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/* Copyright (c) 2009 Peter Troshin
*
* JAva Bioinformatics Analysis Web Services (JABAWS) @version: 1.0
*
* This library is free software; you can redistribute it and/or modify it under the terms of the
* Apache License version 2 as published by the Apache Software Foundation
*
* 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. See the Apache
* License for more details.
*
* A copy of the license is in apache_license.txt. It is also available here:
* @see: http://www.apache.org/licenses/LICENSE-2.0.txt
*
* Any republication or derived work distributed in source code form
* must include this copyright and license notice.
*/
package compbio.engine.client;
import java.io.File;
import java.io.FileNotFoundException;
import java.io.FileOutputStream;
import java.io.IOException;
import java.io.InputStream;
import javax.xml.bind.JAXBException;
import javax.xml.bind.annotation.XmlAccessType;
import javax.xml.bind.annotation.XmlAccessorType;
import javax.xml.bind.annotation.XmlElement;
import javax.xml.bind.annotation.XmlRootElement;
import javax.xml.bind.annotation.XmlTransient;
import org.apache.log4j.Logger;
import compbio.engine.conf.RunnerConfigMarshaller;
import compbio.util.Util;
/**
* Value class for persisting ConfExecutable instances
*
* @author pvtroshin
*
*/
@XmlRootElement
@XmlAccessorType(XmlAccessType.FIELD)
public class RunConfiguration {
@XmlTransient
private static Logger log = Logger.getLogger(RunConfiguration.class);
@XmlTransient
public static final String rconfigFile = "RunnerConfig.xml";
/**
* Task ID (is a part of workDirectory but extracting it from there could be
* tricky)
*/
@XmlElement(required = true)
String taskId;
/**
* Working directory
*/
@XmlElement(required = true)
String workDirectory;
/**
* Parameters
*/
@XmlElement(required = true)
private CommandBuilder<?> parameters;
/**
* Input option
*/
@XmlElement(nillable = true)
private String error;
/**
* Output
*/
@XmlElement(nillable = true)
private String output;
/**
* Input
*/
@XmlElement(nillable = true)
private String input;
/**
* Runner class name
*/
@XmlElement(required = true)
String runnerClassName;
public RunConfiguration() {
// JAXB default constructor
}
public RunConfiguration(ConfExecutable<?> cexec) {
this.setParameters(cexec.getParameters());
this.workDirectory = cexec.getWorkDirectory();
this.taskId = cexec.getTaskId();
this.runnerClassName = cexec.getExecutable().getClass()
.getCanonicalName();
this.setOutput(cexec.getOutput());
this.setInput(cexec.getInput());
this.setError(cexec.getError());
}
public static boolean write(RunConfiguration rconf) throws IOException {
File rconfFile = new File(rconf.workDirectory, rconfigFile);
try {
RunnerConfigMarshaller<ConfiguredExecutable<?>> confMarch = new RunnerConfigMarshaller<ConfiguredExecutable<?>>(
RunConfiguration.class);
confMarch.write(rconf, new FileOutputStream(rconfFile));
} catch (JAXBException e) {
e.printStackTrace();
log.error("Failed to save RunConfiguration " + rconf + " Error: "
+ e.getMessage(), e.getCause());
} catch (FileNotFoundException e) {
log.error("Failed to save RunConfiguration " + rconf + " Error: "
+ e.getMessage(), e.getCause());
}
return rconfFile.exists() && rconfFile.length() > 0;
}
public static RunConfiguration load(InputStream input) throws IOException {
RunConfiguration rconf = null;
try {
RunnerConfigMarshaller<RunConfiguration> confMarch = new RunnerConfigMarshaller<RunConfiguration>(
RunConfiguration.class);
rconf = confMarch.read(input, RunConfiguration.class);
} catch (JAXBException e) {
log.error("Failed to load RunConfiguration " + rconf + " Error: "
+ e.getMessage(), e.getCause());
}
return rconf;
}
public void setOutput(String output) {
this.output = output;
}
public CommandBuilder<?> getParameters() {
return parameters;
}
public void setParameters(CommandBuilder<?> parameters) {
this.parameters = parameters;
}
public String getOutput() {
return output;
}
public void setError(String error) {
this.error = error;
}
public String getError() {
return error;
}
public String getInput() {
return input;
}
public void setInput(String input) {
this.input = input;
}
public String getRunnerClassName() {
return this.runnerClassName;
}
@Override
public boolean equals(Object obj) {
if (obj == null) {
return false;
}
if (!(obj instanceof RunConfiguration)) {
return false;
}
RunConfiguration rconf = (RunConfiguration) obj;
if (!strEquals(this.error, rconf.error)) {
return false;
}
if (!strEquals(this.input, rconf.input)) {
return false;
}
if (!strEquals(this.output, rconf.output)) {
return false;
}
if (!strEquals(this.runnerClassName, rconf.runnerClassName)) {
return false;
}
if (!strEquals(this.taskId, rconf.taskId)) {
return false;
}
if (!strEquals(this.workDirectory, rconf.workDirectory)) {
return false;
}
if (!parameters.equals(rconf.parameters)) {
return false;
}
return true;
}
private boolean strEquals(String value, String other) {
if (!Util.isEmpty(value) && !Util.isEmpty(other)) {
if (!value.equals(other)) {
return false;
}
}
return true;
}
@Override
public int hashCode() {
int code = this.taskId.hashCode() * this.runnerClassName.hashCode();
code *= this.parameters.hashCode();
return code;
}
@Override
public String toString() {
String value = "Class : " + this.runnerClassName + "\n";
value += "TaskId: " + this.taskId + "\n";
value += "Input: " + this.input + "\n";
value += "Output: " + this.output + "\n";
value += "Error: " + this.error + "\n";
value += "Workdir: " + this.workDirectory + "\n";
value += "Param: " + this.parameters + "\n";
return value;
}
}
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