Sounds great and works for me. Go forth... On Jul 13, 2009, at 3:21 PM, kepler-users-request at kepler-project.org wrote:
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Re: semantic actor suggestion (Chris Weed) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Mon, 13 Jul 2009 15:21:29 -0400 > From: Chris Weed <chrisweed at gmail.com> > Subject: Re: [kepler-users] semantic actor suggestion > To: Shawn Bowers <sbowers at ucdavis.edu> > Cc: "kepler-users at kepler-project.org" > <kepler-users at kepler-project.org> > Message-ID: > <359e4bf50907131221t1e401410scc3ce047dbbd4a7a at mail.gmail.com> > Content-Type: text/plain; charset=ISO-8859-1 > > 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 >>>> >>> >> > > > ------------------------------ > > _______________________________________________ > Kepler-users mailing list > Kepler-users at kepler-project.org > http://mercury.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-users > > > End of Kepler-users Digest, Vol 50, Issue 16 > ********************************************
