Kepler

01/30/2010

12:30 AM Bug #4715: Eclipse metadata in webservice module breaks eclipse project import

The webservice module is a special module which has a web service and its client code to execute kepler workflows. Th... jianwu jianwu

01/29/2010

05:29 PM Bug #4715 (Resolved): Eclipse metadata in webservice module breaks eclipse project import

The webservice module in SVN has eclipse .project and .classpath metadata files that do not get overwritten by runnin... Ayla Khan

04:35 PM Bug #4462: Component search in remote repositories not working

looks like each and every search result is being fully parsed, which then kicks off the data download for EML actors ... ben leinfelder

11:24 AM Bug #4462: Component search in remote repositories not working

Trying to search the kepler dev repository yielded the following errors:
[run] trying to clone tpc02-water-flo... Sean Riddle

04:18 PM Bug #4713: Eclipse build still broken

Dan's change that I committed in in r22681 should fix the eclipse build, it's worked for Dan, Ben and I. Derik Barseghian

11:23 AM Bug #4713 (Resolved): Eclipse build still broken

As mentioned on #kepler yesterday, the eclipse build is broken.
I get 20 Java Build Path Problems about project pt... Derik Barseghian

03:34 PM Bug #4701: Persistent Database needed in Core Module for LSID generation to prevent namespace updating on clean-cache

Done: the table is now in the persistent area for the core module. The connection parameters are in core's configurat... Daniel Crawl

12:25 PM Bug #4714 (Resolved): Adding actor documentation does not increment LSID

Adding documentation to an actor (through [actor context menu]->Documentation->Customize) does not increment the LSID. Sean Riddle

11:23 AM Bug #4712: Running Kepler from IntelliJ IDEA does not work

Running "ant eclipse" and then following the instructions at
https://kepler-project.org/developers/reference/kepler-a... Christopher Brooks

10:25 AM Bug #4712 (Resolved): Running Kepler from IntelliJ IDEA does not work

This is related to the fix for bugs 4705 and 4709 (the change to the way the ptolemy module is checked out and manage... Sean Riddle

08:41 AM Bug #4711 (Resolved): Problem with L.H. actor tree: ActorName,kar

In a clean checkout under Windows, I'm now seeing the
kar files listed in the left hand actor tree.
I see
-Actor... Christopher Brooks

01/28/2010

06:09 PM Bug #4710 (Resolved): RExpression fails to convert arrayType(niltype)

Create a workflow with 2 RExpressions. The first should output c(NA, NA). The second should take the output from th... Oliver Soong

05:49 PM Bug #4709 (Resolved): error updating ptolemy/src

Mark was trying the latest Kepler and ran into a problem with the build system. I believe he did a full checkout of ... Oliver Soong

05:45 PM Bug #4705: ant change-to -Dsuite=wrp gives error

This is fixed. Oliver Soong

01:16 PM Bug #4705: ant change-to -Dsuite=wrp gives error

This has to do with the changes to the ptolemy module that David made last night. He is working on a resolution. Chad Berkley

11:15 AM Bug #4705: ant change-to -Dsuite=wrp gives error

I get this as well with "change-to -Dsuite=kepler" at r22632. Sean Riddle

10:23 AM Bug #4705: ant change-to -Dsuite=wrp gives error

Oh, this is at r22632. Oliver Soong

10:00 AM Bug #4705 (Resolved): ant change-to -Dsuite=wrp gives error

Error: ptolemy is either not a suite or wasn't downloaded correctly.
ptolemy looks like it downloaded, svn returne... Oliver Soong

12:45 PM Bug #4322: Attempting to save changes to a workflow saved in a KAR file fails

Yeah, this still needs to get done. Will make sure to get it into the RC1 release. Aaron Aaron

12:42 PM Bug #4515: Finish and Document the Save/Open KAR file functionality

I think we can close this one now. All core save/open kar functionality has been completed. If we need better docum... Aaron Aaron

12:28 PM Bug #4483: Module dependencies in MoML files

Chad I've added code to ImportModuleDependenciesAction that rebuilds the library after new modules are downloaded. T... Aaron Aaron

10:50 AM Bug #4634: run archive causes NPE when building local repository

This got fixed somewhere along the line. Oliver Soong

10:49 AM Bug #4706 (New): support provenance in master-slave 2.0

provenance should be supported in Master-Slave 2.0. There should be an option on whether to firstly save provenance i... jianwu jianwu

10:38 AM Bug #4559: local repositories not showing up in components tree

Not sure when the last bit got fixed, but it seems to be working now. Oliver Soong

10:19 AM Bug #4682: losing reports from KARs

needed to ensure we were listening to all revisions of the named object.
reopen if the problem persists ben leinfelder

10:07 AM Bug #3072: Security issues with distributed execution

It can be configured by permission policy file at slave side. Users who start slave will know their requirements and ... jianwu jianwu

09:58 AM Bug #3069: start slave from gui

slave should be started in both GUI and command line way. Users may remotely login slave machine, start slave by comm... jianwu jianwu

09:51 AM Bug #3068: rmiregistry should be started programmatically

Users may start Kepler GUI at slave side. They also may only need to start slaveController especially when they can o... jianwu jianwu

01/27/2010

09:41 PM Bug #4682: losing reports from KARs

when I reopen the saved KAR I see that the model (TypedCompositeActor) NamedObj that issues the updateRevision() is a... ben leinfelder

07:49 PM Bug #4682: losing reports from KARs

i'm testing a Map-based ObjectManager implementation so that we don't end up with different namedObjs with the same L... ben leinfelder

03:24 PM Bug #4682: losing reports from KARs

Technically, I think the bug is fixed as of r22615. However, the fix only addresses the swapping reports half of the... Oliver Soong

12:32 PM Bug #4682: losing reports from KARs

I'm not seeing it called for any workflow that i open via a KAR.
It is called when I open a MOML xml file.
Something... ben leinfelder

11:46 AM Bug #4682: losing reports from KARs

I'm finally able to reproduce the bug. It requires a KAR file with a report that has a local LSID (i.e., the workflo... Oliver Soong

09:05 PM Bug #4662: roll revision vs. new object ID

This sounds like a WRP specific issue. Reassigning to Ben for the meantime.
Oliver the short answer to having Objec... Aaron Aaron

08:54 PM Bug #4559: local repositories not showing up in components tree

Oliver, can you recheck if this is still happening and close this bug if it is covered in other bugs or succinctly st... Aaron Aaron

08:42 PM Bug #4704: Generate XML for a KARFile

Shell code has been created in the core module: org.kepler.kar.karxml.KarXmlGenerator Aaron Aaron

08:42 PM Bug #4704 (Resolved): Generate XML for a KARFile

Create an XML string based on the Manifest and Entries of a KARFile.
See the example karxml file at the bottom of
... Aaron Aaron

06:02 PM Bug #4701: Persistent Database needed in Core Module for LSID generation to prevent namespace updating on clean-cache

Of those two options, I definitely vote for a 3rd database. One of the main reasons for the DB overhaul was to suppor... Derik Barseghian

04:53 PM Bug #4701 (Resolved): Persistent Database needed in Core Module for LSID generation to prevent namespace updating on clean-cache

The need to use a database table to generate new LSID revisions (ref bug 4633) spawned a new database table called LS... Aaron Aaron

05:13 PM Bug #4463: Grey out component names in the component library that can not be dragged to the canvas

It is unlikely we will need/want to do this in the future. Closing this bug. Aaron Aaron

05:07 PM Bug #4317: KAR's dependencies on modules need to be included in KAR metadata

A KAR's module dependencies are now included in the KAR manifest file and are accessible through the KARFile class. Aaron Aaron

05:04 PM Bug #1750: Allow KAR files to include jar/class files

It was agreed that the solution to this is to create a java utility for converting KAR files to Kepler modules. See ... Aaron Aaron

05:03 PM Bug #4702 (Resolved): KAR to module conversion utility

Create a utility that converts KAR files (version 1.0 and 2.0) to Kepler modules.
This was previously bug 1750. Aaron Aaron

04:54 PM Bug #4633: LSID conflicts

Closing this bug. Opening a new bug (bug 4701) with the one remaining task of moving the LSID_GENERATOR table. Aaron Aaron

04:21 PM Bug #4538: problems with KARs that contain tags from default ontologies

Seems like this got fixed a while back. Closing unless there are any objections. Sean Riddle

02:40 PM Bug #4700 (In Progress): Reminder Update Wiki information to reflect Kepler 2.0 release.

Update the information on the Wiki to include changes to Kepler in the 2.0 release. Remove any information in the Wik... debi staggs

02:39 PM Bug #4699 (In Progress): Reminder Bug Update FAQ to reflect Kepler 2.0 release

Update the FAQ with the 2.0 release features. Remove any statements in the FAQ that are outdated or no longer accurate. debi staggs

02:35 PM Bug #4458: test for moving kepler directory

Changing this to an enhancement request since this bug is for creating a test. Derik Barseghian

11:49 AM Bug #4697: Semantic Annotation does not increment LSID revision

This is more general. Semantically annotating a workflow does not increment the workflow's lsid revision. Derik Barseghian

11:28 AM Bug #4304: Progress monitor is blank when authenticating for KAR upload

Progress monitor has been replaced with a change in the mouse cursor to indicate that authentication is occurring. Sean Riddle

01/26/2010

07:46 PM Bug #4696: Title bar doesn't refresh after rename during Save Archive

bug in comment 1 is sort of fixed with r22611. Rename from canvas context menu will work (provenance will rename past... Derik Barseghian

06:46 PM Bug #4696: Title bar doesn't refresh after rename during Save Archive

Additional similar bug#2: if you Save Archive, rename, cancel on the save to kar, the workflow and title are renamed,... Derik Barseghian

06:10 PM Bug #4696: Title bar doesn't refresh after rename during Save Archive

original bug fixed in r22610.
additional bug described in comment 1 not yet fixed. Derik Barseghian

05:16 PM Bug #4696: Title bar doesn't refresh after rename during Save Archive

Also when you use the new Rename context menu item on the canvas, the listeners aren't notified, so the title bar ref... Derik Barseghian

04:33 PM Bug #4696 (Resolved): Title bar doesn't refresh after rename during Save Archive

If you File => Save Archive, rename your Untitled workflow, and then cancel on the save to kar dialog, the workflow's... Derik Barseghian

05:37 PM Bug #4194: Kepler should have the Continous and Modal domains

Done! The Continuous actors are available. It is possible to create
a Modal model.
See
https://kepler-project.org... Christopher Brooks

05:30 PM Bug #4697 (Resolved): Semantic Annotation does not increment LSID revision

If user gives a semantic annotation during Save Archive in ExportArchiveAction (see FIXME), I notice the LSID doesn't... Derik Barseghian

05:21 PM Bug #4673: past runs with workflows that get renamed don't reflect this

Fixed in r22607 Derik Barseghian

02:52 AM Bug #4630: creating and changing relations don't trigger LSID bump

Workflow LSID revision is now being updated when creating, editing, deleting, or moving relations. It is somewhat no... Aaron Aaron

01/25/2010

04:57 PM Bug #4304: Progress monitor is blank when authenticating for KAR upload

I don't think we will have this progress monitor anymore. The new solution is to use the wait cursor instead which i... Aaron Aaron

04:45 PM Bug #4570: dangling file handle for KARs

Fixed now, just needed to call the close() method on the KARFile after opening it. Aaron Aaron

02:38 PM Bug #4010: RExpression2 - tracking for backwards compatibility

Stupid Responses (SRs):
SR1 - you can change the "environment.txt" file in the r module to reflect the correct R_HOME... ben leinfelder

02:26 PM Bug #4010: RExpression2 - tracking for backwards compatibility

Ben ... sorry to ask stupid questions (SQs).
SQ1: I just removed R 2.9.0 from my system and now have R 2.10.1. Ho... Tom Parris

11:23 AM Bug #4673: past runs with workflows that get renamed don't reflect this

The reason there's the problem in 2) is that ExportArchiveAction does not notify KeplerGraphFrameSave listeners like ... Derik Barseghian

11:14 AM Bug #4538: problems with KARs that contain tags from default ontologies

Things had changed and the concept_label was no longer in the tags in the workflowRun. Sean added the concept_label b... Derik Barseghian

11:06 AM Bug #4479: Error messages are not imported during run import

This was fixed in r21366. Derik Barseghian

01/24/2010

08:08 PM Bug #4380: Removing LocalRepository does not remove actors from Ontologies

(In reply to comment #2)
> Fixed in rev 22588
*rev 22589 Aaron Aaron

08:07 PM Bug #4380: Removing LocalRepository does not remove actors from Ontologies

Fixed in rev 22588 Aaron Aaron

04:23 PM Bug #4362: component search performance

Since the search has been integrated into the Library Index and the Library no longer uses the ActorMetadata objects ... Aaron Aaron

04:18 PM Bug #4629: Undo doesn't roll LSID revision

Undo and redo actions now roll the revision of the lsid in workflows. As of rev 22588 Aaron Aaron

12:34 PM Bug #4581: Handle multiple revisions of components in the Component Library

This solution is working well now. Closing this bug. Aaron Aaron

01/22/2010

03:30 PM Bug #4694 (Resolved): workflow run manager - differentiate imported runs

Eric requests a way to differentiate imported runs ("husk runs") from those you actually ran. One idea is to change t... Derik Barseghian

11:03 AM Bug #4693 (In Progress): Ability to save just a report instance

Eric requests the ability to easily save just the report instance. This should probably be a 1 step process when you'... Derik Barseghian

01/21/2010

06:21 PM Bug #4682: losing reports from KARs

I lost another report. I started Kepler, loaded a KAR (that I had just been editing before restarting Kepler), added... Oliver Soong

05:10 PM Bug #4671: cannot export workflow runs when workflow has actors with <> in the names

retargeting to wrp - though perhaps it's a larger kepler issue? ben leinfelder

04:29 PM Bug #4673: past runs with workflows that get renamed don't reflect this

Correction to my last comment:
1) provenace renames past runs if you do a Save As.
2) If you do a Save Archive they o... Derik Barseghian

01:59 PM Bug #4689 (Resolved): Export run creates duplicate WorkflowRun files. Exporting it again gives none.

Oliver and I both have this problem after the big KAR change.
Aaron, I think you mentioned being aware of the dupli... Derik Barseghian

12:29 PM Bug #4686 (Resolved): update copyright statements

all files in the src tree need to either have copyrights added or existing copyrights updated before the release. Chad Berkley

12:13 PM Bug #4685 (Resolved): Create installers

Create the installers for the 2.0 release and pre-releases. Chad Berkley

12:04 PM Bug #4684 (Resolved): Release tracking bug

All the stuff to do before the release. One bug per task blocking this one. Chad Berkley

01/20/2010

08:02 PM Bug #4056: create developer documentation for svn configuration.

svnpropcheck expects text files as arguments. Below is a sample use:
bash-3.2$ cd /Users/cxh/src/kepler/util
bash-3... Christopher Brooks

06:48 PM Bug #4056: create developer documentation for svn configuration.

Thanks Christopher. It looks like I edited my ~/.subversion/config file a long time ago, but eclipse didn't automatic... Derik Barseghian

05:06 PM Bug #4056: create developer documentation for svn configuration.

I have notes about svn configuration at
http://chess.eecs.berkeley.edu/ptexternal/nightly/doc/coding/eclipse.htm#Subv... Christopher Brooks

04:51 PM Bug #4056: create developer documentation for svn configuration.

I wonder if we should create and ask developers to use a standard svn config file (can't remember how this works)?
Sh... Derik Barseghian

07:19 PM Bug #4673: past runs with workflows that get renamed don't reflect this

Looks like procedure in comment#2 is an additional problem -- I think provenance only renames prior runs of the same ... Derik Barseghian

05:10 PM Bug #4682 (Resolved): losing reports from KARs

I'm losing reports (still? again? I don't even know anymore). I'm
running r22544, with the modification to RExpre... ben leinfelder

04:45 PM Bug #4681 (Resolved): Check all file properties before release

See bug#4056 for background.
I think we need to go through all our files before release to make sure the appropria... Derik Barseghian

03:54 PM Bug #4631: Could use some way to change the "workflow name" stored in a KAR

Not exactly a duplicate of 4334, but that solves this. Oliver Soong

12:08 PM Bug #4126: Allow user CLASSPATH to be loaded in Kepler

This is not an issue with the new build system. Now, it is easy to include necessary jars used by actors or other cod... David Welker

01/19/2010

04:47 PM Bug #4673: past runs with workflows that get renamed don't reflect this

Ensure this procedure works as well before marking this bug fixed:
Aaron said:
Does this have something to do with t... Derik Barseghian

04:45 PM Bug #4679: Workflow Name in Workflow Run Manager is not updated when renaming workflow

dupe of 4673 Derik Barseghian

04:30 PM Bug #4679 (Resolved): Workflow Name in Workflow Run Manager is not updated when renaming workflow

Does this have something to do with the Provenance Database design? Perhaps it can be solved by adding a Name column... Aaron Aaron

03:14 PM Bug #4664: Fix and/or remove broken unit tests

All current tests now complete successfully. Chad Berkley

03:05 PM Bug #4334: Rename actor from canvas

Quite possibly, can you check? Aaron Aaron

03:02 PM Bug #4334: Rename actor from canvas

Does this also fix 4631 (which might have been a dup)? Oliver Soong

02:10 PM Bug #4334: Rename actor from canvas

I have added "Rename" menu item to the canvas context menu. This allows the user to rename a workflow without having... Aaron Aaron

09:58 AM Bug #4338: need to review usability and gui of module manager

I've finished reviewing this and I think it's working well now. I don't see any real problems with it. getting modu... Chad Berkley

01/15/2010

12:44 PM Bug #4671: cannot export workflow runs when workflow has actors with <> in the names

As a test, locally I changed the method to instead use a momlparser, but unfortunately the same error crops up in Kep... Derik Barseghian

12:39 PM Bug #4671: cannot export workflow runs when workflow has actors with <> in the names

Well, I'm not sure what the restrictions are on actor names other than no dots. I wouldn't mind others, but then the... Oliver Soong

12:17 PM Bug #4671: cannot export workflow runs when workflow has actors with <> in the names

can you just not use those characters in your names in this [heavily-XML-based] application?
I'm mostly being serious. ben leinfelder

11:57 AM Bug #4671: cannot export workflow runs when workflow has actors with <> in the names

The error I get is:
[Fatal Error] :66:19: The value of attribute "name" associated with an element type "entity" must... Derik Barseghian

10:52 AM Bug #4671: cannot export workflow runs when workflow has actors with <> in the names

In tpc09, it's nested in one of the composite actors. I think the one towards the bottom called structure/abundance ... Oliver Soong

11:58 AM Bug #4388: remove the ptII module

I've added the module-info to ptolemy. The build system now knows where to look for it so the ptII module is no long... Chad Berkley

10:29 AM Bug #4670: svn update fails to update module with modifications

I think I came up with a simpler fix to the original problem. I changed the SVN command that is run to have the --ac... Chad Berkley

10:12 AM Bug #4670: svn update fails to update module with modifications

This is not a bug, this is a feature.
The problem that this feature solves is that when you update and there is a co... David Welker

09:33 AM Bug #4670: svn update fails to update module with modifications

I successfully reproduced this. Here is what I tried:
cd build-area
ant update
ant update-ptolemy -Drev=head
vim ..... Chad Berkley

01/14/2010

10:59 PM Bug #4671: cannot export workflow runs when workflow has actors with <> in the names

this was for kruger tpc09?
Where was the actor with the ">" in the name?
This might be a larger ptolemy restriction a... ben leinfelder

05:25 PM Bug #4671 (Resolved): cannot export workflow runs when workflow has actors with <> in the names

Title says it all. This is at r22494. Oliver Soong

06:02 PM Bug #4674 (New): WorkflowRunManager search cells are catching tab keys wherever they occur

Basically if you hit the TAB key anywhere in Kepler, the Workflow Run Manager hears it and filters runs. Afaict this ... Derik Barseghian

05:51 PM Bug #4673 (Resolved): past runs with workflows that get renamed don't reflect this

If you export a run that is Unnamed1, you're prompted to give it a workflow name. If you name it, provenance renames ... Derik Barseghian

05:37 PM Bug #4672 (Resolved): Workflow title isn't refreshed during run export workflow rename

If you export a run that's Unnamed1, you're prompted to give the workflow a name. If you give it it a name, finish yo... Derik Barseghian

05:30 PM Bug #4281: ant update produces message about running svn cleanup

Actually, running "svn cleanup" does not fix this under Windows Server 2003.
To create a svn repository, what I did ... Christopher Brooks

05:10 PM Bug #4388: remove the ptII module

Reopening this bug because the ptII kepler module should be removed.
I'm all for putting kepler module info into the ... Christopher Brooks

05:00 PM Bug #4669: report layout changes, but text field displays previous content

This sounds like a problem with the text field value not properly being stored in the underlying ReportLayout model.
... ben leinfelder

04:57 PM Bug #4669: report layout changes, but text field displays previous content

I should also point out that Comment 1 is wrong about only clicking once. The double-click seems to cause a left-rig... Oliver Soong

04:55 PM Bug #4669: report layout changes, but text field displays previous content

Actually, it's even weirder. It only seems to happen with click-drag to select when moving from right to left, but n... Oliver Soong

04:53 PM Bug #4669: report layout changes, but text field displays previous content

Some more information. This seems to only happen if I only click in the text field once while changing it. Double-c... Oliver Soong

04:50 PM Bug #4669 (Resolved): report layout changes, but text field displays previous content

This is at r22494. I create a trivial workflow (SDF only, 1 iteration) and a report with a text field. I enter some... Oliver Soong

04:56 PM Bug #4670 (Resolved): svn update fails to update module with modifications

Under Mac OS 10.5, I ran svn update:
[update-modules] Updating ptII...
[update-modules] svn -r head update /Users... Christopher Brooks

04:37 PM Bug #4438: View: label shouldn't appear when there's no view drop-down menu

fixed in r22491. Derik Barseghian

01:42 PM Bug #1750: Allow KAR files to include jar/class files

This is a controversial design decision and should not be in 2.0.
Including jars in KAR files is NOT a feature. It i... David Welker

11:04 AM Bug #1750: Allow KAR files to include jar/class files

Umm, you're right. I was triaging bugs and made a couple mistakes. I'll put this back to 2.0. Chad Berkley

08:59 AM Bug #1750: Allow KAR files to include jar/class files

did i miss something yesterday? - we are dropping a feature that was in 1.0.
(In reply to comment #15)
> This can be... ben leinfelder

11:34 AM Bug #4179: ant jar does not include configs/

I added the configs/ dir to the jar for the common module only. Chad Berkley

10:08 AM Bug #4549: String Replace actor "remembers" previous execution values

[i know you think i didn't test it, but i did...that's confusing since now it is erring for me, too]
How should this ... ben leinfelder

09:54 AM Bug #4549: String Replace actor "remembers" previous execution values

A test is failing with this change:
------------------ testing $PTII/ptolemy/actor/lib/string/test/auto/StringReplac... Christopher Brooks

09:39 AM Bug #4549: String Replace actor "remembers" previous execution values

added a check for the channel width.
ran the tests - passed.
committed r56911
Now the actor will not fire if there i... ben leinfelder

09:57 AM Bug #4480: can't view more than one of workflow editor, report designer, and report viewer at a time

save for later as open... ben leinfelder

09:47 AM Bug #4480: can't view more than one of workflow editor, report designer, and report viewer at a time

This would be part of an entire Kepler UI redesign. ben leinfelder

01/13/2010

10:12 PM Bug #4668: Documentation for event-state module

created wiki page with explanation and example code:
https://kepler-project.org/developers/reference/using-event-stat... ben leinfelder

03:24 PM Bug #4668 (Resolved): Documentation for event-state module

Need developer-level documentation for how to use the even-state module in other modules. ben leinfelder

06:38 PM Bug #4505: NPE from Semantic Search

fixed in r22488, semantic search can return results now. Derik Barseghian

04:31 PM Bug #4505: NPE from Semantic Search

The error for this is now:
java.lang.NullPointerException
at org.kepler.objectmanager.ActorMetadata.getActorAsNamedO... Derik Barseghian

04:36 PM Bug #4194: Kepler should have the Continous and Modal domains

I can at least get the Continuous domain in place for 2.0.0.
I was looking at how to do this, and I've not yet found... Christopher Brooks

04:24 PM Bug #4659: Importing run gives a ClassCastException

fixed in r22486.
problem was in WorkflowRun convertStringToWorkflowRun -- derivedFrom attribute was being created as... Derik Barseghian

04:12 PM Bug #4629: Undo doesn't roll LSID revision

Problems with LSIDs not getting updated properly need to be solved before 2.0.0 Aaron Aaron

03:58 PM Bug #4503: Suggest Similar Components gives an error

Maybe we should disable this feature for 2.0? Was it in 1.0? Chad Berkley

03:51 PM Bug #4347: Reminder "bug" for manual testing before 2.0 release

will rework this into a release bug Chad Berkley

03:46 PM Bug #4439: reporting displays output for a different actor

oh, neat! ben leinfelder

03:45 PM Bug #4439: reporting displays output for a different actor

It now prints an error message to stdout and in the report for any unresolved references. Daniel Crawl

03:37 PM Bug #4373: Copyright Statements are Inconsistent

Will do this as part of the release process. Chad Berkley

03:36 PM Bug #4317: KAR's dependencies on modules need to be included in KAR metadata

this can be pushed to post 2.0 Chad Berkley

03:35 PM Bug #4483: Module dependencies in MoML files

This visual icon is in the tree. Downloading now works when you right click on the item and tell it to get the depen... Chad Berkley

03:31 PM Bug #1750: Allow KAR files to include jar/class files

This can be talked about further after the 2.0 release. Chad Berkley

03:30 PM Bug #4322: Attempting to save changes to a workflow saved in a KAR file fails

Fix this after 4515 is done. Chad Berkley

03:28 PM Bug #4341: rearrange the actors module into smaller modules

pushing this to post-2.0. At this point, I don't think 2.0 should require this. Chad Berkley

03:25 PM Bug #4304: Progress monitor is blank when authenticating for KAR upload

this should be fixed with the kar saving functionality that aaron is adding (bug 4515) Chad Berkley

02:52 PM Bug #4642: memory usage & slowdowns

I've done some refactoring of the WRM so that I'm no longer creating so many runs so frequently -- hopefully this wil... Derik Barseghian

02:51 PM Bug #3976: Update Documentation for 2.0 release

Assigning to Debi. Chad Berkley

02:51 PM Bug #4316: re-evaluate how kars are managed in the build and runtime

KARs will not be checked into SVN for the forseable future. Closing this bug. We can reopen it at a later time if t... Chad Berkley

02:49 PM Bug #4667 (In Progress): New documentation on modules and extension points for modules

Should include information on the config system, karentryhandlers, viewpanes,
adding icons to the config, etc. See ... Chad Berkley

02:45 PM Bug #4666 (Resolved): identify problems with converting .kepler-1.0 to .kepler-2.0

Need to go through the kepler 1.0 version of .kepler and identify any problem areas that might crop up in converting ... Chad Berkley

02:39 PM Bug #4665 (Resolved): Add unit tests for kar functionality

Build a junit test framework for at least the basic functionality of the KAR subsystem. Chad Berkley

02:37 PM Bug #4664 (Resolved): Fix and/or remove broken unit tests

Go through the unit test suite and get all tests to run. remove any tests that are no longer relevant and make the r... Chad Berkley

02:33 PM Bug #4506: Exception is thrown during workflow execution

Seems like a workflow bug, not a kepler bug. Chad Berkley

02:30 PM Bug #4482: JRE Exception Access Violations

probably machine specific. not a kepler bug. Chad Berkley

02:28 PM Bug #4350: Integrity constraint violation - no parent SYS_FK_59 table - during _first_ startup

The cache directory just needs to be cleaned. Chad Berkley

02:09 PM Bug #4340: Resolve KAR file/module format

We have now done this, as far as the 2.0 release is concerned. the KAR and module format will remain separate with k... Chad Berkley

12:28 PM Bug #4634: run archive causes NPE when building local repository

Oh, the part about archives not showing up is from bug 4559. This might have gotten fixed by something else along th... Oliver Soong

12:06 PM Bug #4634: run archive causes NPE when building local repository

Disclaimer: I haven't used the Build button often.
I just tried this on r22478, and don't get the error, but if the... Derik Barseghian

12:17 PM Bug #4587: Assure a clean cache when module configuration changes

Fixed in r22479. Sean Riddle

10:41 AM Bug #4179: ant jar does not include configs/

I found another bug (feature maybe?) with the jar task. the resources/configuration directory gets put at the root o... Chad Berkley

01/12/2010

11:33 PM Bug #4549: String Replace actor "remembers" previous execution values

Unfortunately, this fix causes one of the tests to fail:
------------------ testing $PTII/ptolemy/actor/lib/string/t... Christopher Brooks

11:11 PM Bug #4549: String Replace actor "remembers" previous execution values

changed in the ptolemy code to not fire the old token if a new one did not exist ben leinfelder

10:15 PM Bug #4311: Build system appears to lock if there is a conflict upon update

I have looked into the CommandLine.java class more with Oliver Soong, and am going to try to hook process so that one... David Welker

08:24 PM Bug #4311: Build system appears to lock if there is a conflict upon update

Fixed. Now, modules that have local modifications are not updated and an appropriate WARNING is given.
As far as Oli... David Welker

05:18 PM Bug #4663: Tag shows up in workflow moml when it shouldn't

I suspect this is to do with the building of the KAR, probably with the way the workflow is fetched out of the Object... Derik Barseghian

04:54 PM Bug #4663 (Resolved): Tag shows up in workflow moml when it shouldn't

This may not be a tagging bug but a bug in a provenance query or in KAR building -- sometimes a tag that shouldn't be... Derik Barseghian

05:15 PM Bug #4559: local repositories not showing up in components tree

At this point, KAR files in local repositories are not ending up in the components tree when they are first added. T... Oliver Soong

05:10 PM Bug #4560: can't remove local repositories

And closing. Oliver Soong

05:09 PM Bug #4560: can't remove local repositories

This seems to work now. Oliver Soong

05:04 PM Bug #4570: dangling file handle for KARs

Ben said to do this. Oliver Soong

04:16 PM Bug #4656: Build system needs javadocs

I added javadocs to all build-area classes. Did some minor refactoring and
reformatting as well. Rendered Javadocs ... Chad Berkley

04:11 PM Bug #4662 (Resolved): roll revision vs. new object ID

My current auth namespace is 3371. I have a file with an old auth namespace of 1347. If I open the XML file, view L... Oliver Soong

11:16 AM Bug #4660 (Resolved): Clicking in a section header highlights all the text.

I have a section header with some text in it and I want to change that text. If I click on it, it highlights all of ... Oliver Soong

01/11/2010

05:49 PM Bug #4659: Importing run gives a ClassCastException

I don't think it's related, but I'll keep that in mind when I look into this.
To replicate:
- change-to and launch ... Derik Barseghian

01:44 PM Bug #4659: Importing run gives a ClassCastException

The could be from my fix to bug #4547
http://bugzilla.ecoinformatics.org/show_bug.cgi?id=4547
The change is that Doc... Christopher Brooks

12:29 PM Bug #4659 (Resolved): Importing run gives a ClassCastException

If you try to Open Archive a KAR containing a workflow run that needs to be added to provenance, you get a ClassCastE... Derik Barseghian

12:26 PM Bug #4516: Module Manager needs ability to install modules needed by KARs

I changed this around a bunch so it is now done in the GUI instead of on kepler startup. When a module-dependencies:... Chad Berkley

08:39 AM Bug #4439: reporting displays output for a different actor

I'm thinking you'd still want the report to render if al but one reference were valid, right? Maybe just a warning th... ben leinfelder

08:36 AM Bug #4439: reporting displays output for a different actor

Why not just check that everything mentioned in the ROML exists just before you create the report (i.e., after execut... Oliver Soong

12:39 AM Bug #4652: clicking rows in the wrm no longer updates the report designer/viewer

no difference, I simply missed checking in part of the fix initially Derik Barseghian

01/10/2010

11:03 PM Bug #4547: documentation for file parameter includes an error

Fixed. Changed DocAttribute.description from a StringParameter to a StringAttribute so that Kepler does not report er... Christopher Brooks

10:24 PM Bug #4439: reporting displays output for a different actor

i suppose we could be listening for the MOML change request that deletes actors/ports/parameters that are referenced ... ben leinfelder

10:21 PM Bug #4652: clicking rows in the wrm no longer updates the report designer/viewer

what was the difference for linux? ben leinfelder

01/08/2010

06:42 PM Bug #4652: clicking rows in the wrm no longer updates the report designer/viewer

fixed in r22437. Derik Barseghian

06:27 PM Bug #4652: clicking rows in the wrm no longer updates the report designer/viewer

r22436 fixed this on my mac build, but it's not working on linux... Derik Barseghian

03:32 PM Bug #4439: reporting displays output for a different actor

I've updated provenance to handle these types of renames.
It might be nice if reporting displayed an error or warnin... Daniel Crawl

02:16 PM Bug #4311: Build system appears to lock if there is a conflict upon update

I'm not clear why option 2 is so complicated. Just pass stdin, stdout, and stderr from svn to ant. I don't expect a... Oliver Soong

01:49 PM Bug #4311: Build system appears to lock if there is a conflict upon update

If an error is printed, I'd be fine with it. Right now, it appears to hang and does not give any further output. Chad Berkley

01:41 PM Bug #4311: Build system appears to lock if there is a conflict upon update

A couple of things. First, there are two alternative things we could mean by "fixing" this issue: (1) Print out the e... David Welker

12:45 PM Bug #4311: Build system appears to lock if there is a conflict upon update

I still don't think it really affects the user experience, but it's happened to me enough times to be annoying so I c... Chad Berkley

12:38 PM Bug #4311: Build system appears to lock if there is a conflict upon update

I was curious what the basis of your opinion that this should be done before 2.0 is? This is functionality to make li... David Welker

10:15 AM Bug #4311: Build system appears to lock if there is a conflict upon update

This bug has happened to me exactly the way that Oliver has described on many occasions. It should be fixed prior to... Chad Berkley

09:52 AM Bug #4311: Build system appears to lock if there is a conflict upon update

The problem is that it never fails to complete. Normally on a conflict, svn outputs some information and blocks for ... Oliver Soong

01:46 PM Bug #4653: error message says "data cloumn"

search. replace. done. ben leinfelder

01:37 PM Bug #4655: data packages are suddenly unusable

dan fixed it ben leinfelder

12:39 PM Bug #4655: data packages are suddenly unusable

the cached data files are set as a data source for HSQL tables (SET TEXT....SOURCE) - but the path to the hsqldb was ... ben leinfelder

12:53 PM Bug #4516: Module Manager needs ability to install modules needed by KARs

tagged my current work here: https://code.kepler-project.org/code/kepler/tags/berkley-20100108-checkpoint-kar_can_dow... Chad Berkley

12:49 PM Bug #4516: Module Manager needs ability to install modules needed by KARs

There should always be user input when downloading new modules. Imagine that you are running the Kepler suite, then ... Aaron Aaron

12:40 PM Bug #4516: Module Manager needs ability to install modules needed by KARs

Couple more issues here:
* I should have used the MANIFEST/dependsOnModule attribute instead of including a modules.... Chad Berkley

12:19 PM Bug #4516: Module Manager needs ability to install modules needed by KARs

How does appending modules to modules.txt ensure the same environment that an actor was running in?
This is going to... David Welker

11:59 AM Bug #4516: Module Manager needs ability to install modules needed by KARs

The active modules.txt file is now appended with any information from the kar's modules.txt file. Note that this cou... Chad Berkley

10:58 AM Bug #4516: Module Manager needs ability to install modules needed by KARs

Kar files can now include a modules.txt file which will be processed by the ModuleDownloader. Any modules/suites in ... Chad Berkley

11:02 AM Bug #4656 (Resolved): Build system needs javadocs

The build system is lacking a lot of documentation. Javadocs should be added for (at least) all public methods and c... Chad Berkley

10:19 AM Bug #4108: Do more extenstive testing before designating a revision of Ptolemy as stable

I don't think this bug should be closed. I'm changing it to be a lower priority but reopening it. I think that ther... Chad Berkley

01/07/2010

08:12 PM Bug #4311: Build system appears to lock if there is a conflict upon update

Are you saying that when the update failed to complete, it did not say why? That is unusual. Can you reproduce this e... David Welker

07:57 PM Bug #4311: Build system appears to lock if there is a conflict upon update

I'm not so sure it's a good idea to ignore this. This happened to Mark, Regetz, and me. None of us had made any loc... Oliver Soong

07:24 PM Bug #4311: Build system appears to lock if there is a conflict upon update

The solution to this problem is not in the build system. You should do the update manually if you have made changes. David Welker

07:59 PM Bug #4388: remove the ptII module

There is no good way to remove the ptII suite without changes to the ptolemy module. This is not currently in the car... David Welker

07:52 PM Bug #4281: ant update produces message about running svn cleanup

I agree that this bug should be closed. "ant update" is a convenience method which allows one to avoid having to run ... David Welker

07:47 PM Bug #4280: ant task fails under Windows

Again, "ant task" is a convenience short cut for:
ant -f kepler-tasks.xml
Therefore, I do not intend on devoting an... David Welker

07:44 PM Bug #4264: ant task fails if there are java compilation errors

"ant task" is a convenience method. It never needs to be invoked.
If "ant task" fails, the solution is to type:
ant... David Welker

07:40 PM Bug #4260: Add a test suite for the build system

I think this is overkill and not a good use of resources. Problems in the build system tend to be detected immediatel... David Welker

07:22 PM Bug #4108: Do more extenstive testing before designating a revision of Ptolemy as stable

Additional testing before designating a version of Ptolemy as "stable" is unnecessary. Closing this bug. David Welker

07:21 PM Bug #4202: typos in modules.txt are ignored

The contents of modules.txt is now verified. Missing/mispelled modules now cause an error message to appear. David Welker

07:18 PM Bug #4353: Update publishing to allow for patches.

This is now implemented. David Welker

07:14 PM Bug #4351: ant netbans fails due to missing file

This bug no longer occurs. David Welker

07:12 PM Bug #4286: Changes to the GUI before 2.0

There are only minor changes left before 2.0. This bug is no longer needed. David Welker

07:03 PM Bug #4082: New user guide section on modules/module manager

Please assign bugs to welker4kepler@gmail.com when assigning bugs to me only.
I have documented module manager funct... David Welker

07:00 PM Bug #4382: Remove switching between kepler and ptolemy

It is no longer possible to launch Ptolemy from the Kepler module manager. This reinforces the separateness of the tw... David Welker

06:58 PM Bug #4650: module manager tries to download already downloaded modules

Modules that are retrieved are not removed from the available modules pane. Instead, they are added to the "Downloade... David Welker

11:20 AM Bug #4650 (Resolved): module manager tries to download already downloaded modules

After downloading a module, that module should be removed from the "available modules" list. If a user tries to down... Chad Berkley

06:23 PM Bug #4655 (Resolved): data packages are suddenly unusable

For some reason, EML 2 Dataset actors are not outputting any tokens for most output formats. The data exists at .kep... Oliver Soong

06:09 PM Bug #4654: searching KNB through Kepler returns many console errors and caching fails

It's looking like I managed to completely screw up my cache. A clean-cache fixed things.
Basically, I was signing i... Oliver Soong

05:44 PM Bug #4654 (Resolved): searching KNB through Kepler returns many console errors and caching fails

This is at r22407 under linux. Things seem to work, but the cache content is all blank (files are all of size 0). Oliver Soong

05:13 PM Bug #4653 (Resolved): error message says "data cloumn"

The data cloumn didn't match head column Oliver Soong

04:55 PM Bug #4652 (Resolved): clicking rows in the wrm no longer updates the report designer/viewer

If I have multiple entries in the wrm and I click on different rows, the report designer and viewer no longer automat... Oliver Soong

10:01 AM Bug #4516: Module Manager needs ability to install modules needed by KARs

I've now split the module manager into two modules. module-manager now has basic classes for downloading modules. m... Chad Berkley

01/06/2010

11:36 AM Bug #4161: Develop kepler workflow execution engine

installed on my local system - did a roundtrip:
-upload workflow+report
-schedule
-wait
-view PDF report when complet... ben leinfelder

01/05/2010

04:08 PM Bug #4161: Develop kepler workflow execution engine

stylesheet issue on the Metacat side of things -- now fixed. ben leinfelder

11:40 AM Bug #4161: Develop kepler workflow execution engine

script-based execution still works. There's a slight problem on the Metacat side for the first MOML DTD...but that's ... ben leinfelder

03:09 PM Bug #4648 (Resolved): Create classes to find and display any available documentation for installed modules or suites.

Create classes to find and display the available documentation for installed modules or suites. debi staggs

03:06 PM Bug #4647 (Resolved): Write documentation for Reporting in the style of Kepler Docs

Write the user documentation for the WRP suite, using the same style as the rest of the Kepler documentation. debi staggs

11:31 AM Bug #4538: problems with KARs that contain tags from default ontologies

(In reply to comment #2)
> this looks wrong:
> <property name="semanticType" class="org.kepler.sms.SemanticType"
> va... Sean Riddle

10:09 AM Bug #4538: problems with KARs that contain tags from default ontologies

this looks wrong:
<property name="semanticType" class="org.kepler.sms.SemanticType"
value="urn:lsid:lsid.ecoinformati... ben leinfelder

10:05 AM Bug #4453: tags don't show up in snow leopard (10.6)

this is working for me on snow leopard ben leinfelder

10:04 AM Bug #4480: can't view more than one of workflow editor, report designer, and report viewer at a time

retargeting to post-2/wrp ben leinfelder

09:43 AM Bug #4618: First export of a run doesn't yield KAR with ROML

in the name of upcoming code freeze, I'm thinking this can be closed. ben leinfelder

01/04/2010

02:47 PM Bug #4516: Module Manager needs ability to install modules needed by KARs

I added a karEntryHandler for modules.txt files. I'm going to add a method to the module manager sot hat the entryHa... Chad Berkley

01/03/2010

12:26 PM Bug #4547: documentation for file parameter includes an error

Viewing the documentation for FileParameter works fine in the ptII tree,
but fails in Kepler, probably because of som... Christopher Brooks