[kepler-users] semantic actor suggestion
Chris Weed
chrisweed at gmail.com
Mon Jul 13 12:27:15 PDT 2009
Actually, I think it did work, eventhough I got that error message.
Chris
On Mon, Jul 13, 2009 at 3:21 PM, Chris Weed<chrisweed at gmail.com> wrote:
> I was able to import into the actor library a new actor type
> 'ptolemy.actor.lib.Discard', however,
> I was not able to add a semantic type to a current actor and save it
> in the actor library.
>
> I dragged the ImageReader into the desktop, applied a "Image" concept
> to the output port,
> and then tried to "Save to Library" with the new name "Image Reader (Semantic).
>
> This gave the error:
>>>> getConceptId() = urn:lsid:localhost:onto:1:1#ImageManipulationActor
>>>> getConceptId() = urn:lsid:localhost:onto:2:1#LocalInput
> done writing KAR file to
> /home/deer/cweed/code/kepler-build/workflows/Image Reader
> (Semantic).kar
> java.sql.SQLException: Violation of unique constraint SYS_PK_48:
> duplicate value(s) for column(s) LSID in statement [insert into
> cacheContentTable (name, lsid, date, file, expiration, type) values (
> ?, ?, ?, ?, ?, ? )]
> at org.hsqldb.jdbc.Util.throwError(Unknown Source)
> at org.hsqldb.jdbc.jdbcPreparedStatement.executeUpdate(Unknown Source)
> at org.kepler.objectmanager.cache.CacheManager.insertObject(CacheManager.java:266)
> at org.kepler.kar.gui.SaveInLibraryDialog._saveEntity(SaveInLibraryDialog.java:526)
> at org.kepler.kar.gui.SaveInLibraryDialog._saveCommand(SaveInLibraryDialog.java:383)
> at org.kepler.kar.gui.SaveInLibraryDialog.access$0(SaveInLibraryDialog.java:290)
> at org.kepler.kar.gui.SaveInLibraryDialog$1.actionPerformed(SaveInLibraryDialog.java:646)
> at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
> at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
> at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:236)
> at java.awt.Component.processMouseEvent(Component.java:6216)
> at javax.swing.JComponent.processMouseEvent(JComponent.java:3265)
> at java.awt.Component.processEvent(Component.java:5981)
> at java.awt.Container.processEvent(Container.java:2041)
> at java.awt.Component.dispatchEventImpl(Component.java:4583)
> at java.awt.Container.dispatchEventImpl(Container.java:2099)
> at java.awt.Component.dispatchEvent(Component.java:4413)
> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4556)
> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4220)
> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4150)
> at java.awt.Container.dispatchEventImpl(Container.java:2085)
> at java.awt.Window.dispatchEventImpl(Window.java:2475)
> at java.awt.Component.dispatchEvent(Component.java:4413)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:178)
> at java.awt.Dialog$1.run(Dialog.java:1051)
> at java.awt.Dialog$3.run(Dialog.java:1103)
> at java.security.AccessController.doPrivileged(Native Method)
> at java.awt.Dialog.show(Dialog.java:1101)
> at java.awt.Component.show(Component.java:1516)
> at java.awt.Component.setVisible(Component.java:1468)
> at java.awt.Window.setVisible(Window.java:841)
> at java.awt.Dialog.setVisible(Dialog.java:991)
> at org.kepler.kar.gui.SaveInLibraryAction.actionPerformed(SaveInLibraryAction.java:83)
> at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
> at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
> at javax.swing.AbstractButton.doClick(AbstractButton.java:357)
> at javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItemUI.java:1225)
> at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(BasicMenuItemUI.java:1266)
> at java.awt.Component.processMouseEvent(Component.java:6216)
> at javax.swing.JComponent.processMouseEvent(JComponent.java:3265)
> at java.awt.Component.processEvent(Component.java:5981)
> at java.awt.Container.processEvent(Container.java:2041)
> at java.awt.Component.dispatchEventImpl(Component.java:4583)
> at java.awt.Container.dispatchEventImpl(Container.java:2099)
> at java.awt.Component.dispatchEvent(Component.java:4413)
> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4556)
> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4220)
> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4150)
> at java.awt.Container.dispatchEventImpl(Container.java:2085)
> at java.awt.Window.dispatchEventImpl(Window.java:2475)
> at java.awt.Component.dispatchEvent(Component.java:4413)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
> at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
> at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
> org.kepler.objectmanager.cache.CacheException: Could not create hsql
> entry for new CacheObjectInterface:
> at org.kepler.objectmanager.cache.CacheManager.insertObject(CacheManager.java:288)
> at org.kepler.kar.gui.SaveInLibraryDialog._saveEntity(SaveInLibraryDialog.java:526)
> at org.kepler.kar.gui.SaveInLibraryDialog._saveCommand(SaveInLibraryDialog.java:383)
> at org.kepler.kar.gui.SaveInLibraryDialog.access$0(SaveInLibraryDialog.java:290)
> at org.kepler.kar.gui.SaveInLibraryDialog$1.actionPerformed(SaveInLibraryDialog.java:646)
> at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
> at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
> at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:236)
> at java.awt.Component.processMouseEvent(Component.java:6216)
> at javax.swing.JComponent.processMouseEvent(JComponent.java:3265)
> at java.awt.Component.processEvent(Component.java:5981)
> at java.awt.Container.processEvent(Container.java:2041)
> at java.awt.Component.dispatchEventImpl(Component.java:4583)
> at java.awt.Container.dispatchEventImpl(Container.java:2099)
> at java.awt.Component.dispatchEvent(Component.java:4413)
> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4556)
> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4220)
> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4150)
> at java.awt.Container.dispatchEventImpl(Container.java:2085)
> at java.awt.Window.dispatchEventImpl(Window.java:2475)
> at java.awt.Component.dispatchEvent(Component.java:4413)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:178)
> at java.awt.Dialog$1.run(Dialog.java:1051)
> at java.awt.Dialog$3.run(Dialog.java:1103)
> at java.security.AccessController.doPrivileged(Native Method)
> at java.awt.Dialog.show(Dialog.java:1101)
> at java.awt.Component.show(Component.java:1516)
> at java.awt.Component.setVisible(Component.java:1468)
> at java.awt.Window.setVisible(Window.java:841)
> at java.awt.Dialog.setVisible(Dialog.java:991)
> at org.kepler.kar.gui.SaveInLibraryAction.actionPerformed(SaveInLibraryAction.java:83)
> at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
> at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
> at javax.swing.AbstractButton.doClick(AbstractButton.java:357)
> at javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItemUI.java:1225)
> at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(BasicMenuItemUI.java:1266)
> at java.awt.Component.processMouseEvent(Component.java:6216)
> at javax.swing.JComponent.processMouseEvent(JComponent.java:3265)
> at java.awt.Component.processEvent(Component.java:5981)
> at java.awt.Container.processEvent(Container.java:2041)
> at java.awt.Component.dispatchEventImpl(Component.java:4583)
> at java.awt.Container.dispatchEventImpl(Container.java:2099)
> at java.awt.Component.dispatchEvent(Component.java:4413)
> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4556)
> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4220)
> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4150)
> at java.awt.Container.dispatchEventImpl(Container.java:2085)
> at java.awt.Window.dispatchEventImpl(Window.java:2475)
> at java.awt.Component.dispatchEvent(Component.java:4413)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
> at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
> at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
> Caused by: java.sql.SQLException: Violation of unique constraint
> SYS_PK_48: duplicate value(s) for column(s) LSID in statement [insert
> into cacheContentTable (name, lsid, date, file, expiration, type)
> values ( ?, ?, ?, ?, ?, ? )]
> at org.hsqldb.jdbc.Util.throwError(Unknown Source)
> at org.hsqldb.jdbc.jdbcPreparedStatement.executeUpdate(Unknown Source)
> at org.kepler.objectmanager.cache.CacheManager.insertObject(CacheManager.java:266)
> ... 62 more
>
> On Fri, Jul 10, 2009 at 2:57 PM, Shawn Bowers<sbowers at ucdavis.edu> wrote:
>> Yeah, this is the same one I was getting too --
>>
>> Aaron?
>>
>> Shawn
>>
>> On Fri, Jul 10, 2009 at 11:49 AM, Chris Weed<chrisweed at gmail.com> wrote:
>>> After updating from SVN,
>>> I just tried "Save in Library", and I am getting:
>>> Exception occurred during event dispatching:
>>> java.lang.NullPointerException
>>> at org.kepler.kar.gui.SaveInLibraryDialog.determineKarFile(SaveInLibraryDialog.java:255)
>>> at org.kepler.kar.gui.SaveInLibraryDialog._saveCommand(SaveInLibraryDialog.java:371)
>>> at org.kepler.kar.gui.SaveInLibraryDialog.access$0(SaveInLibraryDialog.java:290)
>>> at org.kepler.kar.gui.SaveInLibraryDialog$1.actionPerformed(SaveInLibraryDialog.java:646)
>>> at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
>>> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
>>> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
>>> at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
>>> at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:236)
>>> at java.awt.Component.processMouseEvent(Component.java:6216)
>>> at javax.swing.JComponent.processMouseEvent(JComponent.java:3265)
>>> at java.awt.Component.processEvent(Component.java:5981)
>>> at java.awt.Container.processEvent(Container.java:2041)
>>> at java.awt.Component.dispatchEventImpl(Component.java:4583)
>>> at java.awt.Container.dispatchEventImpl(Container.java:2099)
>>> at java.awt.Component.dispatchEvent(Component.java:4413)
>>> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4556)
>>> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4220)
>>> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4150)
>>> at java.awt.Container.dispatchEventImpl(Container.java:2085)
>>> at java.awt.Window.dispatchEventImpl(Window.java:2475)
>>> at java.awt.Component.dispatchEvent(Component.java:4413)
>>> at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
>>> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
>>> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
>>> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:178)
>>> at java.awt.Dialog$1.run(Dialog.java:1051)
>>> at java.awt.Dialog$3.run(Dialog.java:1103)
>>> at java.security.AccessController.doPrivileged(Native Method)
>>> at java.awt.Dialog.show(Dialog.java:1101)
>>> at java.awt.Component.show(Component.java:1516)
>>> at java.awt.Component.setVisible(Component.java:1468)
>>> at java.awt.Window.setVisible(Window.java:841)
>>> at java.awt.Dialog.setVisible(Dialog.java:991)
>>> at org.kepler.kar.gui.SaveInLibraryAction.actionPerformed(SaveInLibraryAction.java:83)
>>> at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
>>> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
>>> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
>>> at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
>>> at javax.swing.AbstractButton.doClick(AbstractButton.java:357)
>>> at javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItemUI.java:1225)
>>> at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(BasicMenuItemUI.java:1266)
>>> at java.awt.Component.processMouseEvent(Component.java:6216)
>>> at javax.swing.JComponent.processMouseEvent(JComponent.java:3265)
>>> at java.awt.Component.processEvent(Component.java:5981)
>>> at java.awt.Container.processEvent(Container.java:2041)
>>> at java.awt.Component.dispatchEventImpl(Component.java:4583)
>>> at java.awt.Container.dispatchEventImpl(Container.java:2099)
>>> at java.awt.Component.dispatchEvent(Component.java:4413)
>>> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4556)
>>> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4220)
>>> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4150)
>>> at java.awt.Container.dispatchEventImpl(Container.java:2085)
>>> at java.awt.Window.dispatchEventImpl(Window.java:2475)
>>> at java.awt.Component.dispatchEvent(Component.java:4413)
>>> at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
>>> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
>>> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
>>> at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
>>> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
>>> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
>>> at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
>>>
>>> Is this working for you?
>>> Chris
>>>
>>> On Fri, Jul 10, 2009 at 2:02 PM, Aaron Schultz<aschultz at nceas.ucsb.edu> wrote:
>>>>
>>>> Sure, Shawn, I've reenabled "Save in Library" until Save Archive is fully
>>>> operational.
>>>>
>>>> Just remember that if you use Save in Library, then clean-cache, whatever
>>>> you "Saved In Library" is lost forever.
>>>>
>>>> Aaron
>>>>
>>>> Shawn Bowers wrote:
>>>>>
>>>>> OK -- anyway you can resurrect the "Save in Library" and get it
>>>>> working as it did w/ the new changes made to KARs/KAR handling, etc.,
>>>>> until the "Save Archive (KAR)" is functional?
>>>>>
>>>>> Shawn
>>>>>
>>>>> On Fri, Jul 10, 2009 at 10:04 AM, Aaron Schultz<aschultz at nceas.ucsb.edu>
>>>>> wrote:
>>>>>
>>>>>>
>>>>>> Shawn, sounds good, if it is not working now as you have described then
>>>>>> there are still bugs in the code somewhere.
>>>>>>
>>>>>> I have done very limited testing on the new code so bugs are quite
>>>>>> likely...
>>>>>>
>>>>>> Aaron
>>>>>>
>>>>>>
>>>>>> Shawn Bowers wrote:
>>>>>>
>>>>>>>
>>>>>>> Hi Aaron,
>>>>>>>
>>>>>>> Just to clarify what I'm trying to do (which used to work with the
>>>>>>> Save in Library feature):
>>>>>>>
>>>>>>> 1. Drag an actor from the library onto the canvas
>>>>>>> 2. Right-click on the actor, select "Semantic Type Annotation..."
>>>>>>> 3. Annotate an input port of the actor using the "Semantic Type
>>>>>>> Annotation" widget
>>>>>>> 4. Right-click on the actor, select "Save Archive (KAR)" (before: Save
>>>>>>> in Library)
>>>>>>> 5. Drag the actor back onto the canvas to see that its port annotations
>>>>>>> survived
>>>>>>> 6. Search the library for actors with a matching input annotation type
>>>>>>>
>>>>>>> When I now do step 4, I only seem to be able to save to the
>>>>>>> "Workflows" directory using the Save Archive (KAR) action. When I do
>>>>>>> this, I run into the following problems:
>>>>>>>
>>>>>>> A. The actor shows up under "Workflows", but it appears to be a
>>>>>>> workflow (a can icon?).
>>>>>>> B. I am not able to do anything with this component, e.g., I cannot
>>>>>>> open it (in the tree view), I cannot drag it onto the canvas,
>>>>>>> double-clicking it does nothing, right-clicking it does nothing, etc.
>>>>>>> C. I am able to search for it by name, but not by its original
>>>>>>> semantic type annotations (on actors or ports).
>>>>>>>
>>>>>>> In general, I like the idea of being able to save to local folders
>>>>>>> (assuming one can do the above at a minimum), although it would also
>>>>>>> be nice to be able to save to the library as well (and then as an
>>>>>>> additional feature, "save the library" ...). However, if we are going
>>>>>>> to have "Save Archive (KAR)" replace the prior "Save in Library"
>>>>>>> feature, it should at least support the above features.
>>>>>>>
>>>>>>> Shawn
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> On Fri, Jul 10, 2009 at 8:46 AM, Aaron Schultz<aschultz at nceas.ucsb.edu>
>>>>>>> wrote:
>>>>>>>
>>>>>>>
>>>>>>>>
>>>>>>>> It should query the user if no sem types are found. However it is no
>>>>>>>> longer
>>>>>>>> required to add sem types before saving since the ability to display
>>>>>>>> non
>>>>>>>> sem
>>>>>>>> typed objs in the library now exists (folders).
>>>>>>>>
>>>>>>>> -Aaron
>>>>>>>>
>>>>>>>> On Jul 10, 2009, at 8:35 AM, Matt Jones <jones at nceas.ucsb.edu> wrote:
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>>
>>>>>>>>> Aaron,
>>>>>>>>>
>>>>>>>>> When you do 'Save Archive', it creates a kar file on disk. Does it
>>>>>>>>> also add it to the Library, and does it check that semantic types have
>>>>>>>>> been assigned as the old 'Save in Library...' function did?
>>>>>>>>>
>>>>>>>>> Matt
>>>>>>>>>
>>>>>>>>> On Fri, Jul 10, 2009 at 7:31 AM, Aaron
>>>>>>>>> Schultz<aschultz at nceas.ucsb.edu>
>>>>>>>>> wrote:
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> It has been replaced by save archive
>>>>>>>>>>
>>>>>>>>>> -Aaron
>>>>>>>>>>
>>>>>>>>>> On Jul 10, 2009, at 8:05 AM, Shawn Bowers <sbowers at ucdavis.edu>
>>>>>>>>>> wrote:
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> Hi Chris,
>>>>>>>>>>>
>>>>>>>>>>> It looks like this is happening (possibly) because of changes to the
>>>>>>>>>>> StringParameter hierarchy, which now throw NPEs if no named object
>>>>>>>>>>> and
>>>>>>>>>>> name is given to the constructor. The semantic search functionality
>>>>>>>>>>> was written a while back (circa 2005), and not really used other
>>>>>>>>>>> than
>>>>>>>>>>> a prototype/demonstration. It could use revamping.
>>>>>>>>>>>
>>>>>>>>>>> I think I might have fixed it though. However, I cannot easily test
>>>>>>>>>>> this since the "Save in Library" functionality was removed, which
>>>>>>>>>>> would allow modified actors to be saved in the library, and then
>>>>>>>>>>> easily searched. Typically, I would add sem types to ports and then
>>>>>>>>>>> save them to the library. This would then allow me to search for
>>>>>>>>>>> actors using this dialog or using the "suggest compatible
>>>>>>>>>>> components"
>>>>>>>>>>> dialog.
>>>>>>>>>>>
>>>>>>>>>>> I've CC'd Aaron Schultz (a Kepler developer at NCEAS) who might know
>>>>>>>>>>> why this was removed, and whether similar functionality was added (I
>>>>>>>>>>> can't find it if it was). When I bring back the "Save in Library"
>>>>>>>>>>> (via uiContextMappings configs) I get exceptions for building KAR
>>>>>>>>>>> files ...
>>>>>>>>>>>
>>>>>>>>>>> [run] Exception in thread "AWT-EventQueue-0"
>>>>>>>>>>> java.lang.NullPointerException
>>>>>>>>>>> [run] at
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> org.kepler.kar.gui.SaveInLibraryDialog.determineKarFile(SaveInLibraryDialog.java:255)
>>>>>>>>>>> [run] at
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> org.kepler.kar.gui.SaveInLibraryDialog._saveCommand(SaveInLibraryDialog.java:371)
>>>>>>>>>>> [run] at
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> org.kepler.kar.gui.SaveInLibraryDialog.access$100(SaveInLibraryDialog.java:98)
>>>>>>>>>>> [run] at
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> org.kepler.kar.gui.SaveInLibraryDialog$1.actionPerformed(SaveInLibraryDialog.java:646)
>>>>>>>>>>> [run] at
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1882)
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> Shawn
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> On Tue, Jul 7, 2009 at 11:47 AM, Chris Weed<chrisweed at gmail.com>
>>>>>>>>>>> wrote:
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> What about the Semantic Search functionality?
>>>>>>>>>>>> This looks similar to what I am interested in, but when I try to do
>>>>>>>>>>>> a
>>>>>>>>>>>> search I get "No search criteria specified"
>>>>>>>>>>>> I really expect that this would return a result for the search I
>>>>>>>>>>>> specified.
>>>>>>>>>>>> Chris
>>>>>>>>>>>>
>>>>>>>>>>>> On Wed, Jul 1, 2009 at 1:48 PM, Shawn Bowers<sbowers at ucdavis.edu>
>>>>>>>>>>>> wrote:
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> Hi Chris,
>>>>>>>>>>>>>
>>>>>>>>>>>>> Most of the semantic annotation code is now a bit old (3-4 yrs),
>>>>>>>>>>>>> and
>>>>>>>>>>>>> was a prototype. Prior to this version we actually had an approach
>>>>>>>>>>>>> based on a SPARQL implementation, however, it was decided that
>>>>>>>>>>>>> Kepler
>>>>>>>>>>>>> should adopt an "object manager" approach, which stores actors and
>>>>>>>>>>>>> actor metadata (including semantic annotations of actors) using
>>>>>>>>>>>>> MoML
>>>>>>>>>>>>> and within a relational (in-memory) db. So, SPARQL wouldn't work
>>>>>>>>>>>>> for
>>>>>>>>>>>>> this, unless we went to an RDF approach for representing
>>>>>>>>>>>>> annotations,
>>>>>>>>>>>>> metadata, etc. Another problem with SPARQL (I think this is what
>>>>>>>>>>>>> you
>>>>>>>>>>>>> meant) at least from my experience is that it is more focussed on
>>>>>>>>>>>>> querying resources and their properties, and less useful for
>>>>>>>>>>>>> querying
>>>>>>>>>>>>> over class definitions. The latter requires a reasoner (like
>>>>>>>>>>>>> Pellet,
>>>>>>>>>>>>> Fact++, etc.). Finding actors based on their semantic types is all
>>>>>>>>>>>>> about matching class definitions, and not about searching for
>>>>>>>>>>>>> class
>>>>>>>>>>>>> instances.
>>>>>>>>>>>>>
>>>>>>>>>>>>> Anyway, we are currently in the process of revamping the
>>>>>>>>>>>>> annotation
>>>>>>>>>>>>> interfaces to make it easier and hopefully more obvious to folks
>>>>>>>>>>>>> that
>>>>>>>>>>>>> actors (and their ports) can be tagged (e.g., a draft plan for
>>>>>>>>>>>>> this
>>>>>>>>>>>>> is
>>>>>>>>>>>>> here:
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> https://kepler-project.org/developers/incubation/GUI/kepler-tagging).
>>>>>>>>>>>>> So far, zero Kepler actors have their ports annotated. But perhaps
>>>>>>>>>>>>> with some UI changes more actors will be annotated, etc. We are
>>>>>>>>>>>>> also
>>>>>>>>>>>>> making changes so that basic types of ontology creation and
>>>>>>>>>>>>> editing
>>>>>>>>>>>>> are exposed and available from within Kepler. Again, this might
>>>>>>>>>>>>> make
>>>>>>>>>>>>> the annotation capabilities more usable.
>>>>>>>>>>>>>
>>>>>>>>>>>>> If you would like to help with any of this (designing and/or
>>>>>>>>>>>>> implement
>>>>>>>>>>>>> ui's, designing apis, suggesting features, architecture,
>>>>>>>>>>>>> technology's,
>>>>>>>>>>>>> etc.) that would be awesome!
>>>>>>>>>>>>>
>>>>>>>>>>>>> Shawn
>>>>>>>>>>>>>
>>>>>>>>>>>>> On Wed, Jul 1, 2009 at 10:18 AM, Chris Weed<chrisweed at gmail.com>
>>>>>>>>>>>>> wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Hi,
>>>>>>>>>>>>>> I have a few questions about the semantic annotation
>>>>>>>>>>>>>> functionality.
>>>>>>>>>>>>>> I noticed in the semantic search browser it displays the
>>>>>>>>>>>>>> properties,
>>>>>>>>>>>>>> but I wasn't sure if it used that for doing searches.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Also, I was looking through the code for performing the semantic
>>>>>>>>>>>>>> actor
>>>>>>>>>>>>>> suggestion,
>>>>>>>>>>>>>> and it looks like it uses a hand-coded matching algorithm instead
>>>>>>>>>>>>>> of
>>>>>>>>>>>>>> a
>>>>>>>>>>>>>> SQARQL
>>>>>>>>>>>>>> based inference engine. Would it make sense to update this
>>>>>>>>>>>>>> functionality
>>>>>>>>>>>>>> which would allow more sophisticated searches with properties.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Chris
>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>> Kepler-users mailing list
>>>>>>>>>>>>>> Kepler-users at kepler-project.org
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> http://mercury.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-users
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> _______________________________________________
>>>>>>>>>> Kepler-users mailing list
>>>>>>>>>> Kepler-users at kepler-project.org
>>>>>>>>>> http://mercury.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-users
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>> --
>>>>>>>>> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>>>>>>>>> Matthew B. Jones
>>>>>>>>> Director of Informatics Research and Development
>>>>>>>>> National Center for Ecological Analysis and Synthesis (NCEAS)
>>>>>>>>> UC Santa Barbara
>>>>>>>>> jones at nceas.ucsb.edu Ph: 1-907-523-1960
>>>>>>>>> http://www.nceas.ucsb.edu/ecoinfo
>>>>>>>>> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>
>>>> _______________________________________________
>>>> Kepler-users mailing list
>>>> Kepler-users at kepler-project.org
>>>> http://mercury.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-users
>>>>
>>>
>>
>
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