LMS-1445 first check in

SVN: 15674

openbis_knime/.classpath

+<?xml version="1.0" encoding="UTF-8"?>
+<classpath>
+	<classpathentry kind="src" path="source/java"/>
+	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/J2SE-1.5"/>
+	<classpathentry kind="lib" path="/libraries/knime/knime-base.jar"/>
+	<classpathentry kind="lib" path="/libraries/knime/knime-core.jar"/>
+	<classpathentry kind="lib" path="/libraries/openbis-apis/query/openbis-query-api.jar"/>
+	<classpathentry kind="lib" path="/libraries/log4j/log4j.jar" sourcepath="/libraries/log4j/src.zip"/>
+	<classpathentry kind="output" path="targets/classes"/>
+</classpath>

openbis_knime/.project

+<?xml version="1.0" encoding="UTF-8"?>
+<projectDescription>
+	<name>openbis_knime</name>
+	<comment></comment>
+	<projects>
+	</projects>
+	<buildSpec>
+		<buildCommand>
+			<name>org.eclipse.jdt.core.javabuilder</name>
+			<arguments>
+			</arguments>
+		</buildCommand>
+	</buildSpec>
+	<natures>
+		<nature>org.eclipse.jdt.core.javanature</nature>
+	</natures>
+</projectDescription>

openbis_knime/build/build.xml

+<project name="openbis_knime" basedir="..">
+  <import file="../../build_resources/ant/build-common.xml" />
+  <project-classpath name="ecp" classes="${classes}" />
+  <property name="mainfolder" value="openbis_knime"/>
+	<property name="version" value="0.1.0"/>
+  <property name="jar.file.name" value="openbis-knime.jar"/>
+  <property name="jar.file" value="${dist}/${jar.file.name}"/>
+  <property name="original.dist" value="../${ant.project.name}/dist" />
+
+
+  <!-- 
+  // Cleans distribution directory.
+  -->
+  <target name="clean" description="Cleans distribution directory.">
+    <delete dir="${dist}" failonerror="true" />
+    <mkdir dir="${dist}" />
+  </target>
+
+  <!-- 
+  // Runs tests.
+  -->
+  <target name="run-tests">
+    <antcall target="build-common.run-tests">
+       <param name="test.suite" value="tests.xml" />
+    </antcall>
+  </target>
+	        
+  <!--
+  // Creates build information.
+  -->
+ <target name="build-info" description="Creates build information.">
+    <!--build-info revision="revision.number" version="version.number" clean="clean.flag" />
+    <echo file="${build.info.file}">${version.number}:${revision.number}:${clean.flag}</echo-->
+    <echo file="${build.info.file}">abc:123:d</echo>
+ </target>
+
+ <!--
+ // Creates JAR file.
+ -->
+ <target name="jar" depends="compile, build-info" description="Creates project jar file.">
+   <delete file="${jar.file}" />
+   <recursive-jar destfile="${jar.file}">
+     <fileset dir="${classes}">
+       <include name="**/*.class" />
+       <include name="${build.info.filename}" />
+     </fileset>
+     <fileset dir="${sources}">
+       <include name="**/*.xml" />
+       <include name="**/*.png" />
+     </fileset>
+   </recursive-jar>
+ </target>
+	
+    <!-- 
+    // Makes a distribution file.
+    -->
+    <target name="dist" description="Makes a distribution file." depends="clean, jar">
+
+      <!--property name="dist.file.name" value="ch.systemsx.cisd.openbis.knime-${version}.v${version.number}-r${revision.number}.zip" /-->
+      <property name="dist.file.name" value="${dist}/ch.systemsx.cisd.openbis.knime-${version}.jar" />
+
+    	<jar destfile="${dist.file.name}" manifest="${original.dist}/META-INF/MANIFEST.MF">
+    		<fileset dir="${dist}">
+    			<include name="${jar.file.name}"/>
+    		</fileset>
+    		<fileset dir="${original.dist}">
+    			<include name="**/*"/>
+    		</fileset>
+    		<zipfileset prefix="lib" file="${lib}/openbis-apis/query/openbis-query-api.jar"/>
+    		<zipfileset prefix="lib" file="${lib}/cisd-base/cisd-base.jar"/>
+        <zipfileset prefix="lib" file="${lib}/commons-codec/commons-codec.jar"/>
+        <zipfileset prefix="lib" file="${lib}/commons-httpclient/commons-httpclient.jar"/>
+        <zipfileset prefix="lib" file="${lib}/commons-logging/commons-logging.jar"/>
+        <zipfileset prefix="lib" file="${lib}/log4j/log4j.jar"/>
+        <zipfileset prefix="lib" file="${lib}/spring/spring.jar"/>
+        <zipfileset prefix="lib" file="${lib}/spring/third-party/stream-supporting-httpinvoker.jar"/>
+    	</jar>
+      <delete file="${jar.file}"/>
+   </target>
+
+   <!--
+   // Task for continuous integration server.
+   -->
+   <target name="ci" depends="build-common.ci, check-dependencies, dist"
+           description="Task for continuous integration server." />
+	        
+   <!--
+   // Compiles the javascript using GWT compiler.
+   -->
+   <target name="compile-javascript" description="Compiles the javascript using GWT compiler.">
+      <property name="application.gwt.path" value="ch.systemsx.cisd.datamover.console.DatamoverConsole" />
+      <echo></echo>
+      <delete dir="${webapp.dist}" />
+      <java classpath="${ecp}:${gwt.dev.lib}:${gwt.user.lib}:${sources}"
+            classname="com.google.gwt.dev.GWTCompiler"
+            fork="true">
+        <jvmarg value="-Xmx512M" />
+        <arg value="-out" />
+        <arg value="${webapp.dist}" />
+        <arg value="${application.gwt.path}" />
+      </java>
+      <move todir="${webapp.dist}">
+         <fileset dir="${webapp.dist}/${application.gwt.path}" />
+      </move>
+   </target>
+
+
+</project>
\ No newline at end of file

openbis_knime/dist/META-INF/MANIFEST.MF

+Manifest-Version: 1.0
+Bundle-ManifestVersion: 2
+Bundle-Name: openBIS nodes
+Bundle-SymbolicName: ch.systemsx.cisd.openbis.knime; singleton:=true
+Bundle-Version: 0.1.0
+Bundle-ClassPath: openbis-knime.jar,lib/cisd-base.jar,lib/commons-codec.jar,
+ lib/commons-httpclient.jar,lib/commons-logging.jar,lib/log4j.jar,lib/openbis-query-api.jar,
+ lib/spring.jar,lib/stream-supporting-httpinvoker.jar
+Bundle-Vendor: CISD
+Bundle-Localization: plugin
+Require-Bundle: org.eclipse.core.runtime,org.knime.workbench.core,
+ org.knime.workbench.repository,org.knime.base
+Eclipse-RegisterBuddy: org.knime.base
+Export-Package: ch.systemsx.cisd.openbis.knime
+Bundle-ActivationPolicy: lazy

openbis_knime/dist/plugin.properties

+% plugin properties for "openBIS"
\ No newline at end of file

openbis_knime/dist/plugin.xml

+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<?eclipse version="3.0"?>
+
+<plugin>
+   <extension point="org.knime.workbench.repository.nodes">
+      <node category-path="/openbis" factory-class="ch.systemsx.cisd.openbis.knime.TestNodeFactory" 
+            id="ch.systemsx.cisd.openbis.knime.node"/>
+   </extension>
+   
+   <extension point="org.knime.workbench.repository.categories">
+      <category icon="icons/openbis.png" level-id="openbis" name="openBIS" path="/"/>
+   </extension>
+   
+</plugin>
\ No newline at end of file

openbis_knime/source/java/ch/systemsx/cisd/openbis/knime/TestNodeDialog.java

+/*
+ * Copyright 2010 ETH Zuerich, CISD
+ *
+ * Licensed 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 ch.systemsx.cisd.openbis.knime;
+
+import java.awt.BorderLayout;
+import java.awt.GridLayout;
+import java.awt.event.ActionEvent;
+import java.awt.event.ActionListener;
+import java.util.List;
+
+import javax.swing.JButton;
+import javax.swing.JComboBox;
+import javax.swing.JLabel;
+import javax.swing.JPanel;
+import javax.swing.JPasswordField;
+import javax.swing.JTextField;
+
+import org.apache.log4j.Logger;
+import org.knime.core.node.InvalidSettingsException;
+import org.knime.core.node.NodeDialogPane;
+import org.knime.core.node.NodeSettingsRO;
+import org.knime.core.node.NodeSettingsWO;
+import org.knime.core.node.NotConfigurableException;
+import org.knime.core.node.port.PortObjectSpec;
+
+import ch.systemsx.cisd.openbis.plugin.query.client.api.v1.QueryApiFacade;
+import ch.systemsx.cisd.openbis.plugin.query.shared.api.v1.dto.QueryDescription;
+
+/**
+ * 
+ *
+ * @author Franz-Josef Elmer
+ */
+public class TestNodeDialog extends NodeDialogPane
+{
+    private JTextField urlField;
+    private JTextField userField;
+    private JPasswordField passwordField;
+    private JComboBox queryComboBox;
+
+    TestNodeDialog()
+    {
+        super();
+        addTab("openBIS Settings", createGUI());
+    }
+
+    private JPanel createGUI()
+    {
+        JPanel panel = new JPanel(new BorderLayout());
+        JPanel form = new JPanel(new GridLayout(0, 2));
+        form.add(new JLabel("openBIS URL:"));
+        urlField = new JTextField();
+        form.add(urlField);
+        form.add(new JLabel("User:"));
+        userField = new JTextField();
+        form.add(userField);
+        form.add(new JLabel("Password:"));
+        passwordField = new JPasswordField();
+        form.add(passwordField);
+        form.add(new JLabel("Queries:"));
+        queryComboBox = new JComboBox();
+        form.add(queryComboBox);
+        panel.add(form, BorderLayout.NORTH);
+        JButton button = new JButton("connect");
+        button.addActionListener(new ActionListener()
+            {
+                
+                public void actionPerformed(ActionEvent e)
+                {
+                    QueryApiFacade facade = QueryApiFacade.create(urlField.getText(), userField.getText(), passwordField.getText());
+                    List<QueryDescription> queries = facade.listQueries();
+                    for (QueryDescription queryDescription : queries)
+                    {
+                        queryComboBox.addItem(queryDescription.getName());
+                    }
+                    // TODO Auto-generated method stub
+                    
+                }
+            });
+        panel.add(button, BorderLayout.SOUTH);
+        return panel;
+    }
+
+    @Override
+    protected void loadSettingsFrom(NodeSettingsRO settings, PortObjectSpec[] specs)
+            throws NotConfigurableException
+    {
+    }
+
+    @Override
+    protected void saveSettingsTo(NodeSettingsWO settings) throws InvalidSettingsException
+    {
+        // TODO Auto-generated method stub
+
+    }
+
+}

openbis_knime/source/java/ch/systemsx/cisd/openbis/knime/TestNodeFactory.java

+/*
+ * Copyright 2010 ETH Zuerich, CISD
+ *
+ * Licensed 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 ch.systemsx.cisd.openbis.knime;
+
+import org.knime.core.node.NodeDialogPane;
+import org.knime.core.node.NodeFactory;
+import org.knime.core.node.NodeView;
+
+/**
+ * 
+ *
+ * @author Franz-Josef Elmer
+ */
+public class TestNodeFactory extends NodeFactory<TestNodeModel>
+{
+
+    @Override
+    protected NodeDialogPane createNodeDialogPane()
+    {
+        return new TestNodeDialog();
+    }
+
+    @Override
+    public TestNodeModel createNodeModel()
+    {
+        return new TestNodeModel();
+    }
+
+    @Override
+    public NodeView<TestNodeModel> createNodeView(int arg0, TestNodeModel arg1)
+    {
+        return null;
+    }
+
+    @Override
+    protected int getNrNodeViews()
+    {
+        return 0;
+    }
+
+    @Override
+    protected boolean hasDialog()
+    {
+        return true;
+    }
+
+}

openbis_knime/source/java/ch/systemsx/cisd/openbis/knime/TestNodeFactory.xml

+<?xml version="1.0" encoding="utf-8"?>
+<!DOCTYPE knimeNode PUBLIC "-//UNIKN//DTD KNIME Node 2.0//EN" "http://www.knime.org/Node.dtd">
+<knimeNode icon="./openbis.png" type="Source">
+    <name>openBIS Test</name>
+    
+    <shortDescription>
+        openBIS test node
+    </shortDescription>
+    
+    <fullDescription>
+        <intro>Just testing a very simple node.        
+        </intro>
+        
+        
+        <option name="short name of first option (like in the dialog)">has no first option</option>
+        <option name="short name of second option (like in the dialog)">has no second option</option>
+    </fullDescription>
+    
+    <ports>
+        <inPort index="0" name="First In Port">Actual there are no in ports I guess</inPort>
+        <outPort index="0" name="First out Port">A simple table</outPort>
+    </ports>    
+    <views>
+        <view index="0" name="name of first view">Description of first view...</view>
+    </views>
+</knimeNode>

openbis_knime/source/java/ch/systemsx/cisd/openbis/knime/TestNodeModel.java

+/*
+ * Copyright 2010 ETH Zuerich, CISD
+ *
+ * Licensed 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 ch.systemsx.cisd.openbis.knime;
+
+import java.io.File;
+import java.io.IOException;
+
+import org.knime.core.data.DataTableSpec;
+import org.knime.core.data.DataType;
+import org.knime.core.data.def.DefaultRow;
+import org.knime.core.data.def.StringCell;
+import org.knime.core.node.BufferedDataContainer;
+import org.knime.core.node.BufferedDataTable;
+import org.knime.core.node.CanceledExecutionException;
+import org.knime.core.node.ExecutionContext;
+import org.knime.core.node.ExecutionMonitor;
+import org.knime.core.node.InvalidSettingsException;
+import org.knime.core.node.NodeModel;
+import org.knime.core.node.NodeSettingsRO;
+import org.knime.core.node.NodeSettingsWO;
+
+/**
+ * 
+ *
+ * @author Franz-Josef Elmer
+ */
+public class TestNodeModel extends NodeModel
+{
+
+    protected TestNodeModel()
+    {
+        super(0, 1);
+    }
+
+    @Override
+    protected void loadInternals(File arg0, ExecutionMonitor arg1) throws IOException,
+            CanceledExecutionException
+    {
+        // TODO Auto-generated method stub
+        
+    }
+
+    @Override
+    protected void loadValidatedSettingsFrom(NodeSettingsRO arg0) throws InvalidSettingsException
+    {
+        // TODO Auto-generated method stub
+        
+    }
+
+    @Override
+    protected void reset()
+    {
+        // TODO Auto-generated method stub
+        
+    }
+
+    @Override
+    protected void saveInternals(File arg0, ExecutionMonitor arg1) throws IOException,
+            CanceledExecutionException
+    {
+        // TODO Auto-generated method stub
+        
+    }
+
+    @Override
+    protected void saveSettingsTo(NodeSettingsWO arg0)
+    {
+        // TODO Auto-generated method stub
+        
+    }
+
+    @Override
+    protected void validateSettings(NodeSettingsRO arg0) throws InvalidSettingsException
+    {
+        // TODO Auto-generated method stub
+        
+    }
+
+    @Override
+    protected BufferedDataTable[] execute(BufferedDataTable[] inData, ExecutionContext exec)
+            throws Exception
+    {
+        BufferedDataContainer container = exec.createDataContainer(new DataTableSpec(new String[] {"col1", "col2"}, 
+                new DataType[] {StringCell.TYPE, StringCell.TYPE}));
+        for (int i = 0; i < 5; i++)
+        {
+            container.addRowToTable(new DefaultRow("row-"+i, "a-"+i, "b-"+i));
+        }
+        container.close();
+        return new BufferedDataTable[] {container.getTable()};
+    }
+    
+    @Override
+    protected DataTableSpec[] configure(final DataTableSpec[] inSpecs)
+            throws InvalidSettingsException
+    {
+        return new DataTableSpec[0];
+    }
+}