Author: mmichaud
Date: 2009-03-13 10:57:41 -0700 (Fri, 13 Mar 2009)
New Revision: 16259
Added:
core3/core-task-impl/trunk/src/main/java/org/cytoscape/task/loadnetwork/internal/LoadInputStreamTask.java
core3/core-task-impl/trunk/src/main/java/org/cytoscape/task/loadnetwork/internal/LoadInputStreamTaskFactoryImpl.java
Log:
Added:
core3/core-task-impl/trunk/src/main/java/org/cytoscape/task/loadnetwork/internal/LoadInputStreamTask.java
===================================================================
---
core3/core-task-impl/trunk/src/main/java/org/cytoscape/task/loadnetwork/internal/LoadInputStreamTask.java
2009-03-13 17:57:06 UTC (rev 16258)
+++
core3/core-task-impl/trunk/src/main/java/org/cytoscape/task/loadnetwork/internal/LoadInputStreamTask.java
2009-03-13 17:57:41 UTC (rev 16259)
@@ -0,0 +1,83 @@
+/*
+ Copyright (c) 2006, The Cytoscape Consortium (www.cytoscape.org)
+
+ The Cytoscape Consortium is:
+ - Institute for Systems Biology
+ - University of California San Diego
+ - Memorial Sloan-Kettering Cancer Center
+ - Institut Pasteur
+ - Agilent Technologies
+
+ This library is free software; you can redistribute it and/or modify it
+ under the terms of the GNU Lesser General Public License as published
+ by the Free Software Foundation; either version 2.1 of the License, or
+ any later version.
+
+ This library is distributed in the hope that it will be useful, but
+ WITHOUT ANY WARRANTY, WITHOUT EVEN THE IMPLIED WARRANTY OF
+ MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. The software and
+ documentation provided hereunder is on an "as is" basis, and the
+ Institute for Systems Biology and the Whitehead Institute
+ have no obligations to provide maintenance, support,
+ updates, enhancements or modifications. In no event shall the
+ Institute for Systems Biology and the Whitehead Institute
+ be liable to any party for direct, indirect, special,
+ incidental or consequential damages, including lost profits, arising
+ out of the use of this software and its documentation, even if the
+ Institute for Systems Biology and the Whitehead Institute
+ have been advised of the possibility of such damage. See
+ the GNU Lesser General Public License for more details.
+
+ You should have received a copy of the GNU Lesser General Public License
+ along with this library; if not, write to the Free Software Foundation,
+ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
+ */
+
+package org.cytoscape.task.loadnetwork.internal;
+
+import static org.cytoscape.io.DataCategory.NETWORK;
+
+import java.io.File;
+import java.io.InputStream;
+import java.util.Properties;
+
+import org.cytoscape.io.read.CyReaderManager;
+import org.cytoscape.layout.CyLayouts;
+import org.cytoscape.view.GraphViewFactory;
+import org.cytoscape.work.TaskMonitor;
+import org.cytoscape.work.Tunable;
+
+import cytoscape.CyNetworkManager;
+import cytoscape.util.CyNetworkNaming;
+
+
+
+public class LoadInputStreamTask extends AbstractLoadNetworkTask {
+
+ @Tunable(description = "InputStream to load")
+ public InputStream is;
+
+ public LoadInputStreamTask(CyReaderManager mgr, GraphViewFactory gvf,
+ CyLayouts cyl, CyNetworkManager netmgr, Properties
props, CyNetworkNaming namingUtil) {
+ super(mgr, gvf, cyl, netmgr, props, namingUtil);
+ }
+
+ /**
+ * Executes Task.
+ */
+ public void run(TaskMonitor taskMonitor) throws Exception {
+ this.taskMonitor = taskMonitor;
+ // for ( File file : files ) {
+
+ reader = mgr.getReader(is, NETWORK);
+
+ //uri = is.toURI();
+ name = is.toString();
+
+ if (reader == null) {
+ uri = null;
+ }
+ loadNetwork(reader);
+ // }
+ }
+}
Added:
core3/core-task-impl/trunk/src/main/java/org/cytoscape/task/loadnetwork/internal/LoadInputStreamTaskFactoryImpl.java
===================================================================
---
core3/core-task-impl/trunk/src/main/java/org/cytoscape/task/loadnetwork/internal/LoadInputStreamTaskFactoryImpl.java
2009-03-13 17:57:06 UTC (rev 16258)
+++
core3/core-task-impl/trunk/src/main/java/org/cytoscape/task/loadnetwork/internal/LoadInputStreamTaskFactoryImpl.java
2009-03-13 17:57:41 UTC (rev 16259)
@@ -0,0 +1,83 @@
+/*
+ File: LoadNetworkTaskFactory.java
+
+ Copyright (c) 2006, The Cytoscape Consortium (www.cytoscape.org)
+
+ The Cytoscape Consortium is:
+ - Institute for Systems Biology
+ - University of California San Diego
+ - Memorial Sloan-Kettering Cancer Center
+ - Institut Pasteur
+ - Agilent Technologies
+
+ This library is free software; you can redistribute it and/or modify it
+ under the terms of the GNU Lesser General Public License as published
+ by the Free Software Foundation; either version 2.1 of the License, or
+ any later version.
+
+ This library is distributed in the hope that it will be useful, but
+ WITHOUT ANY WARRANTY, WITHOUT EVEN THE IMPLIED WARRANTY OF
+ MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. The software and
+ documentation provided hereunder is on an "as is" basis, and the
+ Institute for Systems Biology and the Whitehead Institute
+ have no obligations to provide maintenance, support,
+ updates, enhancements or modifications. In no event shall the
+ Institute for Systems Biology and the Whitehead Institute
+ be liable to any party for direct, indirect, special,
+ incidental or consequential damages, including lost profits, arising
+ out of the use of this software and its documentation, even if the
+ Institute for Systems Biology and the Whitehead Institute
+ have been advised of the possibility of such damage. See
+ the GNU Lesser General Public License for more details.
+
+ You should have received a copy of the GNU Lesser General Public License
+ along with this library; if not, write to the Free Software Foundation,
+ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
+ */
+
+package org.cytoscape.task.loadnetwork.internal;
+
+import java.util.Properties;
+
+import org.cytoscape.io.read.CyReaderManager;
+import org.cytoscape.layout.CyLayouts;
+import org.cytoscape.property.CyProperty;
+import org.cytoscape.view.GraphViewFactory;
+import org.cytoscape.work.Task;
+import org.cytoscape.work.TaskFactory;
+
+import cytoscape.CyNetworkManager;
+import cytoscape.util.CyNetworkNaming;
+
+/**
+ * Task to load a new network.
+ */
+public class LoadInputStreamTaskFactoryImpl implements TaskFactory {
+
+ private CyReaderManager mgr;
+ private GraphViewFactory gvf;
+ private CyLayouts cyl;
+ private CyNetworkManager netmgr;
+ private Properties props;
+
+ private CyNetworkNaming cyNetworkNaming;
+
+ public LoadInputStreamTaskFactoryImpl(CyReaderManager mgr,
+ GraphViewFactory gvf, CyLayouts cyl, CyNetworkManager
netmgr,
+ CyProperty<Properties> cyProp, CyNetworkNaming
cyNetworkNaming) {
+ this.mgr = mgr;
+ this.gvf = gvf;
+ this.cyl = cyl;
+ this.netmgr = netmgr;
+ this.props = cyProp.getProperties();
+ this.cyNetworkNaming = cyNetworkNaming;
+ }
+
+ public void setNamingUtil(CyNetworkNaming namingUtil) {
+ this.cyNetworkNaming = namingUtil;
+ }
+
+ public Task getTask() {
+ return new LoadInputStreamTask(mgr, gvf, cyl, netmgr, props,
cyNetworkNaming);
+ }
+}
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