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From 01/02/2011 to 01/31/2011

02/01/2011

06:20 PM Bug #5248: downloading non-public kars from Search Components doesn't work
Jing patched the kepler repository tonight, and Component search against the kepler repository works. Closing. Derik Barseghian
06:05 PM Bug #5061: Report Design Panel needs fixing wrt event listening
I merged this fix a long time ago. Double checked with a few textareas tests on trunk just now. Works. Derik Barseghian
06:02 PM Bug #4524: no prompt to save a changed report
I merged a long time ago. Just tried and works on trunk, closing. Derik Barseghian
05:54 PM Bug #5091: Dragging and dropping report layout items NPEs
This seems to be caused by dragging a report layout item over a text-area. Derik Barseghian
04:07 PM Bug #5252: Plotting bugs
I have fixed items 1-4. 5 is sort of fixed; ports of definitely the wrong type (ie. (double for timestamp, double for... Sean Riddle

01/31/2011

03:52 PM Bug #5287 (Resolved): Remove the override of ActorMetadataKAREntryHandler
Currently, the fix to bug 5251 is implemented in the form of an override to org.kepler.kar.handlers.ActorMetadataKARE... Sean Riddle
02:37 PM Bug #5286 (Resolved): Remove the override of EntityTreeModel
Currently, the class ptolemy.vergil.tree.EntityTreeModel is being overridden in sensor-view. This is to allow it to s... Sean Riddle
02:29 PM Bug #5272: kepler 2.1 suite can not be started using 'ant run'
Fixed.
The trunk build can now run the kepler-2.1 branch.
I also branched the build (to build-area-2.1) so that we ...
David Welker
02:28 PM Bug #5251: using File->Open MoML... always opens model into Sensor Site view
Fixed in r26872.
Note: This is fixed with an override of the class org.kepler.kar.handlers.ActorMetadataKAREntryHand...
Sean Riddle
02:00 PM Bug #5285 (New): NPE on restart using newly created suite
User reports being unable to restart with their own suite that depends on the provenance suite:
"Debugging shows m...
Derik Barseghian
01:13 PM Bug #5129: adding and removing configuration properties could be made easier
I have sent an email to kepler-dev to get responses from people who have made configuration changes since Kepler 2.1.... David Welker
01:07 PM Bug #5282: Documentation updates for 2.2
Not doing a huge documentation review for 2.2. In the future, changes that affect the user experience and therefore t... David Welker
12:06 PM Bug #5049: Prompt for credentials when connecting to remote kepler server
Prompting for credentials when connecting a WRM to a remote kar-store happens now, if the user has selected the 'auth... Derik Barseghian
12:03 PM Bug #5132: Connecting Workflow Run Manager to remote KAR store should prompt for credentials
Marking duplicate of bug#5049 Derik Barseghian

01/29/2011

06:28 PM Bug #5232: unable to open KARs saved beneath absent (e.g. third party) modules
Fixed at r26866.
ImportModuleDependenciesAction dialogs now offer a Force Open option.
Derik Barseghian
06:06 PM Bug #5272: kepler 2.1 suite can not be started using 'ant run'
Increasing importance, this has been getting in my way, and is likely to come up again soon for the two users who hav... Derik Barseghian

01/28/2011

02:00 PM Bug #5277: remove test servers from Sources preferences
Done at r26860. Derik Barseghian
09:37 AM Bug #5284 (New): Set uploadToServer to be true at configuration.xml
When we set up kepler run engine, we always have to change the value from false to true. Why we set it to be false? I... Jing Tao

01/27/2011

01:49 PM Bug #4516: Module Manager needs ability to install modules needed by KARs
I did work on this for bug#5099 . Attempting to open a kar with unsatisfied mod deps now prompts the user to download... Derik Barseghian
12:26 PM Bug #5120: Provide a toggle for automatic updates
David implemented a toggle for checking for patches on startup, should this be closed now? Was a conclusion reached w... Derik Barseghian
05:01 PM Bug #5248: downloading non-public kars from Search Components doesn't work
So we don't forget: the changes to always use authenticated query and gets necessitate a fix to an xslt file --Jing f... Derik Barseghian

01/26/2011

01:57 PM Bug #5272: kepler 2.1 suite can not be started using 'ant run'
Another user tried to build kepler execution eninge base on kepler-2.1
but he get the same error.
Jing Tao
11:32 AM Bug #5283: UI for saving workflows as xml is confusing
We discussed this extensively before 2.1. My 2 cents:
The main issue is that the xml format is incomplete and does ...
Matt Jones
11:24 AM Bug #5283 (Resolved): UI for saving workflows as xml is confusing
The following comments were relayed to me by a group of users running Kepler 1.0, and trying 2.x for the first time:
...
Daniel Crawl
11:31 AM Bug #5129: adding and removing configuration properties could be made easier
I'm reopening this -- now that this directive solution has been implemented, someone needs to utilize it to update th... Derik Barseghian
11:23 AM Bug #5282 (Resolved): Documentation updates for 2.2
Docs need to be updated for 2.2 Derik Barseghian
11:19 AM Bug #5281 (New): cannot open 1.0 KARs
KARs created in Kepler 1.0 cannot be opened.
An example is 04-HelloWorld.kar in the outreach module:
[run] WARN...
Daniel Crawl
11:18 AM Bug #5280 (Resolved): missing command line execution for KAR files
KAR files cannot be used with kepler.sh.
The workflow in a KAR cannot be run with any of the -gui/-nogui, -cache/-...
Daniel Crawl
11:14 AM Bug #5279 (Resolved): HSQL databases use default account
The HSQL databases should not use the default account name and password. Daniel Crawl
11:12 AM Bug #5278 (Resolved): HSQL database is shared between users
Kepler starts an HSQL database server so that multiple instances of Kepler can run on the same machine. (For more inf... Daniel Crawl
04:49 PM Bug #5277 (Resolved): remove test servers from Sources preferences
Before release we need to remove the test server options from Components and Data search. Derik Barseghian
04:30 PM Bug #4430: hsql database name and port in Kepler should be configurable
The ports and names are set in the configuration files:
common/resources/configurations/configuration.xml
core/resou...
Daniel Crawl
04:15 PM Bug #5276: component search performance is poor
Components search can also fail because of a java.lang.OutOfMemoryError. Here are two examples stacktraces
searching...
Derik Barseghian

01/25/2011

03:33 PM Bug #5248: downloading non-public kars from Search Components doesn't work
no-frills fix in r26836.
Going to test/talk with jing and matt before closing.
Derik Barseghian

01/24/2011

02:37 PM Bug #5274: Trying to schedule workflow with report layout puts up prompt about no report layout
The problem is when kepler evaluated the type in a kar entry, it used "equals" "ReportLayout". When we uses "contains... Jing Tao
02:21 PM Bug #5276 (New): component search performance is poor
Searching for remote KARs through the Components pane is very slow -- search downloads and deals with karXML, each ge... Derik Barseghian
02:10 PM Bug #5248: downloading non-public kars from Search Components doesn't work
Discussed with Matt, I'll take this one. Derik Barseghian
10:29 AM Bug #4324: ptII/module-info/revision.txt not being updated
I also added the same information as above to the Kepler Project wiki: https://kepler-project.org/developers/referenc... Sean Riddle
10:25 AM Bug #4324: ptII/module-info/revision.txt not being updated
A cron job has been started on lore.genomecenter.ucdavis.edu to run 'ant validate-ptolemy' every midnight. The revisi... Sean Riddle

01/21/2011

01:07 PM Bug #5275: Executing sensor-view workflow records provenance
Works. On import provenance turns off, and attempting to turn it back on, even during execution of sensor workflow, i... Derik Barseghian
12:34 PM Bug #5275: Executing sensor-view workflow records provenance
Should be fixed. Derik, please check. Daniel Crawl

01/20/2011

09:11 PM Bug #5248: downloading non-public kars from Search Components doesn't work
A) I don't believe it makes sense to have non-public entries showing up in the public searches. I can see how this er... ben leinfelder
06:07 PM Bug #5248: downloading non-public kars from Search Components doesn't work
My changes in r26708 are probably worth looking at when looking at this bug. Derik Barseghian

01/19/2011

03:37 PM Bug #5275 (Resolved): Executing sensor-view workflow records provenance
Executing a sensor view workflow isn't supposed to record data to provenance because the director is DE.
Replicate...
Derik Barseghian
03:01 PM Bug #5153: Save As... closes all windows associated with a workflow
Pushing further investigation on this enhancement to 2.3. As reported by Aaron, this does not appear to be a current ... David Welker
01:08 PM Bug #5263: failure to restart after upgrade from 2.0 to 2.1
Added documentation. This should not be a problem going forward, due to a change in how the module manager works. David Welker
12:44 PM Bug #4801: out of memory
Postponing to 2.3. David Welker
12:43 PM Bug #5249: test kepler for memory leaks
Postponing to 2.3. David Welker
12:43 PM Bug #4642: memory usage & slowdowns
Postponing to 2.3. David Welker
12:41 PM Bug #5258: kepler start exception when soft links are in KeplerData/workflows/MyWorkflows
Since this is an obscure problem that isn't likely to occur in the normal use of Kepler, postponing. David Welker
12:27 PM Bug #5272: kepler 2.1 suite can not be started using 'ant run'
It might not be a block for kepler 2.2 installation package release. But many users download kepler based on release-... jianwu jianwu

01/17/2011

05:43 PM Bug #5129: adding and removing configuration properties could be made easier
I have added the ability to make what I call add directives. For example, in a module, if you add a new folder called... David Welker

01/14/2011

02:56 PM Bug #5219: problems when semantically annotating or tagging a composite actor
This is expected behavior. The tag bar displays all tags on the top-level
workflow. The semantic annotation pane, how...
Sean Riddle
02:47 PM Bug #4988: Instantiating a wf as a composite that has a tag doesn't work as expected
(In reply to comment #0)
> However if I tag a workflow, Save Archive it into my local repo workflows
> folder, then f...
Sean Riddle
08:43 AM Bug #5272: kepler 2.1 suite can not be started using 'ant run'
I will look into this bug soon. However, it certainly is not a release blocker for 2.2. Reclassifying. David Welker
04:07 PM Bug #5274 (Resolved): Trying to schedule workflow with report layout puts up prompt about no report layout
To reproduce:
create a workflow
create a report design
File-> Save to kar
Tools->Workflow Scheduler
Find and sel...
Derik Barseghian

01/12/2011

03:52 PM Bug #5272 (Resolved): kepler 2.1 suite can not be started using 'ant run'
Today, one partner tried to start Kepler 2.1 through build-area and failed.
We first tried the build-area at https...
jianwu jianwu
02:28 PM Bug #5260: Problems with unknown free-form tags
I fixed the ColoredListCellRenderer exception (r26677) and have not observed the other exception. Closing for now, un... Sean Riddle
01:45 PM Bug #5260: Problems with unknown free-form tags
(In reply to comment #2)
> Also when opening the kar with free-form tag that's no longer 'in the system'
> because of...
Sean Riddle
01:43 PM Bug #5260: Problems with unknown free-form tags
Thanks Sean. Things work for me too -- up until the very last step of the above procedure: when I click on different ... Derik Barseghian
12:57 PM Bug #5260: Problems with unknown free-form tags
Orphaned tags can now be properly deleted (as of r26636). After fixing the bug, I was unable to reproduce any of the ... Sean Riddle
02:10 PM Bug #5271 (New): No-gui mode needs a way to access private data source
When kepler normally executes a workflow which has actors to access the private data, kepler will prompt a login dial... Jing Tao

01/11/2011

02:00 PM Bug #5190: 6.0WorkingWithDatasets describes OPeNDAP but not DataTurbine actor
Added new DataTurbine actor documentation section to 6.0WorkingWithDatasets.
Whoever updates documentation for 2.2 re...
Derik Barseghian
02:11 AM Bug #5270 (Resolved): No menu bar and labels when non-default locale is set
When system's locale is set to other value than en_US, then Kepler starts without menu bar and buttons don't have lab... Tomasz Żok
05:02 PM Bug #5095: test kepler and wrp for memory leaks
based on the comments 22 and 23, I think it is really hard to fix all memory leaks in Kepler by the code freeze date ... jianwu jianwu

01/08/2011

04:43 PM Bug #5095: test kepler and wrp for memory leaks
Coming up to speed on this.
I've added a step-by-step example of using jvisualvm to find memory leaks. You can find...
Aaron Aaron

01/07/2011

10:20 AM Bug #5095: test kepler and wrp for memory leaks
I'm not that surprised that there is a memory leak in the GUI when
a simple model is run just in Ptolemy, outside of ...
Christopher Brooks
04:37 PM Bug #5095: test kepler and wrp for memory leaks
My tests show Kepler has memory leaks for "workflow open, execution and close" and "workflow open, edit and close". M... jianwu jianwu
05:07 AM Bug #5269: Selectordialog and Case actors do not work well together
RExpression converts the string array to a string scalar. Expression does not. Robert Weber
04:54 PM Bug #5269 (New): Selectordialog and Case actors do not work well together
The Selectordialog actor in Kepler outputs a strange sort of string array that cannot be cast or converted into a str... Robert Weber

01/06/2011

11:31 PM Bug #5191: GUI improvements to Save As
BTW - org.kepler.gui.util.ExtensionFileFilter is very similar to
diva.gui.ExtensionFileFilter.
I cleaned up a few cl...
Christopher Brooks
05:56 PM Bug #5191: GUI improvements to Save As
fixed at r26641.
Turns out Kepler has its own ExtensionFileFilter that I previously missed , which is different fro...
Derik Barseghian
05:14 PM Bug #5268 (New): Dragging modified version of Sinewave actor to canvas causes gui oddity
While testing http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5146 , I came across some gui strangeness. To replic... Derik Barseghian
05:04 PM Bug #5267 (New): Changing a ptolemy.kernel.util.Attribute in Kepler gui doesn't work
While testing http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5146 , I notice if I drag the Sinewave actor to canv... Derik Barseghian
04:55 PM Bug #5266 (Resolved): Two empty boxes inside Sinewave actor and other icon problems for attributes
While testing http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5146 , this bug was found.
From the Reporting suite...
Derik Barseghian
04:39 PM Bug #5146: modifying and saving the composite sinewave actor fails
Derik tested this too and it looks like the specific issue described here has been fixed. We noticed a few other fun... Aaron Aaron

01/05/2011

03:07 PM Bug #5146: modifying and saving the composite sinewave actor fails
i agreed to test this... Derik Barseghian
02:40 PM Bug #5095: test kepler and wrp for memory leaks
status update: after the check in yesterday at version 26623, now there is no big memory leak for window open and clo... jianwu jianwu
08:16 AM Bug #5265: Kepler 2.1.0 has omitted the Publish & subscribe actors from Ptolemy
I found my error (case sensitivity) and am now a happy camper. Sorry to have bothered you. Robert Weber
07:23 AM Bug #5265 (Resolved): Kepler 2.1.0 has omitted the Publish & subscribe actors from Ptolemy
This complementary pair of actors is not present in version 2.1.0 of Kepler for the Mac. I've been trying to "instant... Robert Weber
11:53 PM Bug #5101: Composite Actor windows show wrong title after workflow Rename
Aha, I finally tracked this down. The issue was that the Effigy for the ComponentEntity has a special StringAttribut... Aaron Aaron
04:09 PM Bug #5258: kepler start exception when soft links are in KeplerData/workflows/MyWorkflows
The open dialog now starts at the last used directory. Daniel Crawl

01/04/2011

03:22 PM Bug #5129: adding and removing configuration properties could be made easier
I have made changes to the configuration manager, so that any completely new configuration that is in the active modu... David Welker

01/03/2011

12:39 PM Bug #4693: Ability to save just a report instance
Sure it would be nice to have the File->Export PDF... option, same as File->Print...
Similarly it would be nice if th...
ben leinfelder
12:23 PM Bug #4693: Ability to save just a report instance
Trunk now has a working Save pdf button on the report viewer tab, but leaving this open for feedback -- should this b... Derik Barseghian
12:19 PM Bug #5087: Image report items aren't shown when original image path doesn't resolve
This was merged into trunk. Just tested, works. Derik Barseghian
12:03 PM Bug #4694: workflow run manager - differentiate imported runs
This is done. Derik Barseghian
12:00 PM Bug #5083: possible to save a kar that loses the report layout
This was merged into trunk.
Still need to look into removing stopgap.
Derik Barseghian
11:46 AM Bug #5164: Don't show Workflow Run Manager and tag workflow drop-down list on Schedule tab of Workflow Scheduler view
This bug is no longer relevant. Derik Barseghian
11:26 AM Bug #4473: Add WRM to bottom of report viewer for navigation
Closing this old bug. Derik Barseghian
 

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