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From 09/03/2009 to 10/02/2009

10/02/2009

05:43 PM Bug #4327: Workflow Run Manager - ability to import run archives
This is basically working now, for run-archives as they currently exist (run metadata, workflow, report artifacts).
Y...
Derik Barseghian
05:17 PM Bug #4346: Searching for Saved Archive (KAR) workflow in default workflow folder gives error
Recent changes to search should have fixed this. I don't see this error now. Aaron Aaron
05:08 PM Bug #4424: KeplerLSID should implement hashCode
hashCode is implemented now, there's a JUnit test called KeplerLSIDTest that shows the contains method is working pro... Aaron Aaron

10/01/2009

04:50 PM Bug #4400: Parameters should be able to be dragged onto a report
Provenance can now look up _workflow_ parameters (not just actor parameters). ben leinfelder
07:23 AM Bug #4324: ptII/module-info/revision.txt not being updated
revisions.txt has not been updated since 9/17.
bash-3.2$ svn log ptII/module-info/revision.txt
svn log ptII/module-...
Christopher Brooks

09/30/2009

04:34 PM Bug #4321: Semantic types on workflows saved into library not searchable
OK, so the search is now implemented as I believe we want it to be implemented. It is currently a very slow way to d... Aaron Aaron
04:02 PM Bug #4338: need to review usability and gui of module manager
We also need to check:
1) whether the module manager can display new suites as they are published, switch suites eas...
jianwu jianwu
03:37 PM Bug #4425: problem with Open Archive with run KAR created in same session
fixed in r20834. However see bug #4431. Derik Barseghian
03:37 PM Bug #4431 (New): Export Archive actions should share code where possible
There should be a class with common gui-free export functionality that resides in core (or the like), that files like... Derik Barseghian
03:20 PM Bug #4430 (Resolved): hsql database name and port in Kepler should be configurable
I can't start Kepler GUI when I have hadoop server running. It complains:
Caused by: java.sql.SQLException: Failed...
jianwu jianwu
01:43 PM Bug #4429 (New): EML 2 Dataset requires File Extension Filter parameter
I'm not 100% sure this isn't just a lack of documentation. When using EML 2 Dataset on a compressed data table (so u... Oliver Soong

09/29/2009

05:50 PM Bug #4425 (Resolved): problem with Open Archive with run KAR created in same session
If you Export Archive from wrm to a kar in your workflows local repo, and then try to open it without first quitting ... Derik Barseghian
05:35 PM Bug #4419: KARFile openKARContents problem with open success
Have tested more, and this bug seems fixed. There are a few other problems related to opening kar's, but I'll open di... Derik Barseghian
01:26 PM Bug #4419: KARFile openKARContents problem with open success
The problem was some missing break statements in KARFile's openKARContents, fixed in r20815. I'll close this bug once... Derik Barseghian
04:42 PM Bug #4424 (Resolved): KeplerLSID should implement hashCode
KeplerLSID overrides equals, and so it should therefore override hashCode as well.
I suspect this is why doing a ...
Derik Barseghian
04:13 PM Bug #4321: Semantic types on workflows saved into library not searchable
Looking forward to any comments from Shawn or Chad Aaron Aaron
04:05 PM Bug #4321: Semantic types on workflows saved into library not searchable
If you type the name of an actor in, I would expect the behavior that you described. However, the semantic search co... Matt Jones
03:38 PM Bug #4321: Semantic types on workflows saved into library not searchable
I have looked into this bug a little. After downloading Kepler 1.0.0 I was able to match all the components in an On... Aaron Aaron
01:30 PM Bug #4421: Component Search fails
Component search is working again, I've made it so that each result is separated in the component library which makes... Aaron Aaron

09/28/2009

12:50 PM Bug #4394: Need to develop requirements for configuration subsystem
I have looked at the "requirements" and I noticed that they are fairly low-level. In fact, they aren't all that disti... David Welker
11:39 AM Bug #4394: Need to develop requirements for configuration subsystem
Correct, there is no concept of permissions. We discussed this, and decided it would be essentially impossible for a... Matt Jones
11:32 AM Bug #4394: Need to develop requirements for configuration subsystem
Oh, alright. And there's no concept of permissions, right? So any module can change any other module if they know the... Sean Riddle
11:31 AM Bug #4394: Need to develop requirements for configuration subsystem
The point is that property names are scoped within their module and namespace in their module, so methods for changin... Matt Jones
11:16 AM Bug #4394: Need to develop requirements for configuration subsystem
I'm curious about the following implementation detail on the wiki:
8) The system will not allow modules to change th...
Sean Riddle
09:26 AM Bug #4421 (Resolved): Component Search fails
Component search is throwing a ClassCastException. Aaron Aaron

09/27/2009

10:27 PM Bug #4411: Remove KAR module prefixes from kar files
I've checked in the kepler-tasks.jar into module-manager/lib after building it using the "ant task" command. This re... Aaron Aaron
10:23 PM Bug #4411: Remove KAR module prefixes from kar files
I've modified MakeKars.java in the build-area so the module name does not appear in the kar name. Aaron Aaron

09/25/2009

08:17 PM Bug #4419: KARFile openKARContents problem with open success
I modified ActorMetadataKAREntryHandler to return true upon successfully opening a workflow. This may help. Also th... Aaron Aaron
07:13 PM Bug #4419 (Resolved): KARFile openKARContents problem with open success
If WorkflowRun KAREntryHandler open method returns true, KARFile openKARContents gives an error. It looks like all en... Derik Barseghian

09/24/2009

03:41 PM Bug #4408: Kar upload to repository tries to insert twice
the uploader was using the karlsid (again) for the metadata.
fixed
ben leinfelder
01:39 PM Bug #4408: Kar upload to repository tries to insert twice
Soooo, metacat is doing an upload and then trying to do an insert of the same id. It looks like kepler is uploading ... Michael Daigle
10:13 AM Bug #4408: Kar upload to repository tries to insert twice
Hmm, sounds like this might be an ecogrid - Metacat issue. I'll look into it. Michael Daigle
10:03 AM Bug #4408 (Resolved): Kar upload to repository tries to insert twice
When choosing to save a KAR from the workflow canvas and then save to the repository, kepler sends an update request ... Michael Daigle
01:38 PM Bug #4227: Provenance - use Integer return type in Queryable interface
These methods now return null if the query has 0 results. Daniel Crawl
12:07 PM Bug #4411 (Resolved): Remove KAR module prefixes from kar files
We can remove the module prefix from the Makekar function since it is redundant now. Aaron Aaron
12:00 PM Bug #4407: RExpression problems with named non-numeric vectors
The structure is in place to preserve attribute data and such. Since RExpression is already dumping attribute data f... Oliver Soong
11:51 AM Bug #4407: RExpression problems with named non-numeric vectors
I see this as the "token value" that is being used in the myput() function:
structure(c("alpha", "beta"), .Names = c...
ben leinfelder
08:12 AM Bug #4407 (New): RExpression problems with named non-numeric vectors
RExpression seems to have a problem outputting named non-numeric vectors that is not present with named numeric vecto... Oliver Soong
11:33 AM Bug #4410: Cannot open KARs from arbitrary location on disk
Hmmm, another solution is to allow the opening of kars from outside the local repositories. But the next time you op... Aaron Aaron
11:16 AM Bug #4410: Cannot open KARs from arbitrary location on disk
I would really like to be able to open a KAR from anywhere. This seems like a trivial enhancement - but one that buys... ben leinfelder
11:12 AM Bug #4410 (Resolved): Cannot open KARs from arbitrary location on disk
You cannot open a KAR from an arbitrary location on disk, it must reside in a local repository.
One work-around i...
Derik Barseghian
11:00 AM Bug #4409 (Resolved): View Documentation for an actor works once
I can view the documentation for an actor in the actor library once. After that, I can no longer drag actors onto th... Oliver Soong

09/23/2009

03:10 PM Bug #4395: Change how we Delete Report Items.
Changed the GUI to facilitate this change, but need to revise the underlying approach in order to get this to work. debi staggs
03:08 PM Bug #4400: Parameters should be able to be dragged onto a report
We can now drag parameters onto a report. But, we still need to get them out of Provenance. debi staggs
08:25 AM Bug #4139: port names are displayed twice
The org.ecoinformatics.seek.datasource.eml.eml2.Eml200DataSource actor causes
the port names to be displayed twice.
Christopher Brooks

09/22/2009

06:05 PM Bug #4139: port names are displayed twice
I apparently can't add an attachment and reopen in the same step. Oliver Soong
06:04 PM Bug #4139: port names are displayed twice
I don't know what I was thinking when I wrote this up the first time. I probably just got myself mixed up, but if I ... Oliver Soong
05:41 PM Bug #4139: port names are displayed twice
I'm marking this as WORKSFORME as the model from bug 4129 does not have
port names displayed twice.
Christopher Brooks
05:41 PM Bug #4139: port names are displayed twice
I'm going to close this because the screenshot does not have duplicate port names. Christopher Brooks
03:45 PM Bug #3801: open dialog, common places pane has white box instead of text
Fixing Bug 4282 fixed most of these problems. The remaining issue is:
the "Open Archive (KAR)" menu choice still has...
Christopher Brooks
03:34 PM Bug #4398: Truncated Names of Dynamic Items
The names of the dynamic report items are displayed in a shorter format, with the full names available in the tooltip. debi staggs
10:51 AM Bug #4360: Kepler gets slow under XP
Edward wrote:
> Actually, the most common source of slowness I've seen is when you
> plot very large data sets. The ...
Christopher Brooks

09/21/2009

04:41 PM Bug #4056: create developer documentation for svn configuration.
I just noticed this bug after I posted to kepler-dev, so I'm including my post here.
> By default, when a file is ad...
Christopher Brooks
03:10 PM Bug #4373: Copyright Statements are Inconsistent
I fixed a few files in the ptII tree that had the problem of missing
empty lines in the copyright.
$PTII/adm/copyrig...
Christopher Brooks
11:55 AM Bug #4404 (New): DataTurbine actor - instantiating actor without internet gives error msg
When you create a DataTurbine actor when not connected to the internet you get an error message, since it tries to co... Derik Barseghian
11:28 AM Bug #4403 (Resolved): Make it more obvious as to where to drag the report items to.
We need to make it more obvious that report items should be dragged to the report designer. Some suggestions were: h... debi staggs
11:23 AM Bug #4402 (Resolved): When a report item is deleted clear the properties window
When a report item is deleted the properties window should be cleared. debi staggs
11:21 AM Bug #4401 (Resolved): Synchronize properties with selected report item
Make the properties window show the properties for the report item that is selected. debi staggs
11:19 AM Bug #4400 (Resolved): Parameters should be able to be dragged onto a report
We need to make it so that parameters can be added to a report debi staggs
11:18 AM Bug #4399 (Resolved): Highlighting of panel should be more obvious
When the user selects a panel, the highlighting should be less subtle. debi staggs
11:07 AM Bug #4398 (Resolved): Truncated Names of Dynamic Items
Names of dynamic items should be truncated, with the tool tip showing the whole name. debi staggs
11:06 AM Bug #4397 (Resolved): Panel should get selected whenever it has the focus
Highlight the panel whenever it has the focus. debi staggs
11:05 AM Bug #4396 (Resolved): Add a drag icon to the report item panels
Add a drag icon to each of the report item panels. When the use clicks down, holds and drags on this icon, they can ... debi staggs
11:02 AM Bug #4395 (Resolved): Change how we Delete Report Items.
Instead of selecting the report item and then clicking on the delete button, we want to remove the delete button from... debi staggs
09:54 AM Bug #4360: Kepler gets slow under XP
Here at Berkeley, lots if people use Ptolemy under XP. I run Ptolemy regularly under Windows 2003 Server R2.
The mo...
Christopher Brooks

09/18/2009

07:17 PM Bug #4308: Workflow Run Manager - problem with getWorkflowRunsForExecutions in mysql
Fixed. The query for workflow runs was not valid in MySQL. Also, by default MySQL throws an exception when querying t... Daniel Crawl
03:45 PM Bug #4326: External Executor actor puts out an extra token when nonzero return
Fixed. Daniel Crawl
03:37 PM Bug #4330: common/resources/configurations/config.xml gets modified during build or run
Looks like this was fixed by bug 4370 The EcoGridServicesController trying to write persistent data back to the confi... Aaron Aaron
03:35 PM Bug #4370: Changes to Components and Data Preferences disappear on relaunch
ok, I updated the EcoGridServicesController to persist the values without writing to the config file. Looks like thi... Aaron Aaron
01:47 PM Bug #4370: Changes to Components and Data Preferences disappear on relaunch
oh no you're right the data source values are not persisting, the component preference values seem ok though. Aaron Aaron
01:44 PM Bug #4370: Changes to Components and Data Preferences disappear on relaunch
I can't reproduce this. It may have been that the library was not building correctly before and the values weren't g... Aaron Aaron
11:34 AM Bug #4343: remove the full screen button
I removed the icon in the toolbar and the menu item in the view menu. This can easily be readded by modifying the ui... Chad Berkley
11:29 AM Bug #3898: update .kepler instead of removing it between versions
(In reply to comment #11)
This idea (of passing parameter through the Java properties) is exactly what I'd like to h...
Michal Owsiak
11:08 AM Bug #3898: update .kepler instead of removing it between versions
One possible solution would be to have the current devel version of kepler
use .kepler/2.0/ instead of .kepler/
I do...
Christopher Brooks

09/17/2009

09:39 PM Bug #4394: Need to develop requirements for configuration subsystem
I see that there are some requirements. But, in my opinion, those requirements are: (1) much too low-level. They are ... David Welker
04:57 PM Bug #4394: Need to develop requirements for configuration subsystem
I agree that we need requirements and a good design before coding begins. No coding has begun. The current configur... Matt Jones
03:53 PM Bug #4394 (Resolved): Need to develop requirements for configuration subsystem
I have noticed some development activity with respect to configuration that seems to consist of developing a fairly l... David Welker
04:17 PM Bug #4191: Eclipse build is slow the first time "Copying resources to the output folder"
I have explored this problem a little further. Turns out Eclipse will copy all the .svn folders to the classes direc... Aaron Aaron

09/16/2009

06:37 PM Bug #4392 (Resolved): Delete KARCacheObject
KARCacheObject should no longer be used. Delete this class and clean up any dependencies on it. Aaron Aaron
03:40 PM Bug #4312: Clicking cancel on "sure you want to exit" dialog exits anyway
I fixed this bug by using code from TableauFrame to handle the exit instead of using the exit action itself. The pro... Chad Berkley

09/15/2009

11:41 PM Bug #4390 (Resolved): Semantic Type tag deletion does not remove component from Ontology in the component library
When I open a workflow that has a semantic type in the WRP suite I see the semantic type at the top of the window wit... Aaron Aaron
12:40 PM Bug #4388: remove the ptII module
Yes, ppod is a "module" with no source code (what I call a "suite"), just a description.txt and a modules.txt in modu... Timothy McPhillips
12:20 PM Bug #4388: remove the ptII module
I think that would now be "ant change-to -Dsuite=ptolemy". Putting the module-info directory in a non-standard locati... Sean Riddle
12:14 PM Bug #4388: remove the ptII module
I'm sorry, but I'm a little confused. I thought ptII was a suite meant to enable Kepler developers to run Ptolemy fr... Timothy McPhillips
12:05 PM Bug #4388: remove the ptII module
Why can't we just create module-info as a top level directory in Ptolemy?
Otherwise, I object to deleting the ptII d...
David Welker
11:09 AM Bug #4388: remove the ptII module
I think ptII/adm/kepler/module-info would work fine. I'll have to take a look at the build system to see how to chan... Chad Berkley
11:06 AM Bug #4388: remove the ptII module
Ah, right, the module-info directory.
This could go in ptII/adm/kepler/module-info.
adm is not shipped as part of the...
Christopher Brooks
10:50 AM Bug #4388: remove the ptII module
The ptII module actually does provide functionality. It contains the metadata needed to build ptolemy successfully. ... Chad Berkley
10:40 AM Bug #4388 (Resolved): remove the ptII module
Now that the copy of Top.java has been removed, the ptII module should
be removed as it contains no .java files and ...
Christopher Brooks
12:35 PM Bug #4324: ptII/module-info/revision.txt not being updated
Excellent. For whatever reason, the cron job on Pantara was not running. Hopefully this works. David Welker
12:28 PM Bug #4324: ptII/module-info/revision.txt not being updated
I created a script that lives on code.kepler-project.org (ceres) to do this. It is set to run in a cron job every da... Chad Berkley

09/14/2009

11:08 AM Bug #4335: Component Library icons do not show correctly after searching
Fixed Aaron Aaron

09/11/2009

02:01 PM Bug #4246: Reorganize code in util, core and gui modules
Have now moved all of the jars from common and util that can be moved. The easy parts of this bug is now done, in th... Chad Berkley
10:45 AM Bug #4246: Reorganize code in util, core and gui modules
Added this page:
https://kepler-project.org/developers/teams/framework/module-reorganization-summary
Need to track ...
Chad Berkley
10:43 AM Bug #4150: Save in Library broken
Following my procedure in comment #3, I can now find a folder with an entry for the actor beneath it without relaunch... Derik Barseghian
10:42 AM Bug #4282: Duplicate of ptolemy.gui.Top
I've removed all of my changes from yesterday and I have not re-added Top.java to the ptII module, so this bug is eff... Chad Berkley
09:48 AM Bug #4282: Duplicate of ptolemy.gui.Top
That sounds good to me. Chad Berkley
10:41 AM Bug #4382 (Resolved): Remove switching between kepler and ptolemy
From bug 4282:
Absent any objections, I will implement the following solution:
Let's remove the ability to cha...
Chad Berkley
10:31 AM Bug #4381 (Resolved): Open KAR: needs to work when opening from outside the /workflows directory
I'm noticing that the workflow is opened, but that the LSID is changed even if i do not make any changes to the workf... ben leinfelder
10:27 AM Bug #3948: Create new configuration system supporting modules
After looking at Matt's UML diagram (https://code.kepler-project.org/code/kepler-docs/trunk/teams-and-wg/2-infr-teams... Chad Berkley

09/10/2009

09:28 PM Bug #4380 (Resolved): Removing LocalRepository does not remove actors from Ontologies
scenario:
place a kar containing a component that has a semantic type in a folder
add that folder as a local reposi...
Aaron Aaron
09:16 PM Bug #4150: Save in Library broken
So after adding a LocalRepository and clicking on OK in the component preferences tab. The entire library gets rebui... Aaron Aaron
07:05 PM Bug #4282: Duplicate of ptolemy.gui.Top
Absent any objections, I will implement the following solution:
Let's remove the ability to change to Ptolemy from t...
David Welker
02:53 PM Bug #4282: Duplicate of ptolemy.gui.Top
I've removed my changes to Top.java in ptolemy and commented out the configuration option in kepler. There is no way... Chad Berkley
01:45 PM Bug #4282: Duplicate of ptolemy.gui.Top
ptolemy.gui cannot depend on ptolemy.actor because Ptplot uses
ptolemy.gui.Top and does not ship with ptolemy.actor.
...
Christopher Brooks
01:05 PM Bug #4282: Duplicate of ptolemy.gui.Top
I added a configuration parameter called _alternateTopHandler into the configuration. This defines a class to overri... Chad Berkley
02:26 PM Bug #4379: PreferencesFrame can be opened multiple times
Added a singleton class called PreferencesTracker to determine if a PreferenceFrame is currently open. PreferencesAc... Aaron Aaron
02:16 PM Bug #4379 (Resolved): PreferencesFrame can be opened multiple times
It is currently possible to open up several PreferencesFrame objects by repeatedly clicking the source button on eith... Aaron Aaron
11:46 AM Bug #4372: demos in doc-index.htm don't exist (Hello World, Simple Addition etc.)
I added instructions on how to get the outreach module and changed
the demo links to point to the demos in the outrea...
Christopher Brooks

09/09/2009

05:16 PM Bug #4362: component search performance
Yeah seems like this could be improved quite a bit. The OntLibrarySearcher class does the heavy lifting. I added a ... Aaron Aaron
12:53 PM Bug #4372: demos in doc-index.htm don't exist (Hello World, Simple Addition etc.)
Would be nice to package demos in a KAR file (named demos.kar perhaps) and include them in the kar folder of their re... Aaron Aaron
12:41 PM Bug #4372: demos in doc-index.htm don't exist (Hello World, Simple Addition etc.)
most demos are now in the 'outreach' module (outreach/resources/demos/getting-started, for example)
the R demos are i...
ben leinfelder
10:21 AM Bug #4372 (Resolved): demos in doc-index.htm don't exist (Hello World, Simple Addition etc.)
I have some visitors today and would like to show off the
devel version of Kepler.
When I start kepler, the page ...
Christopher Brooks
12:20 PM Bug #4373 (Resolved): Copyright Statements are Inconsistent
The copyright statement on Java files says "... the following two paragraphs appear ...". But some of the copyrights... Aaron Aaron
11:07 AM Bug #4314: exception when searching ecogrid
The bug was fixed after removing the hosts which are down. Jing Tao
09:26 AM Bug #4371: pipe highlighting under "Animate at Runtime"
This would be nice to do some day. I'm changing it to an enhancement.
Bert looked at highlighting links between act...
Christopher Brooks
08:47 AM Bug #4371 (New): pipe highlighting under "Animate at Runtime"
Understanding of complex work-flow execution would be easier if the pipeline (connectors) as
well as the actors were...
simon allfrey

09/08/2009

05:02 PM Bug #4314: exception when searching ecogrid
The reason is that some services, e.g. digir service and local service, are down. When I change their default value, ... Jing Tao
04:26 PM Bug #4150: Save in Library broken
ah the problem here is just that a folder doesn't get added to the library when you create a new local repository Aaron Aaron
04:03 PM Bug #3672: Open/Save Workflow as KAR Archive
works now Aaron Aaron
03:25 PM Bug #4370 (Resolved): Changes to Components and Data Preferences disappear on relaunch
If you click on the Sources button and change settings beneath Components or Data, these changes are gone after you q... Derik Barseghian

09/04/2009

03:17 PM Bug #4247: Application menu items sometimes disappear on OS X
Whoops - that thread does discuss showMessageDialog, but my test was to showConfirmDialog. So this likely works for b... Derik Barseghian
03:13 PM Bug #4247: Application menu items sometimes disappear on OS X
Found mention of this on the internet, not sure if it's been resolved. I tried the workflow-around mentioned (don't p... Derik Barseghian
12:34 PM Bug #4357: Workflow Run Manager does not mark last failed execution red
should be fixed by r20571 for the most part.
Leaving open since might still be a problem when using PN - see bug depe...
Derik Barseghian
11:17 AM Bug #4150: Save in Library broken
This didn't work for me:
- add and select a local repo for Save and Search
- customized an Rexpression actor
- righ...
Derik Barseghian
10:51 AM Bug #4369: Folder creation when saving a KAR
It is now detecting and creating the folder, but still throws a stacktrace for some reason. Need to debug this furth... Aaron Aaron
10:50 AM Bug #4369 (Resolved): Folder creation when saving a KAR
When saving a KAR file, if the user uses the "New Folder" button to save a kar into a subdirectory of a folder that e... Aaron Aaron

09/03/2009

04:20 PM Bug #3220: "Save" from TextEditor interferes with workflow save-before-closing prompt
Ben can you check in this patch? I can't figure out how to check files into the Ptolemy svn repo. Thanks Aaron Aaron
04:19 PM Bug #4344: Open Workflow from library
You can do this now Aaron Aaron
04:17 PM Bug #4278: Changes to a reopened KAR are not saved to the new KAR
yes this is ok now in the kepler suite Aaron Aaron
04:16 PM Bug #4150: Save in Library broken
seems to work for me in the kepler suite Aaron Aaron
02:12 PM Bug #4363 (New): wrm does not properly handle ModelReference actor
The ModelReference actor runs externally defined workflows. This currently breaks some functionality in the wrm:
*...
Daniel Crawl
 

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