r1425060 - /incubator/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java

[ma...@apache.org]

Author: mattcoarr
Date: Fri Dec 21 17:58:02 2012
New Revision: 1425060

URL: http://svn.apache.org/viewvc?rev=1425060&view=rev
Log:
adding collection reader for xmi files

Added:
    incubator/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java

Added: incubator/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java?rev=1425060&view=auto
==============================================================================
--- incubator/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java (added)
+++ incubator/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java Fri Dec 21 17:58:02 2012
@@ -0,0 +1,121 @@
+/*
+ * Licensed to the Apache Software Foundation (ASF) under one
+ * or more contributor license agreements.  See the NOTICE file
+ * distributed with this work for additional information
+ * regarding copyright ownership.  The ASF licenses this file
+ * to you under the Apache License, Version 2.0 (the
+ * "License"); you may not use this file except in compliance
+ * with the License.  You may obtain a copy of the License at
+ * 
+ *   http://www.apache.org/licenses/LICENSE-2.0
+ * 
+ * Unless required by applicable law or agreed to in writing,
+ * software distributed under the License is distributed on an
+ * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
+ * KIND, either express or implied.  See the License for the
+ * specific language governing permissions and limitations
+ * under the License.
+ */
+
+package org.apache.ctakes.core.cr;
+
+import java.io.File;
+import java.io.FileInputStream;
+import java.io.IOException;
+import java.util.ArrayList;
+
+import org.apache.uima.cas.CAS;
+import org.apache.uima.cas.impl.XmiCasDeserializer;
+import org.apache.uima.collection.CollectionException;
+import org.apache.uima.collection.CollectionReader_ImplBase;
+import org.apache.uima.resource.ResourceConfigurationException;
+import org.apache.uima.resource.ResourceInitializationException;
+import org.apache.uima.util.Progress;
+import org.apache.uima.util.ProgressImpl;
+import org.xml.sax.SAXException;
+
+/**
+ * A simple collection reader that reads CASes in XMI format from a directory in the filesystem.
+ */
+public class XmiCollectionReaderCtakes extends CollectionReader_ImplBase {
+  /**
+   * Name of configuration parameter that must be set to the path of a directory containing the XMI
+   * files.
+   */
+  public static final String PARAM_INPUTDIR = "InputDirectory";
+  
+  /**
+   * Name of the configuration parameter that must be set to indicate if the
+   * execution fails if an encountered type is unknown
+   */
+  public static final String PARAM_FAILUNKNOWN = "FailOnUnknownType";
+
+  private Boolean mFailOnUnknownType;
+  
+  private ArrayList mFiles;
+
+  private int mCurrentIndex;
+
+  /**
+   * @see org.apache.uima.collection.CollectionReader_ImplBase#initialize()
+   */
+  public void initialize() throws ResourceInitializationException {
+	mFailOnUnknownType = (Boolean) getConfigParameterValue(PARAM_FAILUNKNOWN);
+	if (null == mFailOnUnknownType) {
+	  mFailOnUnknownType = true;  // default to true if not specified
+	}
+    File directory = new File(((String) getConfigParameterValue(PARAM_INPUTDIR)).trim());
+    mCurrentIndex = 0;
+
+    // if input directory does not exist or is not a directory, throw exception
+    if (!directory.exists() || !directory.isDirectory()) {
+      throw new ResourceInitializationException(ResourceConfigurationException.DIRECTORY_NOT_FOUND,
+              new Object[] { PARAM_INPUTDIR, this.getMetaData().getName(), directory.getPath() });
+    }
+
+    // get list of .xmi files in the specified directory
+    mFiles = new ArrayList();
+    File[] files = directory.listFiles();
+    for (int i = 0; i < files.length; i++) {
+      if (!files[i].isDirectory() && files[i].getName().endsWith(".xmi")) {
+        mFiles.add(files[i]);
+      }
+    }
+  }
+
+  /**
+   * @see org.apache.uima.collection.CollectionReader#hasNext()
+   */
+  public boolean hasNext() {
+    return mCurrentIndex < mFiles.size();
+  }
+
+  /**
+   * @see org.apache.uima.collection.CollectionReader#getNext(org.apache.uima.cas.CAS)
+   */
+  public void getNext(CAS aCAS) throws IOException, CollectionException {
+    File currentFile = (File) mFiles.get(mCurrentIndex++);
+    FileInputStream inputStream = new FileInputStream(currentFile);
+    try {
+    	XmiCasDeserializer.deserialize(inputStream, aCAS, ! mFailOnUnknownType);
+    } catch (SAXException e) {
+      throw new CollectionException(e);
+    } finally {
+      inputStream.close();
+    }
+  }
+
+  /**
+   * @see org.apache.uima.collection.base_cpm.BaseCollectionReader#close()
+   */
+  public void close() throws IOException {
+  }
+
+  /**
+   * @see org.apache.uima.collection.base_cpm.BaseCollectionReader#getProgress()
+   */
+  public Progress[] getProgress() {
+    return new Progress[] { new ProgressImpl(mCurrentIndex, mFiles.size(), Progress.ENTITIES) };
+  }
+
+}