Hi, I'm having some difficulty in importing a Neo4j database into Gephi using the Neo4j plugin: when I go to File > Neo4j Database > Full Import and try to import a database, I get a popup with an empty warning message. I have also tried a Traversal Import, but after selecting the database, no windows pop up.
I've tried a sample database with a reference node that points to another node, and also the example Movies/Actors database that comes included with Neo4j.
I am using Neo4j 2.1.2 and Gephi 0.8.2. Any help would be much appreciated!
Neo4j database full import not working - empty warning mess
-
- Posts:0
- Joined:09 Jul 2014 15:53 [phpBB Debug] PHP Warning: in file [ROOT]/vendor/twig/twig/lib/Twig/Extension/Core.php on line 1275: count(): Parameter must be an array or an object that implements Countable
Re: Neo4j database full import not working - empty warning m
Hi Holger, thanks for the reply. I tried closing the neo4j server, then importing the two dbs again but it's the same issue unfortunately.
-
- Posts:1
- Joined:28 Jul 2014 00:46
- Location:Chile
- Contact:
Re: Neo4j database full import not working - empty warning m
Hi guys,
Any news on this topic?
I am experiencing the same disgusting issue with Neo4j 2.1.2, plugin version 2.1.0,
Gepphi version:
Product Version: Gephi 0.8.2 201210100934
Updates: Updates available
Java: 1.7.0_55; OpenJDK 64-Bit Server VM 24.51-b03
System: Linux version 3.13.0-24-generic running on amd64; UTF-8; en_US (gephi)
User directory: /home/**********/.gephi/0.8.2/dev
Cache directory: /home/**********/.gephi/0.8.2/dev/var/cache
I will appreciate any pointers on how to see the exception raised by the Neo4j plugin.
Any news on this topic?
I am experiencing the same disgusting issue with Neo4j 2.1.2, plugin version 2.1.0,
Gepphi version:
Product Version: Gephi 0.8.2 201210100934
Updates: Updates available
Java: 1.7.0_55; OpenJDK 64-Bit Server VM 24.51-b03
System: Linux version 3.13.0-24-generic running on amd64; UTF-8; en_US (gephi)
User directory: /home/**********/.gephi/0.8.2/dev
Cache directory: /home/**********/.gephi/0.8.2/dev/var/cache
I will appreciate any pointers on how to see the exception raised by the Neo4j plugin.
-
- Posts:3
- Joined:28 Jul 2014 23:14 [phpBB Debug] PHP Warning: in file [ROOT]/vendor/twig/twig/lib/Twig/Extension/Core.php on line 1275: count(): Parameter must be an array or an object that implements Countable
Re: Neo4j database full import not working - empty warning m
I have the same problem with a database created with 2.1.0 or 2.1.2 (same with both versions) on a windows as well as on a linux machine.
I get just an empty error window on "full import" and no message on traversal.
Is there any restrictions on how the database should look like?
I managed to save one of these exaples (les miserables) to neo4j and reload it though.
Some kind of error message would be great...
Linux Machine:
Produktversion: Gephi 0.8.2 201210100934
Java: 1.7.0_60; Java HotSpot(TM) 64-Bit Server VM 24.60-b09
System: Linux Version 3.13.0-30-generic wird auf amd64 ausgeführt; UTF-8; de_DE (gephi)
I get just an empty error window on "full import" and no message on traversal.
Is there any restrictions on how the database should look like?
I managed to save one of these exaples (les miserables) to neo4j and reload it though.
Some kind of error message would be great...
Linux Machine:
Produktversion: Gephi 0.8.2 201210100934
Java: 1.7.0_60; Java HotSpot(TM) 64-Bit Server VM 24.60-b09
System: Linux Version 3.13.0-30-generic wird auf amd64 ausgeführt; UTF-8; de_DE (gephi)
-
- Posts:3
- Joined:28 Jul 2014 23:14 [phpBB Debug] PHP Warning: in file [ROOT]/vendor/twig/twig/lib/Twig/Extension/Core.php on line 1275: count(): Parameter must be an array or an object that implements Countable
Re: Neo4j database full import not working - empty warning m
I forked the plugin git and looked at the source.
It seems that exceptions get eaten on connect - very very very very very ugly. Still typical Java programmers behaviour...
I did the following to Neo4jVisualDebugger:
So now I see what is actually happening and I get the following stack trace:
The interresting line here is:
Expected 'NeoStore v0.A.1' but file is version 'NeoStore v0.A.3'.
https://github.com/gephi/gephi-plugins/issues/40 seems to report maybe the same issue. I have to get some sleep now but I'll have a look at it tomorrow.
What has to be fixed one way or the other is the plugin's eating exceptions. This should not be happening.
It seems that exceptions get eaten on connect - very very very very very ugly. Still typical Java programmers behaviour...
I did the following to Neo4jVisualDebugger:
Code: Select all
@@ -189,6 +189,13 @@ public class Neo4jMenuAction extends CallableSystemAction {
Collection<Class> inUseExceptions = Arrays.<Class>asList(Neo4jStoreAlreadyInUseException.class,StoreLockException.class);
if (inUseExceptions.contains(e.getClass()) || inUseExceptions.contains(e.getCause().getClass()))
errorMessage = NbBundle.getMessage(Neo4jMenuAction.class, "CTL_Neo4j_DatabaseStorageAlreadyInUse");
+ else
+ {
+ e.printStackTrace();
+ StringWriter sw = new StringWriter();
+ PrintWriter pw = new PrintWriter(sw);
+ e.printStackTrace(pw);
+ errorMessage = sw.toString(); // stack trace as a string
+ }
NotifyDescriptor notifyDescriptor = new NotifyDescriptor.Message(errorMessage, JOptionPane.WARNING_MESSAGE);
DialogDisplayer.getDefault().notify(notifyDescriptor);
Code: Select all
java.lang.RuntimeException: Error starting org.neo4j.kernel.EmbeddedGraphDatabase, /home/roman/Dropbox/Crawler/temp-neo-test
at org.neo4j.kernel.InternalAbstractGraphDatabase.run(InternalAbstractGraphDatabase.java:339)
at org.neo4j.kernel.EmbeddedGraphDatabase.<init>(EmbeddedGraphDatabase.java:66)
at org.neo4j.graphdb.factory.GraphDatabaseFactory$1.newDatabase(GraphDatabaseFactory.java:92)
at org.neo4j.graphdb.factory.GraphDatabaseBuilder.newGraphDatabase(GraphDatabaseBuilder.java:198)
at org.gephi.desktop.neo4j.ui.util.Neo4jUtils.localDatabase(Neo4jUtils.java:43)
at org.gephi.desktop.neo4j.Neo4jMenuAction$FullImportMenuAction.actionPerformed(Neo4jMenuAction.java:236)
at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:2018)
at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2341)
at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:402)
at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
at javax.swing.AbstractButton.doClick(AbstractButton.java:376)
at javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItemUI.java:833)
at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(BasicMenuItemUI.java:877)
at java.awt.Component.processMouseEvent(Component.java:6516)
at javax.swing.JComponent.processMouseEvent(JComponent.java:3320)
at java.awt.Component.processEvent(Component.java:6281)
at java.awt.Container.processEvent(Container.java:2229)
at java.awt.Component.dispatchEventImpl(Component.java:4872)
at java.awt.Container.dispatchEventImpl(Container.java:2287)
at java.awt.Component.dispatchEvent(Component.java:4698)
at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4832)
at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4492)
at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4422)
at java.awt.Container.dispatchEventImpl(Container.java:2273)
at java.awt.Window.dispatchEventImpl(Window.java:2719)
at java.awt.Component.dispatchEvent(Component.java:4698)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:735)
at java.awt.EventQueue.access$200(EventQueue.java:103)
at java.awt.EventQueue$3.run(EventQueue.java:694)
at java.awt.EventQueue$3.run(EventQueue.java:692)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:87)
at java.awt.EventQueue$4.run(EventQueue.java:708)
at java.awt.EventQueue$4.run(EventQueue.java:706)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:705)
at org.netbeans.core.TimableEventQueue.dispatchEvent(TimableEventQueue.java:158)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:242)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:161)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:150)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:146)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:138)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:91)
Caused by: org.neo4j.kernel.lifecycle.LifecycleException: Component 'org.neo4j.kernel.impl.transaction.XaDataSourceManager@16253994' was successfully initialized, but failed to start. Please see attached cause exception.
at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:513)
at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:115)
at org.neo4j.kernel.InternalAbstractGraphDatabase.run(InternalAbstractGraphDatabase.java:316)
... 44 more
Caused by: org.neo4j.kernel.lifecycle.LifecycleException: Component 'org.neo4j.kernel.impl.nioneo.xa.NeoStoreXaDataSource@4d2c47e9' was successfully initialized, but failed to start. Please see attached cause exception.
at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:513)
at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:115)
at org.neo4j.kernel.impl.transaction.XaDataSourceManager.start(XaDataSourceManager.java:164)
at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:507)
... 46 more
Caused by: org.neo4j.kernel.impl.storemigration.StoreUpgrader$UnexpectedUpgradingStoreVersionException: 'neostore' has a store version number that we cannot upgrade from. Expected 'NeoStore v0.A.1' but file is version 'NeoStore v0.A.3'.
at org.neo4j.kernel.impl.storemigration.UpgradableDatabase.checkUpgradeable(UpgradableDatabase.java:70)
at org.neo4j.kernel.impl.storemigration.StoreUpgrader.attemptUpgrade(StoreUpgrader.java:72)
at org.neo4j.kernel.impl.nioneo.store.StoreFactory.tryToUpgradeStores(StoreFactory.java:147)
at org.neo4j.kernel.impl.nioneo.store.StoreFactory.newNeoStore(StoreFactory.java:121)
at org.neo4j.kernel.impl.nioneo.xa.NeoStoreXaDataSource.start(NeoStoreXaDataSource.java:327)
at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:507)
... 49 more
Expected 'NeoStore v0.A.1' but file is version 'NeoStore v0.A.3'.
https://github.com/gephi/gephi-plugins/issues/40 seems to report maybe the same issue. I have to get some sleep now but I'll have a look at it tomorrow.
What has to be fixed one way or the other is the plugin's eating exceptions. This should not be happening.
-
- Posts:3
- Joined:28 Jul 2014 23:14 [phpBB Debug] PHP Warning: in file [ROOT]/vendor/twig/twig/lib/Twig/Extension/Core.php on line 1275: count(): Parameter must be an array or an object that implements Countable
Re: Neo4j database full import not working - empty warning m
Ill continue to comment in
https://github.com/gephi/gephi-plugins/issues/40
https://github.com/gephi/gephi-plugins/issues/40
-
- Posts:11
- Joined:27 Jul 2014 16:57
- Location:Germany, Stuttgart [phpBB Debug] PHP Warning: in file [ROOT]/vendor/twig/twig/lib/Twig/Extension/Core.php on line 1275: count(): Parameter must be an array or an object that implements Countable
Re: Neo4j database full import not working - empty warning m
Currently, there are a number of open issues, some of them closely related:
Best regards,
Holger
- Eaten exceptions (might be caused by locked neo4jstore or neo4j version >2.1.0), (#44, fixed with pull request #45)
- NotInTransactionException for TraversalImport (#40, fixed with pull request)
- Missing support for current neo4j 2.1.2 (fixed with pull request #48)
- Finally, Node Labels (introduced with Neo4j2) are not yet supported, neither their import (#46, fixed with pull request #47), nor using them as import filter (I'm currently working on it)
Best regards,
Holger