Team:Freiburg software/Code/RecChildBlipListBuilder.java

From 2009.igem.org

(Difference between revisions)
(New page: <div style="display: none;"><html><style> #tabs a.code_active { background-position:0% -42px; } #tabs a.code_active span { background-position:100% -42px; color:#213340; } #toc { display:n...)
 
Line 15: Line 15:
-
==org.synbiowave.biojava.DisplaySequence==
+
==RecChildBlipListBuilder==
  <nowiki>
  <nowiki>
Line 23: Line 23:
*    License: GPL
*    License: GPL
*     
*     
-
*    Authors: Jörg Wassolesk & Paul Staab
+
*    Authors: Paul Staab
*     
*     
*    Version: 0.1  
*    Version: 0.1  
*     
*     
*    DESCRIPTION:
*    DESCRIPTION:
-
*    This is the main class of the main SynBioWave-Robot.  
+
*    Small class to create a list of all the blips of a wave.  
*/
*/
-
 
package org.synbiowave;
package org.synbiowave;
-
import java.io.BufferedReader;
 
-
import java.io.InputStreamReader;
 
-
import java.net.URL;
 
-
import java.net.URLConnection;
 
import java.util.ArrayList;
import java.util.ArrayList;
-
import java.util.Date;
 
-
import java.util.Iterator;
 
-
import java.util.LinkedHashMap;
 
-
import java.util.List;
 
-
import java.util.Map;
 
-
import java.util.TreeSet;
 
-
 
-
import org.biojavax.bio.db.HashRichSequenceDB;
 
-
import org.biojavax.bio.db.RichSequenceDB;
 
-
import org.synbiowave.biobrick.BioBrickManager;
 
-
import org.synbiowave.biojava.Util;
 
-
import org.synbiowave.database.DatastoreManager;
 
-
import org.synbiowave.database.Sequence;
 
-
import org.synbiowave.menu.MenuItem;
 
-
import org.synbiowave.sequence.SequenceView;
 
-
import org.synbiowave.servlet.AbstractSbwRobotServlet;
 
-
 
-
import com.google.wave.api.Annotation;
 
-
import com.google.wave.api.Blip;
 
-
import com.google.wave.api.Element;
 
-
import com.google.wave.api.ElementType;
 
-
import com.google.wave.api.Event;
 
-
import com.google.wave.api.EventType;
 
-
import com.google.wave.api.Gadget;
 
-
import com.google.wave.api.GadgetView;
 
-
import com.google.wave.api.Image;
 
-
import com.google.wave.api.Range;
 
-
import com.google.wave.api.RobotMessageBundle;
 
-
import com.google.wave.api.TextView;
 
-
import com.google.wave.api.Wavelet;
 
-
 
-
//@SuppressWarnings("serial")
 
-
public class SynBioWaveRobotServlet extends AbstractSbwRobotServlet 
 
-
{
 
-
private static final long serialVersionUID = 9128671957338019728L;
 
-
private TreeSet<String> biobrickIDs=null;
 
-
private String bValue="";
 
-
 
-
//------------------------------------------------------------------------
 
-
//General Part
 
-
//------------------------------------------------------------------------
 
-
@Override
 
-
public String myName() {
 
-
return "synbiowave@appspot.com";
 
-
}
 
-
 
-
@Override
 
-
public void createMenu(MenuItem menu) {
 
-
 
-
MenuItem fileMenu = new MenuItem("menu","File",this.generateKey());
 
-
menu.appendSubItem(fileMenu);
 
-
 
-
MenuItem fileimportMenu = new MenuItem("menu","Import",this.generateKey());
 
-
fileMenu.appendSubItem(fileimportMenu);
 
-
 
-
MenuItem uploadformbutton = new MenuItem("button", "File", this.generateKey());
 
-
fileimportMenu.appendSubItem(uploadformbutton);
 
-
 
-
MenuItem uploadForm = new MenuItem("form","Upload",this.generateKey());
 
-
uploadformbutton.appendSubItem(uploadForm);
 
-
 
-
MenuItem upload = new MenuItem("upload","upload",this.generateKey());
 
-
upload.setOption("target", "https://" + this.myName().replace("@", ".") + "/_wave/robot/jsonrpc");
 
-
upload.setOption("enctype", "multipart/form-data");
 
-
uploadForm.appendSubItem(upload);
 
-
 
-
MenuItem importBioBrick = new MenuItem("button", "BioBrick part", this.generateKey());
 
-
fileimportMenu.appendSubItem(importBioBrick);
 
-
 
-
MenuItem importDatastore = new MenuItem("button", "Datastore sequence", this.generateKey());
 
-
fileimportMenu.appendSubItem(importDatastore);
 
-
 
-
MenuItem fileexportMenu = new MenuItem("menu","Export",this.generateKey());
 
-
fileMenu.appendSubItem(fileexportMenu);
 
-
 
-
 
-
MenuItem downloadFilebutton = new MenuItem("button","File",this.generateKey());
 
-
fileexportMenu.appendSubItem(downloadFilebutton);
 
-
 
-
MenuItem downloadForm = new MenuItem("form","Download","noreload");
 
-
downloadFilebutton.appendSubItem(downloadForm);
 
-
 
-
MenuItem download = new MenuItem("download","Blub","Download");
 
-
downloadForm.appendSubItem(download);
 
-
download.setOption("target", "https://" + this.myName().replace("@", ".") + "/_wave/robot/jsonrpc");
 
-
 
-
downloadForm.createSubItem("radio", "fasta", this.generateKey()).setOption("group", "format");
 
-
downloadForm.createSubItem("radio", "gb", this.generateKey()).setOption("group", "format");
 
-
 
-
MenuItem sequenceMenu = new MenuItem("menu","Sequence",this.generateKey());
 
-
menu.appendSubItem(sequenceMenu);
 
-
 
-
sequenceMenu.createSubItem("button","Circular View", this.generateKey());
 
-
 
-
 
-
MenuItem helpMenu = new MenuItem("menu","Help",this.generateKey());
 
-
menu.appendSubItem(helpMenu);
 
-
 
-
helpMenu.createSubItem("checkbox", "debug", this.generateKey());
 
 +
public class RecChildBlipListBuilder {
 +
private ArrayList<Blip> recChildList = new ArrayList<Blip>();
 +
 +
RecChildBlipListBuilder(Blip blip)
 +
{
 +
this.recBuilder(blip);
}
}
-
+
private void recBuilder(Blip blip)
-
//------------------------------------------------------------------------
+
-
//Menu-Part
+
-
//------------------------------------------------------------------------
+
-
private final String gadgetURL = "http://synbiowave.svn.sourceforge.net/viewvc/synbiowave/trunk/menuGadget/menuGadget.xml";
+
-
private String uiMenuJson = "{}";
+
-
 
+
-
private void appendMenuGadgetIfNeccessary(Blip blip)
+
{
{
-
GadgetView gv = blip.getDocument().getGadgetView();
+
try {
-
boolean hasmenu = false;
+
this.recChildList.add(blip);
-
for ( Gadget gadget : gv.getGadgets() )
+
//blip.getDocument().append("Children: " + blip.getChildren().size() + "\n");
 +
for (Blip blip2 : blip.getChildren())
{
{
-
if ( gadget.getField("url").contentEquals(this.gadgetURL) )
+
this.recBuilder(blip2);
-
{
+
-
hasmenu = true;
+
-
}
+
}
}
-
if ( ! hasmenu )
 
-
{
 
-
Gadget menuGadged = new Gadget(this.gadgetURL);  
 
-
menuGadged.setField("ui.structure", this.uiMenuJson );
 
-
blip.getDocument().insert(0, "SynBioWave \n");
 
-
blip.getDocument().insertElement(12, menuGadged);
 
}
}
-
}
+
catch (Exception error)
-
+
-
private void generateMenuData(Wavelet wavelet) throws Exception
+
-
{
+
-
MenuItem menu = new MenuItem("ui","ui", this.generateKey());
+
-
Map<String,String> data = wavelet.getDataDocuments();
+
-
for ( String key : data.keySet() )
+
{
{
-
if ( key.contains("ui.menu.") )
+
blip.createChild().getDocument().append("ERROR:" + error.toString());
-
{
+
-
menu.importMenu( new MenuItem( data.get(key) ) );
+
-
}
+
}
}
-
this.uiMenuJson = menu.writeJson();
 
-
wavelet.setDataDocument("ui.completemenu", this.uiMenuJson);
 
}
}
-
private void updateMenusIfNeccessary(Wavelet wavelet) throws Exception
+
public ArrayList<Blip> getRecChildList()
{
{
-
if (wavelet.getDataDocument("menu.update").contains("1"))
+
return this.recChildList;
-
{
+
}
-
this.generateMenuData(wavelet);
+
-
for ( Blip blip : new RecChildBlipListBuilder(wavelet.getRootBlip()).getRecChildList() )
+
-
{
+
-
//blip.getDocument().append("trying to update this blip\n");
+
-
GadgetView gv = blip.getDocument().getGadgetView();
+
-
for ( Gadget gadget : gv.getGadgets() )
+
-
{
+
-
if ( gadget.getField("url").contentEquals(this.gadgetURL) )
+
-
{
+
-
Gadget menuGadget = new Gadget(this.gadgetURL);
+
-
menuGadget.setField("ui.structure", this.uiMenuJson );
+
-
gv.replace(gadget, menuGadget);
+
-
}
+
-
}
+
-
wavelet.setDataDocument("menu.update", "0");
+
-
}
+
-
}
+
-
}
+
-
+
-
+
-
//------------------------------------------------------------------------
+
-
//Basic functions
+
-
//------------------------------------------------------------------------
+
-
private void appendCircView(Event event) throws Exception {
+
-
Sequence sequence=DatastoreManager.getByID(new Sequence(),super.currentSequence);
+
-
URL url=new URL("http://samserver.homedns.org:8080/Rebase/RebaseServlet");
+
-
URLConnection conn=url.openConnection();
+
-
conn.setDoOutput(true);
+
-
org.biojava.bio.seq.Sequence s= Util.convertToRichSequence(sequence);
+
-
RichSequenceDB rsdb=new HashRichSequenceDB();
+
-
rsdb.addSequence(s);
+
-
Util.write(conn.getOutputStream(),rsdb.getRichSequenceIterator(),"genbank");
+
-
BufferedReader br=new BufferedReader(new InputStreamReader(conn.getInputStream()));
+
-
String name=br.readLine();
+
-
event.getWavelet().appendBlip().getDocument().appendElement(new Image("http://samserver.homedns.org/"+name,500,500,name));
+
-
br.close();}
+
-
+
-
private void importBioBrick(Event event) throws Exception
+
-
{
+
-
biobrickIDs=BioBrickManager.readBioBrickIDs();
+
-
Element bbInput=new Element(ElementType.INPUT);
+
-
bbInput.setProperty("name","bbInput");
+
-
bbInput.setProperty("defaultValue","");
+
-
Element bbButton=new Element(ElementType.BUTTON);
+
-
bbButton.setProperty("name","bbButton");
+
-
bbButton.setProperty("value","Import");
+
-
TextView rtv=event.getWavelet().getRootBlip().getDocument();
+
-
rtv.insert(rtv.getText().indexOf("Active Sequence:"),"\nPlease insert parts name:\n");
+
-
rtv.insertElement(rtv.getText().indexOf("Active Sequence:"),bbInput);
+
-
rtv.insertElement(rtv.getText().indexOf("Active Sequence:"),bbButton);
+
-
rtv.insert(rtv.getText().indexOf("Active Sequence:"),"\n");
+
-
int maxElements=4;
+
-
Iterator<String> tailSetIterator=biobrickIDs.iterator();
+
-
while(tailSetIterator.hasNext()&&maxElements>0){rtv.insert(rtv.getText().indexOf("Active Sequence:"),tailSetIterator.next()+"\n");maxElements--;}
+
-
rtv.insert(rtv.getText().indexOf("Active Sequence:"),"...\n");
+
-
}
+
-
+
-
private void importDatastore(Event event) throws Exception
+
-
{
+
-
Element dbInput=new Element(ElementType.INPUT);
+
-
dbInput.setProperty("name","dbInput");
+
-
dbInput.setProperty("defaultValue","");
+
-
Element dbButton=new Element(ElementType.BUTTON);
+
-
dbButton.setProperty("name","dbButton");
+
-
dbButton.setProperty("value","Import");
+
-
TextView rtv=event.getWavelet().getRootBlip().getDocument();
+
-
rtv.insert(rtv.getText().indexOf("Active Sequence:"),"Please insert sequence name:\n");
+
-
rtv.insertElement(rtv.getText().indexOf("Active Sequence:"),dbInput);
+
-
rtv.insertElement(rtv.getText().indexOf("Active Sequence:"),dbButton);
+
-
rtv.insert(rtv.getText().indexOf("Active Sequence:"),"\n");
+
-
int maxElements=4;
+
-
Iterator<Sequence> tailSetIterator=DatastoreManager.getAll(new Sequence()).iterator();
+
-
while(tailSetIterator.hasNext()&&maxElements>0){rtv.insert(rtv.getText().indexOf("Active Sequence:"),tailSetIterator.next().getName()+"\n");maxElements--;}
+
-
rtv.insert(rtv.getText().indexOf("Active Sequence:"),"...\n");
+
-
}
+
-
+
-
//------------------------------------------------------------------------
+
-
//Events
+
-
//------------------------------------------------------------------------
+
-
@Override
+
-
public void processSbwEvents(RobotMessageBundle bundle) {
+
-
        for(Event event:bundle.getEvents()){
+
-
        try{
+
-
    Blip blip=event.getBlip();
+
-
TextView tv=blip.getDocument();
+
-
+
-
if(event.getType()==EventType.WAVELET_SELF_ADDED){
+
-
try{
+
-
this.generateMenuData(event.getWavelet());
+
-
event.getWavelet().setDataDocument("menu.update","0");
+
-
this.appendMenuGadgetIfNeccessary(event.getBlip());
+
-
event.getWavelet().getRootBlip().getDocument().append("Active Sequence: none ");}
+
-
catch(Exception e){event.getBlip().getDocument().append("Error generating menu:"+e.toString());}}
+
-
   
+
-
else if(event.getType()==EventType.FORM_BUTTON_CLICKED){
+
-
if(event.getButtonName().contains("bbButton")){
+
-
String value = getInputValue(tv);
+
-
tv.delete(new Range(tv.getText().indexOf("\nPlease insert parts name:\n"),tv.getText().indexOf("Active Sequence:")));
+
-
String id=biobrickIDs.ceiling(value);
+
-
if(id!=null){
+
-
try{
+
-
String s=BioBrickManager.readBioBrickSequence(id);
+
-
List<Map<String,String>> features=BioBrickManager.readBioBrickFeatures(id);
+
-
Sequence sequence=new Sequence("biobrick",event.getTimestamp(),event.getWavelet().getWaveId(),event.getWavelet().getWaveletId(),event.getBlip().getBlipId(),s,SequenceView.isSequence(s));
+
-
sequence.setName(id);
+
-
for(Map<String,String> feature:features){
+
-
if(feature.get("END").equals("0")){sequence.addAnnotation(new Annotation(feature.get("TYPE_CATEGORY"),feature.get("TYPE"),new Range(Integer.parseInt(feature.get("START")),s.length())));}
+
-
else{sequence.addAnnotation(new Annotation(feature.get("TYPE_CATEGORY"),feature.get("TYPE"),new Range(Integer.parseInt(feature.get("START")),Integer.parseInt(feature.get("END")))));}}
+
-
super.currentSequence=DatastoreManager.store(sequence).getId();
+
-
String gadgetView=SequenceView.getHTMLView(sequence.getSequence(),sequence.getType());
+
-
Gadget seqView=new Gadget("http://samnode.de/SequenceView.xml");
+
-
seqView.setField("names","(br /)(br /)(br /)"+sequence.getName()+"(br /)(br /)");
+
-
seqView.setField("sequences",gadgetView);
+
-
event.getWavelet().appendBlip().getDocument().getGadgetView().append(seqView);}
+
-
catch(Exception exc){tv.replace("Error receiving biobrick data:"+exc.toString());}}
+
-
else{tv.append("BioBrick part not found, please choose other part ...");}}
+
-
+
-
else if(event.getButtonName().contains("dbButton")){
+
-
String value = getInputValue(tv);
+
-
tv.delete(new Range(tv.getText().indexOf("\nPlease insert parts name:\n"),tv.getText().indexOf("Active Sequence:")));
+
-
try{
+
-
Sequence sequence=DatastoreManager.getGreaterThanKeyValue(new Sequence(),"name",value).get(0);
+
-
super.currentSequence=sequence.getId();
+
-
if(!sequence.getWaveletID().get(0).equals(event.getWavelet().getWaveletId())){
+
-
String gadgetView=SequenceView.getHTMLView(sequence.getSequence(),sequence.getType());
+
-
Gadget seqView=new Gadget("http://samnode.de/SequenceView.xml");
+
-
seqView.setField("names","(br /)(br /)(br /)"+sequence.getName()+"(br /)(br /)");
+
-
seqView.setField("sequences",gadgetView);
+
-
event.getWavelet().appendBlip().getDocument().getGadgetView().append(seqView);}}
+
-
catch(Exception exc){tv.replace("Error receiving sequence:"+exc.toString());}}}
+
-
+
-
else if(event.getType()==EventType.BLIP_SUBMITTED){
+
-
+
-
if(event.getBlip().getDocument().getText().contains("#save")){
+
-
event.getBlip().getDocument().getGadgetView().append(new Gadget("http://samnode.de/downgadget.xml"));}
+
-
+
-
else if(event.getBlip().getDocument().getText().contains("#cgView")){
+
-
try{ appendCircView(event); }
+
-
catch(Exception e1){event.getBlip().getDocument().append("Error displaying circular view:"+e1.toString());}}
+
-
+
-
else if(event.getBlip().getDocument().getText().contains("#biobrick")){
+
-
try{ this.importBioBrick(event); }
+
-
catch(Exception exc){event.getBlip().getDocument().append(exc.toString());}}
+
-
+
-
else if(event.getBlip().getDocument().getText().contains("#msa")){
+
-
ArrayList<String> sequences=new ArrayList<String>();
+
-
sequences.add("tcgcgcgatcgcgatcgcatagcatacgcatcatcatctcatcatgcgacgcattatacgacgatagactacgacgactacgcgacgacatagcgcagcgagcatagcagcagcatagcagcagcagctacgactacgactacgactcatctcagc");
+
-
sequences.add("jdhfksjfhskjfhkfjshfuheuhfksuehfksjhsjzegfjhseifhkjcshegzfesfkjgfjhbesjhrvfjehfksuegfshvfbshegvhfgvsejhfsjhvsehfbjhesvfhsebfhsbfhsejhekfjbvehsvbjhesfvbjshevsehvhsvehvsejhsejhbsejfhbsjhefvbesjfbjeshvsehbfjsehfbsejfhbsejhvsehevbj");
+
-
sequences.add("ugcugcugacugauguacguagcgagcagucguagcugaucguagucgaugcgacgaugcuagcuagcuagcuagcuagcuagcgagcuagcuagcugaugcuagcuag");
+
-
sequences.add("tacgagctacgactagcatcagcgagcggacatcgacgatcgactacgatcagctac");
+
-
String gadgetView=SequenceView.getHTMLView(sequences);
+
-
Gadget seqView=new Gadget("http://samnode.de/SequenceView.xml");
+
-
seqView.setField("names","(br /)(br /)seq1(br /)seq2(br /)seq3(br /)seq4(br /)(br /)");
+
-
seqView.setField("sequences",gadgetView);
+
-
event.getWavelet().appendBlip().getDocument().getGadgetView().append(seqView);}
+
-
+
-
else if(event.getBlip().getDocument().getText().contains("#datastore")){
+
-
try{ this.importDatastore(event); }
+
-
catch(Exception exc){event.getBlip().getDocument().append(exc.toString());}}}
+
-
+
-
else if(event.getType()==EventType.DOCUMENT_CHANGED){
+
-
+
-
try{this.updateMenusIfNeccessary(event.getWavelet());}
+
-
catch(Exception e){event.getBlip().getDocument().append("Error updating  menu:"+e.toString());}
+
-
+
-
if(!tv.getAnnotations("style/backgroundColor").isEmpty()){
+
-
Range range=tv.getAnnotations("style/backgroundColor").get(0).getRange();
+
-
tv.deleteAnnotations("style/backgroundColor");
+
-
String sequence=tv.getText().substring(range.getStart(),range.getEnd());
+
-
try{
+
-
Sequence nSequence=new Sequence(event.getModifiedBy(),event.getTimestamp(),event.getWavelet().getWaveId(),event.getWavelet().getWaveId(),event.getBlip().getBlipId(),sequence,SequenceView.isSequence(sequence));
+
-
nSequence.setName(event.getModifiedBy()+"("+new Date(event.getTimestamp()).toString()+")");
+
-
super.currentSequence=DatastoreManager.store(nSequence).getId();}
+
-
catch(Exception e){event.getBlip().getDocument().append("Error storing sequence:"+e.toString());}
+
-
super.replaceWithSimpleView(event,range,tv.getText().substring(range.getStart(),range.getEnd()));}
+
-
+
-
String type=null;
+
-
String value=null;
+
-
int start=0;
+
-
List<Element> elements=tv.getElements();
+
-
Map<String,String> properties=null;
+
-
for(Element element:elements){
+
-
properties=element.getProperties();
+
-
if(properties.containsKey("name")){
+
-
if(properties.get("name").equals("bbInput")||properties.get("name").equals("dbInput")){
+
-
type=properties.get("name");
+
-
value=properties.get("value").trim();}
+
-
else if(properties.get("name").equals("bbButton")||properties.get("name").equals("dbButton")){
+
-
start=tv.getPosition(element)+2;}}}
+
-
+
-
if(!value.equals(this.bValue)){
+
-
this.bValue=value;
+
-
if(type!=null){
+
-
String preview="";
+
-
int maxElements=4;
+
-
if(type.equals("bbInput")){
+
-
Iterator<String> tailSetIterator=biobrickIDs.tailSet(value).iterator();
+
-
while(tailSetIterator.hasNext()&&maxElements>0){preview+=tailSetIterator.next()+"\n";maxElements--;}}
+
-
if(type.equals("dbInput")){
+
-
Iterator<Sequence> tailSetIterator=DatastoreManager.getGreaterThanKeyValue(new Sequence(),"name",value).iterator();
+
-
while(tailSetIterator.hasNext()&&maxElements>0){preview+=tailSetIterator.next()+"\n";maxElements--;}}
+
-
preview+="...\n";
+
-
tv.replace(new Range(start,tv.getText().indexOf("Active Sequence:")),preview);}}}}
+
-
catch(Exception e){}}}//event.getBlip().getDocument().append("Error prossesing events:"+e.toString());}}}
+
-
 
+
-
private String getInputValue(TextView tv) {
+
-
String value=null;
+
-
List<Element> elements=tv.getElements();
+
-
Map<String,String> properties=null;
+
-
for(Element element:elements){
+
-
properties=element.getProperties();
+
-
if(properties.containsKey("name")){
+
-
if(properties.get("name").contains("Input")){
+
-
value=properties.get("value").trim();}}}
+
-
return value;
+
-
}
+
-
+
-
@Override
+
-
public void processSbwMenuEvents(String buttonLabel,LinkedHashMap<String,String> formValues,Event event){
+
-
if(buttonLabel.contains("upload")){
+
-
try{
+
-
while(super.currentSequence==null||DatastoreManager.getByID(new Sequence(),super.currentSequence)==null){}
+
-
Sequence sequence=DatastoreManager.getByID(new Sequence(),super.currentSequence);
+
-
String gadgetView=SequenceView.getHTMLView(sequence.getSequence(),sequence.getType());
+
-
Gadget seqView=new Gadget("http://samnode.de/SequenceView.xml");
+
-
seqView.setField("names","(br /)(br /)(br /)"+sequence.getName()+"(br /)(br /)");
+
-
seqView.setField("sequences",gadgetView);
+
-
event.getWavelet().appendBlip().getDocument().getGadgetView().append(seqView);}
+
-
catch(Exception exc){event.getWavelet().appendBlip().getDocument().append("Error on upload:"+exc.toString());}}
+
-
+
-
else if (buttonLabel.contains("Circular View"))
+
-
{
+
-
try
+
-
{
+
-
this.appendCircView(event);
+
-
}
+
-
catch(Exception exc)
+
-
{
+
-
event.getBlip().getDocument().append("Error displaying circular view:"+exc.toString());
+
-
}
+
-
}
+
-
+
-
else if (buttonLabel.contains("BioBrick"))
+
-
{
+
-
try
+
-
{
+
-
this.importBioBrick(event);
+
-
}
+
-
catch(Exception exc)
+
-
{
+
-
event.getBlip().getDocument().append("BioBrick-Error: " + exc.toString());
+
-
}
+
-
}
+
-
+
-
else if (buttonLabel.contains("Datastore"))
+
-
{
+
-
try
+
-
{
+
-
this.importDatastore(event);
+
-
}
+
-
catch(Exception exc)
+
-
{
+
-
event.getBlip().getDocument().append("Datastore-Error: " + exc.toString());
+
-
}
+
-
}
+
-
}
+
}
}
  </nowiki>
  </nowiki>

Latest revision as of 14:22, 21 October 2009


RecChildBlipListBuilder

/*
*    Copyright: synbiowave
*     
*    License: GPL
*     
*    Authors: Paul Staab
*     
*    Version: 0.1 
*    
*    DESCRIPTION:
*    	Small class to create a list of all the blips of a wave. 
*/

package org.synbiowave;

import java.util.ArrayList;

public class RecChildBlipListBuilder {
	private ArrayList<Blip> recChildList = new ArrayList<Blip>();
	
	RecChildBlipListBuilder(Blip blip)
	{
		this.recBuilder(blip);
	}
	
	private void recBuilder(Blip blip)
	{
		try {
		this.recChildList.add(blip);
		//blip.getDocument().append("Children: " + blip.getChildren().size() + "\n");
		for (Blip blip2 : blip.getChildren())
		{
			this.recBuilder(blip2);
		}
		}
		catch (Exception error)
		{
			blip.createChild().getDocument().append("ERROR:" + error.toString());
		}
	}
	
	public ArrayList<Blip> getRecChildList()
	{
		return this.recChildList;
	}	
}
Retrieved from "http://2009.igem.org/Team:Freiburg_software/Code/RecChildBlipListBuilder.java"