[kepler-users] add an actor to the local repository

Mon Jul 19 15:00:18 PDT 2010

I think the problem I am having is that it is trying to validate the XML  
against
http://ptolemy.eecs.berkeley.edu/xml/dtd/MoML_1.dtd, and my proxy
is probably in the way. Although I set the proxy in the kepler.bat file on  
the
command-line. I am not sure why it isn't going through.
Chris

[null] java.net.ConnectException: Connection timed out: connect
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[null] at java.net.PlainSocketImpl.doConnect(Unknown Source)
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[null] at java.net.PlainSocketImpl.connect(Unknown Source)
[null] at java.net.SocksSocketImpl.connect(Unknown Source)
[null] at java.net.Socket.connect(Unknown Source)
[null] at java.net.Socket.connect(Unknown Source)
[null] at sun.net.NetworkClient.doConnect(Unknown Source)
[null] at sun.net.www.http.HttpClient.openServer(Unknown Source)
[null] at sun.net.www.http.HttpClient.openServer(Unknown Source)
[null] at sun.net.www.http.HttpClient.<init>(Unknown Source)
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[null] at sun.net.www.http.HttpClient.New(Unknown Source)
[null] at sun.net.www.protocol.http.HttpURLConnection.getNewHttpClient(
Unknown Source)
[null] at sun.net.www.protocol.http.HttpURLConnection.plainConnect(Unkn
own Source)
[null] at sun.net.www.protocol.http.HttpURLConnection.connect(Unknown S
ource)
[null] at sun.net.www.protocol.http.HttpURLConnection.getInputStream(Un
known Source)
[null] at org.apache.xerces.impl.XMLEntityManager.setupCurrentEntity(Un
known Source)
[null] at org.apache.xerces.impl.XMLEntityManager.startEntity(Unknown S
ource)
[null] at org.apache.xerces.impl.XMLEntityManager.startDTDEntity(Unknow
n Source)
[null] at org.apache.xerces.impl.XMLDTDScannerImpl.setInputSource(Unkno
wn Source)
[null] at org.apache.xerces.impl.XMLDocumentScannerImpl$DTDDispatcher.d
ispatch(Unknown Source)
[null] at org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDoc
ument(Unknown Source)
[null] at org.apache.xerces.parsers.XML11Configuration.parse(Unknown So
urce)
[null] at org.apache.xerces.parsers.XML11Configuration.parse(Unknown So
urce)
[null] at org.apache.xerces.parsers.XMLParser.parse(Unknown Source)
[null] at org.apache.xerces.parsers.DOMParser.parse(Unknown Source)
[null] at org.apache.xerces.jaxp.DocumentBuilderImpl.parse(Unknown Sour
ce)
[null] at org.kepler.moml.KeplerMetadataExtractor.extractActorMetadata(
KeplerMetadataExtractor.java:101)
[null] at org.kepler.objectmanager.cache.ActorCacheObject.<init>(ActorC
acheObject.java:141)
[null] at org.kepler.kar.handlers.ActorMetadataKAREntryHandler.cache(Ac
torMetadataKAREntryHandler.java:169)
[null] at org.kepler.kar.KARFile.cache(KARFile.java:876)
[null] at org.kepler.kar.KARFile.cacheKARContents(KARFile.java:591)
[null] at org.kepler.kar.SaveKAR.saveToCache(SaveKAR.java:184)
[null] at org.kepler.gui.kar.ExportArchiveAction.actionPerformed(Export
ArchiveAction.java:344)
[null] at javax.swing.AbstractButton.fireActionPerformed(Unknown Source
)
[null] at javax.swing.AbstractButton$Handler.actionPerformed(Unknown So
urce)
[null] at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown So
urce)
[null] at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
[null] at javax.swing.AbstractButton.doClick(Unknown Source)
[null] at javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source
)
[null] at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(
Unknown Source)
[null] at java.awt.Component.processMouseEvent(Unknown Source)
[null] at javax.swing.JComponent.processMouseEvent(Unknown Source)
[null] at java.awt.Component.processEvent(Unknown Source)
[null] at java.awt.Container.processEvent(Unknown Source)
[null] at java.awt.Component.dispatchEventImpl(Unknown Source)
[null] at java.awt.Container.dispatchEventImpl(Unknown Source)
[null] at java.awt.Component.dispatchEvent(Unknown Source)
[null] at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Sou
rce)
[null] at java.awt.LightweightDispatcher.processMouseEvent(Unknown Sour
ce)
[null] at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
[null] at java.awt.Container.dispatchEventImpl(Unknown Source)
[null] at java.awt.Window.dispatchEventImpl(Unknown Source)
[null] at java.awt.Component.dispatchEvent(Unknown Source)
[null] at java.awt.EventQueue.dispatchEvent(Unknown Source)
[null] at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown S
ource)
[null] at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Sour
ce)
[null] at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown S
ource)
[null] at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
[null] at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
[null] at java.awt.EventDispatchThread.run(Unknown Source)
[null] Error parsing Actor KAR DOM "<?xml version="1.0"?>
[null] <!DOCTYPE entity PUBLIC "-//UC Berkeley//DTD MoML 1//EN"
[null] "http://ptolemy.e...": Connection timed out: connect
[null] WARN (org.kepler.objectmanager.cache.CacheManager:insertObject:237)
KAREntry has no lsid: null

On Jul 19, 2010 5:50pm, chrisweed at gmail.com wrote:
> Thanks, I'll try that.
> Chris

> On Jul 19, 2010 5:49pm, Jianwu Wang jianwu at sdsc.edu> wrote:
> >
> >
> >
> >
> >
> >
> > Hi Chris,
> >
> >
> >
> > If you right-click the actor and choose 'Save Archive (KAR)...', a
> > dialog called 'Add Semantic Types?' will show up. If you click 'yes',
> > you can choose corresponding semantic type for this actor. Then another
> > dialog will show up to save the kar file of this actor. The default
> > location is at $KeplerData/workflows/MyWorkflows. If you save the kar
> > file in $KeplerData/workflows/MyWorkflows directory, you can search and
> > find the actor in the ontology-tree window. It will show up under both
> > its ontology annotations and MyWorkflows icon.
> >
> > Best wishes
> >
> > Sincerely yours
> >
> > Jianwu Wang
> > jianwu at sdsc.edu
> > http://users.sdsc.edu/~jianwu/
> >
> > Assistant Project Scientist
> > Scientific Workflow Automation Technologies (SWAT) Laboratory
> > San Diego Supercomputer Center
> > University of California, San Diego
> > San Diego, CA, USA
> >
> >
> > On 7/19/2010 2:34 PM, chrisweed at gmail.com wrote:
> > What is the correct method for adding an actor to the
> > local repository, so it shows up in the ontology-tree window?
> >
> > I didn't see how to do this in the user guide. I tried the old "upload
> > to repository" method, but that didn't seem to do anything.
> >
> > Chris
> >
> >
> > _______________________________________________
> > Kepler-users mailing list
> > Kepler-users at kepler-project.org
> > http://mercury.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-users
> >
> >
> >
> >
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