Project

General

Profile

Activity

From 02/14/2010 to 03/15/2010

03/15/2010

04:28 PM Bug #4517: Verify that the search capabilities work
The debug message has gone when I tried to reproduced the issue on comment 3. I tried both kepler 2.0 and trunk. Ben ... Jing Tao
03:34 PM Bug #4883: Need more command line options for kar files
created a stopgap soln in r23358 -- for headless for runs of kars, now writing resultant "run-kar" into KeplerData/wo... Derik Barseghian
01:51 PM Bug #4883 (New): Need more command line options for kar files
right now, we can execute a single workflow contained in a kar file with the -runwf command line switch. It would be... Chad Berkley
03:32 PM Bug #4744: load & save site layout to local kar file
additional items to save in KAR: CRBasic program, SPAN config files Daniel Crawl
03:29 PM Bug #4743: create gui to edit documentation metadata for component
It would be good to review the interfaces on the following web page when designing this interface:
https://kepler-pr...
Daniel Crawl
01:07 PM Bug #4745: load & save site layout to metacat
save to metacat instead of dataturbine? Derik Barseghian

03/13/2010

04:34 PM Bug #4832: python actor outputting to disconnected composite output throws error
This might be a bug in provenance. I'll take a look. Daniel Crawl
08:09 AM Bug #4832: python actor outputting to disconnected composite output throws error
I took a look at this and confirmed that it is not a problem in Ptolemy or Kepler, but is reproducible in after doing... Christopher Brooks

03/12/2010

03:20 PM Bug #4877: The provenance recorder and tagging buttons on the toolbar need tooltips
Fixed in r23341. Sean Riddle
03:13 PM Bug #4773: Data processing on the GPP
Also, part of the SPAN stack can do processing / QA/QC. To what extent do we want to utilize this? I currently consid... Derik Barseghian
02:01 PM Bug #4333: KeplerLSID AuthNamespace web service
(In reply to comment #5)
> Alright https://kepler-project.org/ns/
> now works.
>
> http://library.kepler-project.or...
Shaun Walbridge
12:51 PM Bug #4333: KeplerLSID AuthNamespace web service
Alright https://kepler-project.org/ns/
now works.
http://library.kepler-project.org/ns/
is still returning an error...
Aaron Aaron
01:57 PM Bug #4847: Instantiating new actor from library gives error after restart
Unable to reproduce this bug in the 2.0 branch and my Mac. Please reopen if you're still seeing it. Aaron Aaron
01:41 PM Bug #4072: Rework Section 3
only thing left now is updating the screenshots. Derik Barseghian
01:40 PM Bug #4852: Documentation => Remove Customization doesn't work
fixed in r23336 (trunk) and r23339 (2.0). Derik Barseghian
11:01 AM Bug #4872: listen to director throws error
Oh, and it doesn't seem to cause any serious problems. Oliver Soong
11:00 AM Bug #4872: listen to director throws error
I'm also seeing something like this when I run, sometimes. I get:
java.lang.reflect.InvocationTargetException
...
Oliver Soong
10:53 AM Bug #4881 (New): RExpression outputs [false] for any matrix of booleans
In an RExpression, add an output port "out" and use this R script:
out <- matrix(c(TRUE, FALSE, TRUE, FALSE), 2)
...
Oliver Soong
10:45 AM Bug #4880 (New): RExpression cannot output matrix of strings
Create an RExpression with the output port "out" and for the script, use:
out <- matrix(letters, 2)
Looking at...
Oliver Soong
10:37 AM Bug #4879 (New): RExpression replaces ) in string vectors with } when outputting to a port
In an RExpression, create the output port "out" and in the R script, use:
out <- c("(", ")")
Hooking this to a...
Oliver Soong

03/11/2010

06:38 PM Bug #4852: Documentation => Remove Customization doesn't work
I've got a local fix for this that seems to be working pretty well. I'm going to test it some more before check in. Derik Barseghian
05:16 PM Bug #4333: KeplerLSID AuthNamespace web service
I've added
https://kepler-project.org/ns/
and
http://library.kepler-project.org/ns/
to the Kepler configuration in...
Aaron Aaron
04:31 PM Bug #4333: KeplerLSID AuthNamespace web service
Added the namespace number generator jsp to the kepler skin in metacat at:
/style/skins/kepler/keplerAuthNamespac...
Michael Daigle
03:27 PM Bug #4333: KeplerLSID AuthNamespace web service
So
kepler-project.org
is the plone site, and metacat is on
library.kepler-project.org
If we drop the jsp page into t...
Aaron Aaron
04:37 PM Bug #4848: only first change to Customize Documentation shown in Documentation=>Display
Thanks Christopher. I updated kepler trunk to use ptolemy r57481 and made the required change to uiContextMenuMapping... Derik Barseghian
03:57 PM Bug #4848: only first change to Customize Documentation shown in Documentation=>Display
This bug:
Get Documentation on actor ports can give an NPE
https://chess.eecs.berkeley.edu/bugzilla/show_bug.cgi?i...
Christopher Brooks
04:29 PM Bug #4076: Rework Section 7
With the Jargon.jar in Kepler, it can communicate with different SRB version. Since SRB has not been updated for two ... jianwu jianwu
04:25 PM Bug #4076: Rework Section 7
update section 7 to explain more about SRB actors, which are still working when the host and resource server are runn... jianwu jianwu
04:18 PM Bug #4877 (Resolved): The provenance recorder and tagging buttons on the toolbar need tooltips
The provenance recorder and tagging buttons, that are only present in certain suites, need tooltips like the other UI... Sean Riddle
03:25 PM Bug #4876 (New): RExpression - recursively handle arrays
Currently you can only have a list of lists - it would be nice to handle the Token->R->Token conversion recursively s... ben leinfelder
03:14 PM Bug #4864: Update paths in demo workflows
The installer now places the demos in ~/KeplerData/Kepler-2.0.0/demos. Paths should be updated to reflect that locat... Chad Berkley
01:48 PM Bug #4869: changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
Edward and I talked about this and he reminded me that changes are actually
committed as you move between fields. I...
Christopher Brooks
11:39 AM Bug #4869: changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
> This happens when you just run Vergil:
> -drag a StringConst actor to the stage
> -edit the actor params
> -type so...
Christopher Brooks
10:22 AM Bug #4869: changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
Christopher,
The _handleClosing() method in ptolemy.actor.gui.EditParametersDialog
does not restore the values of ...
ben leinfelder
10:08 AM Bug #4869: changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
It looks like there is some oddness in Vergil with edit parameters.
I'll see about taking a look.
Christopher Brooks
01:21 PM Bug #4873: Actors in repository library subtree are crammed together
Roger that, works well, closing. Aaron Aaron
10:32 AM Bug #4873: Actors in repository library subtree are crammed together
You probably know this, but you can use System.getProperty("os.name"); to fine the current OS for switching stuff lik... Chad Berkley

03/10/2010

06:16 PM Bug #4869: changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
This happens when you just run Vergil:
-drag a StringConst actor to the stage
-edit the actor params
-type some value...
ben leinfelder
04:16 PM Bug #4869: changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
You can get into trouble if you Edit the actor parameters then press other buttons (other than Cancel and Commit):
-H...
ben leinfelder
02:41 PM Bug #4869: changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
from conf. call:
-verify that "cancel" does work for all normal cases
-isolate the sequence that caused the changes t...
ben leinfelder
09:59 AM Bug #4869: changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
It's that attributeChanged() method - I know the EML actor does a lot of things in that method, and I remember it bei... ben leinfelder
04:55 PM Bug #4873: Actors in repository library subtree are crammed together
I've added 2 pixels to the rowHeight of the AnnotatedPTree class. Now it would be nice to toggle this based on OS... Aaron Aaron
03:23 PM Bug #4874 (Resolved): Modify existing KARFile schema for use with KAR File Parser
Currently, we have a simple KARFile schema, but it needs to be modified so that it can be used with the KAR File Pars... debi staggs
02:24 PM Bug #4517: Verify that the search capabilities work
Need to look at the print out on the console when we search and download data on ecogrid. Jing Tao
02:00 PM Bug #4072: Rework Section 3
in r1179 - finished going through all of this section, fixed some typos, figure numbers and so forth. All that's left... Derik Barseghian
01:53 PM Bug #4684: Release tracking bug
Closing this bug because the current 2.0 targeted bugs are the release bugs. Chad Berkley
01:51 PM Bug #4070: Rework Section 1 and the GSG
Chapter 1 and the GSG are now updated. Chad Berkley
01:04 PM Bug #4868: Update R paths in documentation and demos
Just noticed that the GSG also uses workflows with RExpression actors (00-StatisticalSummary and 05-LinearRegression)... ben leinfelder
11:19 AM Bug #4872: listen to director throws error
This also happens when you use these context menus:
Open Actor
Documentation => Display
Listen to Actor
I'm also n...
Derik Barseghian
04:17 AM Bug #4858: Open Actor on non-composite actors no longer works
Fixed. The problem was actually occurring at both the trunk and the 2.0 branch on a fresh checkout. Which makes sense. David Welker

03/09/2010

07:59 PM Bug #4858: Open Actor on non-composite actors no longer works
Christopher's comment#9 works for me (beneath, and adjusting for, the trunk with the wrp suite, at least). However if... Derik Barseghian
05:47 PM Bug #4070: Rework Section 1 and the GSG
I updated the future goals section, corrected the contributors list, and made additional edits throughout. Chad -- I... Matt Jones
04:26 PM Bug #4681: Check all file properties before release
Yep, svn:keywords and svn:style for all files:
bash-3.2$ svn proplist README.txt
Properties on 'README.txt':
svn:ke...
Christopher Brooks
04:13 PM Bug #4681: Check all file properties before release
Which properties should we set? I propose keywords and eol-style as Derik said. Are there any others? I can write ... Chad Berkley
04:10 PM Bug #4803: Review the README file
Contributor list has been updated. All info in the README is now up to date. Version numbers need to be updated on ... Chad Berkley
04:08 PM Bug #4685: Create installers
Win/OSX/Lin Installers are now working and revised for the 2.0 release. Just version numbers (beta/rc/etc) need to b... Chad Berkley
04:05 PM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
Pushing this to post 2.0 since I think it affects a small number of users. I don't think this should hold up the 2.0... Chad Berkley
03:53 PM Bug #4873 (Resolved): Actors in repository library subtree are crammed together
On Windows XP (maybe on other versions of windows) the actor icons are crammed tightly together when you open up Acto... Chad Berkley

03/08/2010

03:19 PM Bug #4864: Update paths in demo workflows
I updated $Kepler\outreach-2.0\resources\demos\getting-started\03-ImageDisplay.xml to fit the new directory name for ... jianwu jianwu
01:10 PM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
Yes. But for the moment it has to take second place to meeting our own rather extreme schedule commitments. I think... Tom Parris
12:42 PM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
Sounds good. Thanks, Tom. Would you consider creating a new GDAL module for kepler? If so, we would be willing to ... Chad Berkley
11:36 AM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
OK. We're in the process of building the new suite of java language bindings now. We've gotten them to compile on a... Tom Parris
11:20 AM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
Hi Tom, The instructions for building gdal in windows are here:
http://trac.osgeo.org/gdal/wiki/GdalOgrInJavaBuildIns...
Chad Berkley
05:45 AM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
Apologies for the delay. I've been travelling.
We obviously have the requisite hardware and can compile the GDAL C ...
Tom Parris
11:22 AM Bug #4070: Rework Section 1 and the GSG
This bug can be closed once Matt has edited the future goals section of chapter 1. Chad Berkley

03/05/2010

02:19 PM Bug #4872: listen to director throws error
I believe this is more general; I've seen this error periodically lately when using other context menus. Derik Barseghian
02:14 PM Bug #4872 (Resolved): listen to director throws error
Add an SDF Director and the Tools->Listen to Director. An error pops up on the console:
Error creating action fo...
Oliver Soong
12:29 PM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
GDAL requires Microsoft Visual C++ to compile:
http://trac.osgeo.org/gdal/wiki/GdalOgrInJavaBuildInstructions
I don...
Chad Berkley
11:25 AM Bug #4070: Rework Section 1 and the GSG
Getting Started Guide is complete. Chad Berkley
11:13 AM Bug #4070: Rework Section 1 and the GSG
I checked out chapter 1. We need to update section 1.4 with new future goals of kepler. I've asked Matt if he might... Chad Berkley
08:00 AM Bug #4070: Rework Section 1 and the GSG
I think we can close this bug, but Chad can you look it over before I do ?
Thanks.
debi staggs

03/04/2010

09:37 PM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
I created a universal binary that supports 32 and 64 bit JVMs under MacOSX.
The library may be found in ptII/lib/matl...
Christopher Brooks
11:59 AM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
The Ptolemy Matlab interface has similar problems, I'm looking at building 64bit
libraries for the Mac. On the Mac,...
Christopher Brooks
09:34 AM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
>1) Check all native library actors and recompile as needed for the following
>platforms, and recompile/install as ne...
Chad Berkley
04:44 PM Bug #4802: KARs in KeplerData/workflows are being parsed on startup
commented out that bit of code - i believe it is redundant since it is also called in the open() method.
we should ke...
ben leinfelder
02:23 PM Bug #4870 (New): searching for packages with the same name from multiple sources sometimes loses results
I have packages soong.4.14 and soong.28.5 on DEV and soong.4.15 and soong.28.9 on KNB. They all have the same title.... Oliver Soong
11:27 AM Bug #4858: Open Actor on non-composite actors no longer works
Sorry to be a Reopener, but this is still happening for me. I had Ben try it out, and it happens to him too. From Chr... Derik Barseghian
11:04 AM Bug #4869 (In Progress): changes made to workflows during dialogs before committing (Edit Parameters/Cancel)
When I make changes to an actor through the dialog, it seems like the changes are made to the workflow immediately, b... Oliver Soong
09:51 AM Bug #4078: Rework Section 9
Updated by madhu. Chad Berkley
09:21 AM Bug #4852: Documentation => Remove Customization doesn't work
It did work at one point. It just removed the kepler documentation and let it default to the ptolemy docs. If there... Chad Berkley
09:19 AM Bug #4811: No "Get Metadata" item on right-click menu after dragging an EML actor to the canvas
The action handler that supports figuring out which object has been clicked on seems to have been broken so in the in... Chad Berkley
09:13 AM Bug #4077: Rework Section 8
Added a new bug for updating the paths in the demos and docs. Closing this one. Chad Berkley
09:11 AM Bug #4868 (Resolved): Update R paths in documentation and demos
The demos path to the R demos should point to the R demos directory, not the outreach demos directory. Make sure thi... Chad Berkley
09:09 AM Bug #4081: Rework Appendix B
Ok, thanks, Debi. The only thing left to do on this is update screenshots then. I've made a separate bug (bug 4867)... Chad Berkley
09:07 AM Bug #4867 (Resolved): Update screenshots for the documentation
Any screen shots that are out of date should be retaken and updated in the documentation. Chad Berkley

03/03/2010

11:54 PM Bug #4082: New user guide section on modules/module manager
Made a new chapter (12) in the User Manual for modules. It is short and oriented towards users rather than developers... David Welker
11:47 PM Bug #4071: Rework Section 2
Will do this documentation update when we get installers created. David Welker
06:03 PM Bug #4811: No "Get Metadata" item on right-click menu after dragging an EML actor to the canvas
Hey Chad, is the Get Metadata context menu item supposed to be available for all actors? It looks like in 1.0 it was ... Derik Barseghian
05:52 PM Bug #4852: Documentation => Remove Customization doesn't work
I wonder if this ever worked in Kepler? It doesn't in 1.0. I'm having trouble finding where/how the documentation may... Derik Barseghian
01:24 PM Bug #4852: Documentation => Remove Customization doesn't work
This is kepler-specific, it works in vergil. Derik Barseghian
05:40 PM Bug #4848: only first change to Customize Documentation shown in Documentation=>Display
fixed also for Directors in r23268 (trunk) and r23269 (2.0) Derik Barseghian
04:29 PM Bug #4802: KARs in KeplerData/workflows are being parsed on startup
is that a "yes"? ben leinfelder
04:21 PM Bug #4797: Verify that multiple workflow/actor KARs work as expected
actor and director kars have been combined in head, closing this bug. Aaron Aaron
04:14 PM Bug #4858: Open Actor on non-composite actors no longer works
(In reply to comment #13)
> This happened for me today too, as I was going through testing the examples in
> the Docu...
debi staggs
03:45 PM Bug #4858: Open Actor on non-composite actors no longer works
This happened for me today too, as I was going through testing the examples in the Documentation. debi staggs
04:12 PM Bug #4081: Rework Appendix B
(In reply to comment #5)
> (In reply to comment #4)
> > Originally, I had wanted to keep all of the screen shots cons...
debi staggs
04:09 PM Bug #4081: Rework Appendix B
(In reply to comment #4)
> Originally, I had wanted to keep all of the screen shots consistent, however,
> it's going...
debi staggs
03:42 PM Bug #4081: Rework Appendix B
Originally, I had wanted to keep all of the screen shots consistent, however, it's going to take a lot of work to do ... Chad Berkley
03:16 PM Bug #4081: Rework Appendix B
Reviewed the R appendix - some minor typos corrected, but no glaring omissions re: functionality. I was concerned abo... ben leinfelder
11:37 AM Bug #4081: Rework Appendix B
updated links to NCEAS R reference material. Links are as follows (thanks, Rick).
http://www.nceas.ucsb.edu/scicom...
Chad Berkley
10:50 AM Bug #4081: Rework Appendix B
Updated links, proof-read. Need NCEAS links to work. Sent email to shaun and rick asking about missing pdfs.
http:...
Chad Berkley
04:06 PM Bug #4077: Rework Section 8
only a couple minor things.
we do need to be aware of the act that the R examples are located in a the r module, not ...
ben leinfelder
11:06 AM Bug #4077: Rework Section 8
updated all links. reviewed and revised content. asking ben to make sure we're not missing anything with the additi... Chad Berkley
03:41 PM Bug #4074: Rework Section 5
Done updating section 5. Chad Berkley
01:13 PM Bug #4865: Second time running a workflow by command line faild
Working now for Jing and I, closing. Derik Barseghian
01:08 PM Bug #4865: Second time running a workflow by command line faild
This was the problem Ben fixed the other day, but began recurring again probably because of my changes in r23263, but... Derik Barseghian
12:28 PM Bug #4865: Second time running a workflow by command line faild
I ran into this also. I think the LSID is getting put in the cache, then when you try to run the WF from the kar file... Chad Berkley
12:24 PM Bug #4865 (Resolved): Second time running a workflow by command line faild
I use the following command to run a workflow:
java -classpath build-area/lib/ant.jar:kepler.jar org.kepler.build.ru...
Jing Tao
01:12 PM Bug #4860: GUI-free class for Workflow Run Export
Works now for Jing and I at r23265, closing. Derik Barseghian
12:49 PM Bug #3976: Update Documentation for 2.0 release
Chapter One of the user's guide links and screen shots have been updated. Asking Chad to review section 1.4 Future G... debi staggs
12:22 PM Bug #4864 (Resolved): Update paths in demo workflows
After RC1 is cut, update all file paths in the demo workflows to use the module-X.0 format. Chad Berkley
11:16 AM Bug #4076: Rework Section 7
The documentation is almost done. Several small issued to be discussed with Ilkay. jianwu jianwu
10:36 AM Bug #4078: Rework Section 9
Updated all links and proof-read. Sent an email to Ilkay asking her to review the content as I don't know enough abo... Chad Berkley
10:22 AM Bug #4078: Rework Section 9
I'll take this one. Chad Berkley
10:21 AM Bug #4079: Rework Section 10
done. Chad Berkley

03/02/2010

02:32 PM Bug #4858: Open Actor on non-composite actors no longer works
I did:
mkdir kepler-2.0
cd kepler-2.0
svn co https://code.kepler-project.org/code/kepler/branches/releases/release-...
Christopher Brooks
11:22 AM Bug #4858: Open Actor on non-composite actors no longer works
Christopher,
your fix does not work for me. Is there something else you did? The ptolemy-8.0/src directory is alr...
Chad Berkley
10:51 AM Bug #4858: Open Actor on non-composite actors no longer works
Hmm, the .classpath file does include the ptolemy src directory in the classpath. I'm currently looking into why thi... Chad Berkley
02:30 PM Bug #4851: KarEntryAttributes not saved in MANIFEST.MF/KarXML
fixed Aaron Aaron
01:31 PM Bug #4845: KAR dependencies not properly supporting module versions
Seems to be OK now. Aaron Aaron
09:54 AM Bug #4860 (Resolved): GUI-free class for Workflow Run Export
I'm trying to get the command-line execution working where I run a KAR and it produces a run KAR with the workflow/la... ben leinfelder
08:26 AM Bug #4859: GDALTranslate does not work on Windows 7 (64bit)
GDAL probably just needs to be recompiled for this architecture, and the installer adapted to detect which architectu... Matt Jones
07:41 AM Bug #4859 (In Progress): GDALTranslate does not work on Windows 7 (64bit)
GDALJniGlue fails to intialize on Windows 64bit operating systems.
ptolemy.kernel.util.IllegalActionException: i...
Tom Parris
07:31 AM Bug #3205: gdalTranslate actor crashes on bad format and won't work with all gdal formats
We're having a similar problem on the 2.0.0 trunk. This is a trivial workflow that attempts to convert an ERDAS IMG ... Tom Parris

03/01/2010

09:59 PM Bug #4826: intermittent exceptions displaying matrix tokens
Fixed.
The problem was that actor.gui.MatrixPane has a public variable JTable table.
This variable should only be use...
Christopher Brooks
02:01 PM Bug #4826: intermittent exceptions displaying matrix tokens
This bug does not seem to affect functionality, so I'm moving it to 2.x.y Christopher Brooks
06:09 PM Bug #4858: Open Actor on non-composite actors no longer works
I can reproduce this under Kepler trunk with Eclipse.
The workaround is to add ptolemy/src to the classpath.
How I ...
Christopher Brooks
05:39 PM Bug #4858: Open Actor on non-composite actors no longer works
Also happens to me from trunk from within eclipse. Maybe another eclipse user can see if it happens to them too... Derik Barseghian
05:06 PM Bug #4858: Open Actor on non-composite actors no longer works
Hmm, reopening. So even with the ptolemy revision confusion aside, on a fresh checkout of the branch, this error does... Derik Barseghian
03:08 PM Bug #4858: Open Actor on non-composite actors no longer works
Thanks guys. I wasn't seeing a bunch of ptolemy updates from within eclipse. I've updated with ant update, and it's w... Derik Barseghian
02:54 PM Bug #4858: Open Actor on non-composite actors no longer works
Oh, I should also note that I updated the context menu configuration last week to match up with some new ptolemy menu... Chad Berkley
02:50 PM Bug #4858: Open Actor on non-composite actors no longer works
I just tried this with the 2.0 branch and it worked for me. Have you tried a fresh checkout, derik? Also, are you u... Chad Berkley
02:36 PM Bug #4858: Open Actor on non-composite actors no longer works
Hey Christopher,
Thanks, it works for me on trunk too, I should've tried that and also specified: this is currently a...
Derik Barseghian
02:34 PM Bug #4858: Open Actor on non-composite actors no longer works
[Sorry, committed before being done].
I can't reproduce this. I'm running the Kepler devel tree
from the ptII head....
Christopher Brooks
02:22 PM Bug #4858: Open Actor on non-composite actors no longer works
Hmm, this works for me in the Kepler devel tree and the Ptolemy tree.
I'm running from the
Christopher Brooks
01:44 PM Bug #4858 (Resolved): Open Actor on non-composite actors no longer works
Drag a Display to canvas, right-click Open Actor and you'll get an Error popup:
Cannot find a tableau or the source ...
Derik Barseghian
11:57 AM Bug #4857: Search on ecogrid server does not return proper results
Fixed in r23242. Changed the ecogrid XML query document in a similar way to the way Ben told me to modify the query f... Sean Riddle
11:50 AM Bug #4857 (Resolved): Search on ecogrid server does not return proper results
I uploaded a test workflow called count.kar (LSID = 8097.16.1) to the Kepler dev repository. I then searched on term ... Sean Riddle
11:15 AM Bug #4848: only first change to Customize Documentation shown in Documentation=>Display
I've filed a bug and an ER against vergil re: an NPE on Get Documentation on actor ports, and Customize Documentation... Derik Barseghian

02/27/2010

04:28 PM Bug #4802: KARs in KeplerData/workflows are being parsed on startup
ReportLayoutKAREntryHandler.cache
WorkflowManager.getWorkflows
WorkflowManager.initialize
ObjectManager.getObjectRevi...
Aaron Aaron

02/26/2010

08:27 PM Bug #4848: only first change to Customize Documentation shown in Documentation=>Display
fixed for workflows and actors in r23238. Derik Barseghian
05:10 PM Bug #4848: only first change to Customize Documentation shown in Documentation=>Display
The problem is with calling Show Documentation (which calls GetDocumentationAction) twice.
On the first call to Get...
Derik Barseghian
07:09 PM Bug #4852 (Resolved): Documentation => Remove Customization doesn't work
If you Customize Documentation on a workflow or an actor, Remove Customization doesn't remove it. Derik Barseghian
03:26 PM Bug #4802: KARs in KeplerData/workflows are being parsed on startup
I can see the cache() method will eventually call the ObjectManager. is this the culprit that forces parsing of the m... ben leinfelder
03:13 PM Bug #4851: KarEntryAttributes not saved in MANIFEST.MF/KarXML
Yeah, looks like KARBuilder.prepareManifest() only adds certain attributes to the Manifest. Really it should enforce ... Aaron Aaron
03:09 PM Bug #4851 (Resolved): KarEntryAttributes not saved in MANIFEST.MF/KarXML
I'm trying to add some key metadata entries to the KAREntries I provide in the ReportInstanceKAREntryHandler. I can s... ben leinfelder
02:29 PM Bug #4828: Uploading a top-level workflow to the repository fails
Now the DOCTYPE is screened out from fragments prior to constructing the larger KAR XML document. Sean Riddle
01:31 PM Bug #4828: Uploading a top-level workflow to the repository fails
targeting for 2.0 ben leinfelder
02:05 PM Bug #4797: Verify that multiple workflow/actor KARs work as expected
Also combined directors-2.0 kars into one kar. do a
"rm ~/KeplerData/modules/directors-2.0/kar/*.kar"
and also an ...
Aaron Aaron
01:46 PM Bug #4797: Verify that multiple workflow/actor KARs work as expected
I have combined all the actors in the actors-2.0 module into 1 kar. Recommended to "rm ~/KeplerData/modules/actors-2... Aaron Aaron
11:54 AM Bug #4799: "Login Anonymously" gave an error during the data search
Refactored the anonymous login configuration to be at the Domain class rather than the Repository class.
-adds config...
ben leinfelder
10:53 AM Bug #4799: "Login Anonymously" gave an error during the data search
Ugh. We still have two different systems for managing our various "remote services":
-Repositories (components)
-Ecog...
ben leinfelder
10:38 AM Bug #4799: "Login Anonymously" gave an error during the data search
I figured it out!
when you try to use the "Login Anonymously" button, the authentication service will try to look of...
ben leinfelder
09:16 AM Bug #4849: ant eclipse fails
Fixed. Forgot to add some new files to the repository. David Welker
09:10 AM Bug #4849: ant eclipse fails
I should mention this is on trunk ben leinfelder
09:10 AM Bug #4849 (Resolved): ant eclipse fails
[eclipse] java.io.FileNotFoundException: /Users/leinfelder/workspace_kepler/kepler/build-area/resources/eclipse/Ptole... ben leinfelder

02/25/2010

05:55 PM Bug #4848 (Resolved): only first change to Customize Documentation shown in Documentation=>Display
If I right-click Documentation=>Customize Documentation on an actor, I can change the documentation, and Documentatio... Derik Barseghian
05:28 PM Bug #4337: 1.0 -> 2.0 upgrade issues tracking bug
All tasks are closed. Closing this tracking bug. Chad Berkley
03:27 AM Bug #4337: 1.0 -> 2.0 upgrade issues tracking bug
Are there any remaining tasks for this bug? David Welker
05:27 PM Bug #4811: No "Get Metadata" item on right-click menu after dragging an EML actor to the canvas
Fixed in rev 23213. Chad Berkley
05:10 PM Bug #4847 (Resolved): Instantiating new actor from library gives error after restart
Steps:
- On 2.0 branch, drag out e.g. an ImageJ actor, and e.g. change its name and customize its documentation
- r...
Derik Barseghian
03:45 PM Bug #4846: error opening kar from local repository
I also noticed that, after restarting Kepler, the KAR and local repository *are* listed in the components pane, but t... Oliver Soong
03:38 PM Bug #4846: error opening kar from local repository
I just noticed, but I'm getting 2 of these errors every time I save to the local repository:
ERROR (org.kepler.obje...
Oliver Soong
02:50 PM Bug #4846 (Resolved): error opening kar from local repository
This is with wrp at r23202. I deleted .kepler and KeplerData. I create a trivial workflow (default SDF and RExpress... Oliver Soong
03:17 PM Bug #3976: Update Documentation for 2.0 release
All of the screenshots and hyperlinks for the getting started guide have been updated. debi staggs
02:37 PM Bug #4845 (Resolved): KAR dependencies not properly supporting module versions
The KAR dependencies are not being properly matched to module names and versions. Aaron Aaron
01:28 PM Bug #4801: out of memory
There's another way to trigger a memory leak. I'm not sure if these are 2 different leaks or 2 symptoms of the same ... Oliver Soong
11:55 AM Bug #4727: Cannot compile Ptolemy from IntelliJ
I have fixed this so that Intellij's class path is determined in a manner more similar to the build. David Welker
11:54 AM Bug #4709: error updating ptolemy/src
I have fixed this so that if ptolemy/src is not present due to a problem with checkout, "ant update" will attempt to ... David Welker
11:37 AM Bug #4831: Kepler (trunk) couldn't save a workflow to a remote repository as kar file
I just tried and it works. Jing Tao
08:44 AM Bug #4830: Kepler exit when using echoGridWriter actor with the wrong xml path.
Jing, my test on 2.0 branch works. Thanks. jianwu jianwu
03:11 AM Bug #3027: jar handling issues
This older bug can be closed. Multiple versions of the same jar can now be handled through either overrides or a spec... David Welker

02/24/2010

05:54 PM Bug #4830: Kepler exit when using echoGridWriter actor with the wrong xml path.
This issue was caused on PutServiceClient.java. Aprivate method on this class called System.exit(1) when it caught an... Jing Tao
01:50 PM Bug #4830: Kepler exit when using echoGridWriter actor with the wrong xml path.
make it available at kepler-dev. jianwu jianwu
12:38 PM Bug #4830 (Resolved): Kepler exit when using echoGridWriter actor with the wrong xml path.
The message for the execution of the attached workflow.
[run] EcogridUtils: The time to create instance is =...
jianwu jianwu
01:45 PM Bug #4811: No "Get Metadata" item on right-click menu after dragging an EML actor to the canvas
Fixed the missing director rt. click menu items. this was due to a menu reorg on the ptII side. Still working on th... Chad Berkley
11:11 AM Bug #4811: No "Get Metadata" item on right-click menu after dragging an EML actor to the canvas
On wrp suite (kepler trunk), I saw the "Get Metadata" menu item after right click an eml actor on an existed workflow... Jing Tao
10:26 AM Bug #4811: No "Get Metadata" item on right-click menu after dragging an EML actor to the canvas
The right click menu works if you rt click on the item in the library. I'll see if I can add this to the right click... Chad Berkley
01:11 PM Bug #4832: python actor outputting to disconnected composite output throws error
I take back the part about it affecting the 2.0 branch. I can't keep my windows straight. It is affecting wrp. Oliver Soong
01:09 PM Bug #4832: python actor outputting to disconnected composite output throws error
This seems to affect the 2.0 Kepler branch. Oliver Soong
01:07 PM Bug #4832 (Resolved): python actor outputting to disconnected composite output throws error
I have a composite actor with an output port. Inside, I have an Expression passing a token to the default python act... Oliver Soong
12:41 PM Bug #4831 (Resolved): Kepler (trunk) couldn't save a workflow to a remote repository as kar file
On Kepler(trunk):
1. Open the eml-simple-plot.moml file.
2. Select my host as a saving destination (click source bu...
Jing Tao
10:10 AM Bug #4517: Verify that the search capabilities work
To close this bug, close bug 4462 and bug 4799 Chad Berkley
10:08 AM Bug #4517: Verify that the search capabilities work
Except bug 4462 and 4799, the others function seems working Jing Tao
10:05 AM Bug #4799: "Login Anonymously" gave an error during the data search
The error message has gone. However,the GUI showed three times when I kept clicking the "Login Anonymously" button. ... Jing Tao

02/23/2010

06:22 PM Bug #4829 (New): User log4j files
We had a request that users' be able to maintain their own log4j files, e.g. in an environment where many users use t... Derik Barseghian
03:17 PM Bug #4828 (Resolved): Uploading a top-level workflow to the repository fails
Uploading a top-level workflow attempts to put the whole workflow, complete with doctype tag, into the KAR XML it the... Sean Riddle
12:58 PM Bug #4010: RExpression2 - tracking for backwards compatibility
First ... apologies. I just submitted an RExpression bug that you've already fixed in Rexpression2 (column major matr... Tom Parris
12:38 PM Bug #4827 (New): RExpression does not handle matrix tokens correctly.
I've attached a simple workflow that demonstrates a bug in the way the RExpression actor translates Kepler/Ptolemy ma... Tom Parris
10:41 AM Bug #4820: Out of memory Error: Error creating alternateGetMoml!
I think this was a problem with left over data from the provenance suite. I cannot replicate this. Closing for now.... Chad Berkley
10:40 AM Bug #4801: out of memory
I am not able to reproduce this in the kepler suite. I think this is a WRP/Provenance problem. I'm going to retarge... Chad Berkley
10:36 AM Bug #4826: intermittent exceptions displaying matrix tokens
I saw this in Ptolemy, so it is a Ptolemy bug, not a Kepler bug. I'll see if I can fix it before the final version of... Christopher Brooks
10:23 AM Bug #4826: intermittent exceptions displaying matrix tokens
Forgot to specify platform. Tom Parris
10:22 AM Bug #4826 (Resolved): intermittent exceptions displaying matrix tokens
I experience intermittent exceptions displaying matrix tokens in a simple workflow. The problems are more frequent w... Tom Parris
10:35 AM Bug #4516: Module Manager needs ability to install modules needed by KARs
Since 4483 is pushed to 2.x, pushing this one as well. most of the functionality is there, we just need a bit more t... Chad Berkley
10:34 AM Bug #4685: Create installers
verify that R can not be installed without not installing the entire R module. Chad Berkley
10:33 AM Bug #4803: Review the README file
Need to get a new contributor list. Chad Berkley
10:24 AM Bug #4799: "Login Anonymously" gave an error during the data search
this is not fixed for me. After merging the changes from the trunk to the branch, I have to click the "login anonymo... Chad Berkley
09:46 AM Bug #4578: tracking bug for changes to .kepler
Since 4785 has been closed, I don't think we're going to make any more changes to .kepler, so I'm closing this tracki... Chad Berkley

02/22/2010

04:11 PM Bug #4820: Out of memory Error: Error creating alternateGetMoml!
O.K. neglected to mention that I had cleared the KeplerData > modules > provenance data. Maybe that could have someth... debi staggs
04:05 PM Bug #4820: Out of memory Error: Error creating alternateGetMoml!
In Kepler. But just downloaded the new build for 2.0 branch, and now cannot replicate it. Will try a few more times... debi staggs
03:59 PM Bug #4820: Out of memory Error: Error creating alternateGetMoml!
What suite is this happening in? Kepler or WRP or other? Chad Berkley
03:06 PM Bug #4820: Out of memory Error: Error creating alternateGetMoml!
How big is the KeplerData folder (specifically, KeplerData/modules/provenance), and if you try this again, do you get... Oliver Soong
02:45 PM Bug #4820 (Resolved): Out of memory Error: Error creating alternateGetMoml!
While stepping through the examples in the documentation, I did the following:
1. Clicked on the Data tab and did ...
debi staggs
03:57 PM Bug #4483: Module dependencies in MoML files
pushing to post 2.0 release. Chad Berkley
02:34 PM Bug #4802: KARs in KeplerData/workflows are being parsed on startup
This only seems to be a problem with KARS that use the ReportLayoutKAREntryHandler. Aaron Aaron
01:54 PM Bug #4261: Long file name on windows
Just an update on the long-line length problem.
The issue is that certain file systems have limits
and svn makes the ...
Christopher Brooks
01:44 PM Bug #4799: "Login Anonymously" gave an error during the data search
This has now been fixed. debi staggs

02/19/2010

05:01 PM Bug #4727: Cannot compile Ptolemy from IntelliJ
Yeah, I will be working on this. In the meantime, we can just patch the individual IDEs so that they work for everyone. David Welker
04:59 PM Bug #4727: Cannot compile Ptolemy from IntelliJ
This bug has cropped up again, this time also affecting Eclipse (and presumably NetBeans as well). The solution, acco... Sean Riddle
01:08 PM Bug #4815 (New): Need a target to build kepler-styles.jar
On kepler 1.0.0, there was a target to build kpelr-styles.jar from eml repository. However, it was removed from keple... Jing Tao
01:06 PM Bug #4807: GetMetadata does nothing
In eml module, duplicated parameters were removed on eml-settings.xsl and eml-identifiers.xsl. Use a new target in em... Jing Tao

02/18/2010

05:18 PM Bug #4812 (New): local repository KAR [right click]->Delete fails when file does not exist
Save a KAR to a local repository, then delete the file outside Kepler, then from the components tree right click the ... Oliver Soong
03:48 PM Bug #4804: copy/paste relation changes width from Auto to 1
I'm not 100% sure this is the same bug, but if I delete the actors and relation, then undo the change, the relation w... Oliver Soong
03:48 PM Bug #4798: Create parser for KAR XML specification
this is a 2.0 bug in that it is blocking the component search bug ben leinfelder
03:46 PM Bug #4798: Create parser for KAR XML specification
https://code.kepler-project.org/code/kepler/trunk/modules/core/src/org/kepler/kar/karxml/KARFile.xsd
is what exists ...
ben leinfelder
12:51 PM Bug #4798: Create parser for KAR XML specification
As far as I know, no. That's a good point. I'll leave this open until there's some soft of official schema to check a... Sean Riddle
12:47 PM Bug #4798: Create parser for KAR XML specification
is there a complete XSD now? ben leinfelder
11:04 AM Bug #4798: Create parser for KAR XML specification
Wrote initial implementation. I'll leave this bug open for a day or two for interested parties (especially those invo... Sean Riddle
01:42 PM Bug #4811 (In Progress): No "Get Metadata" item on right-click menu after dragging an EML actor to the canvas
After dragging an EML actor from search result panel to canvas, there was a right-click menu item named "Get Metadata... Jing Tao
01:40 PM Bug #4810 (New): [right click]->Save Archive (KAR) on composite actor borks port attributes
Open the example MOML and save the composite actor as a KAR file. If you extract the MOML from the KAR, you'll see e... Oliver Soong
01:14 PM Bug #4808: ant clean-cache fails, NoClassDefFoundError, org/apache/commons/logging/LogFactory
This is fixed. Logging and third-party libraries should generally be kept out of the build. If you need a third-party... David Welker
12:51 PM Bug #4808: ant clean-cache fails, NoClassDefFoundError, org/apache/commons/logging/LogFactory
I am working on this bug now. It will be fixed shortly. David Welker
12:02 PM Bug #4808 (Resolved): ant clean-cache fails, NoClassDefFoundError, org/apache/commons/logging/LogFactory
Chris first reported this by e-mail, but I'm still seeing it. Aaron, svn says you put these lines in.
java.lang.N...
Oliver Soong
12:51 PM Bug #4809: Kepler storing authenticated search results
I'm not sure the search is being performed on the server. All I know is I'm not being asked to authenticate again. Oliver Soong
12:45 PM Bug #4809: Kepler storing authenticated search results
this has long been the case for datasets that have already been downloaded/cached - if you restart Kepler you don't n... ben leinfelder
12:18 PM Bug #4809 (New): Kepler storing authenticated search results
From a clean cache, start Kepler and search using authenticated sources. Authenticate and Kepler will return search ... Oliver Soong
12:02 PM Bug #4807: GetMetadata does nothing
I can see a error on console:
[run] ERROR: 'jar:file:/home/tao/project/kepler/core/lib/jar/kepler-styles.jar!/style/...
Jing Tao
11:49 AM Bug #4807 (Resolved): GetMetadata does nothing
Search for any data, right click on a search result, and select the only option, "GetMetadata". This does not seem t... Oliver Soong
11:44 AM Bug #4805: searching for data gives an NPE
It turned out that the NPE exception didn't affect the search result. But it still was annoying. We added a checking ... Jing Tao

02/17/2010

06:50 PM Bug #4793: Workflow Run Manager - clicking on row when provenance is off gives error
You also can't delete rows when provenance is off, because getDefaultProvenanceRecorder will return a Recording in th... Derik Barseghian
05:48 PM Bug #4797: Verify that multiple workflow/actor KARs work as expected
I have created a KAR file that contains all the actors in the actors module. I called it CoreActors.kar and attached... Aaron Aaron
04:11 PM Bug #4806 (New): add output port to Throw Exception
In some of my workflows, I have an actor that checks that certain components are installed and working before trying ... Oliver Soong
03:52 PM Bug #4805 (Resolved): searching for data gives an NPE
I searched for Kruger on both KNB and DEV using both authenticated and unauthenticated searches. I authenticated as ... Oliver Soong
03:34 PM Bug #4804: copy/paste relation changes width from Auto to 1
I can replicate this in Ptolemy
1. Right click on the relation and select "Configure". Note that the width is
set ...
Christopher Brooks
03:26 PM Bug #4804 (Resolved): copy/paste relation changes width from Auto to 1
Drag 2 actors to the canvas and join them with a relation. Copy the actors and relation and immediately paste it. T... Oliver Soong
03:19 PM Bug #4801: out of memory
I suggest using JProfiler to track this down. They have a trial offer. Edward and I have licenses. I don't have th... Christopher Brooks
02:57 PM Bug #4801: out of memory
After getting the out of memory error, I generated a heap histogram, restarted Kepler, and generated another heap his... Oliver Soong
02:13 PM Bug #4801 (In Progress): out of memory
ERROR: RecordingException: Unable to query data table: out of memory
I opened tpc01, ran it, closed it, opened tpc...
Oliver Soong
02:50 PM Bug #4803 (Resolved): Review the README file
Need to review the readme for factual accuracy and new content additions. Chad Berkley
02:44 PM Bug #4802: KARs in KeplerData/workflows are being parsed on startup
Ben can you email me the workflow that you're having problems with? Aaron Aaron
02:13 PM Bug #4802 (Resolved): KARs in KeplerData/workflows are being parsed on startup
When I launch Kepler with a clean cache but with a workflow sitting in my local workflow directory that uses protecte... ben leinfelder
02:43 PM Bug #4578: tracking bug for changes to .kepler
I would argue against having a task to clean the persistent directory. It's supposed to be persistent and not have t... Chad Berkley
02:35 PM Bug #4578: tracking bug for changes to .kepler
The kar directories that used to be in the cache are now in the KeplerData directory, so they are not deleted/rebuilt... Aaron Aaron
02:27 PM Bug #4578: tracking bug for changes to .kepler
ant clean-cache deletes .kepler/cache-2.0.0 in r23085 Derik Barseghian
02:12 PM Bug #4578: tracking bug for changes to .kepler
(In reply to comment #11)
> 'ant clean-cache' seems to not be deleting anything at the moment. shouldn't
> it?
Whoop...
Derik Barseghian
02:06 PM Bug #4578: tracking bug for changes to .kepler
'ant clean-cache' seems to not be deleting anything at the moment. shouldn't it? ben leinfelder
01:55 PM Bug #4792: NPE from Eml200DataSource
Now giving an actual message for the NPE and throwing it up the chain. ben leinfelder
01:41 PM Bug #4792: NPE from Eml200DataSource
i'll take this. ben leinfelder
12:41 PM Bug #4800 (Resolved): CacheManager can not insert WorkflowRun into cache
When you export a run, CacheManager's insertObject cannot insert WorkflowRun entries into cache. This is because the ... Derik Barseghian
12:26 PM Bug #4789: multiport input to composite actor seems to only pass first token
Inside the composite, the relation between the multiport and the RExpression has width 1. I'm not sure how or why it... Oliver Soong
11:26 AM Bug #4789: multiport input to composite actor seems to only pass first token
If I listen to the multiport input on the RExpression inside the composite, I see one token on a single channel. If ... Oliver Soong
10:03 AM Bug #4764: ProvenanceRecorder.changeExecuted slow after workflow run
I finally remembered that I can look directly at the provenance db while Kepler's running. I just deleted all the ru... Oliver Soong

02/16/2010

04:38 PM Bug #4799 (Resolved): "Login Anonymously" gave an error during the data search
After running Kepler, I typed the word "Datos" on the Search Data field and clicked search button. An Authentication ... Jing Tao
04:32 PM Bug #4798 (Resolved): Create parser for KAR XML specification
Create a parser for the new KAR XML format, for use especially when it is returned from a metacat query. Sean Riddle
03:51 PM Bug #4797 (Resolved): Verify that multiple workflow/actor KARs work as expected
The KAR system was written to allow for storing multiple actors/workflows inside the KAR. This has not been well tes... Aaron Aaron
02:20 PM Bug #4730: Kepler cannot run workflows stored in KAR files from the command-line.
Running kars is not supported except in a server configuration. The reason for this is that the kar is first sent to... Chad Berkley
02:18 PM Bug #4786: workflow file saved in KAR does not open when extracted
KeplerMetadataExtractor was using Document.getFirstChild() to get the rootNode when it should have been using Documen... Aaron Aaron
 

Also available in: Atom