Activity
From 04/06/2008 to 05/05/2008
05/05/2008
- 05:19 PM Bug #3274: IPCC_Base_Layers.xml work-flow gets out of memeory error
- At end of January 2008, the src/org/ecoinformatics/ecogrid/queryservice/QueryServiceGetToStreamClient.java class some...
- 01:01 PM Bug #3274: IPCC_Base_Layers.xml work-flow gets out of memeory error
- 5M is a typo :)
- 12:47 PM Bug #3274: IPCC_Base_Layers.xml work-flow gets out of memeory error
- heap size was 512M, not 5M; so I hope that is a typo in comment #1
- 12:35 PM Bug #3274: IPCC_Base_Layers.xml work-flow gets out of memeory error
- Previously this workflow worked OK (during training in Jan 2008) so heap space usage would appear to be a 'new' probl...
- 12:18 PM Bug #3274 (Resolved): IPCC_Base_Layers.xml work-flow gets out of memeory error
- When this work-flow tried to download 10 big data files, it can finish part of downloading - maybe 6 and the rest 4 w...
- 03:23 PM Bug #3275: EML200DataSource interface
- HIstorical Note: The EML 2 Dataset actor was added to the tree mainly for use in displaying local file based data pac...
- 01:15 PM Bug #3275 (New): EML200DataSource interface
- 1)When you drag an EML 2 Dataset actor to canvas and Configure Actor, you're presented with different parameters than...
- 03:15 PM Bug #3276 (Resolved): MatlabExpression not finding ptmatlab.dylib
- MatlabExpression actor is not finding ptmatlab.dylib on the mac, after setting DYLD_LIBRARY_PATH=/Applications/MATLAB...
- 03:12 PM Bug #3266: ENM/GARP_MultipleSpecies-V.xml problems
- got this to work on windows and mostly on linux. it wasn't working due to the setting of the .kepler directory as th...
- 02:03 PM Bug #3266: ENM/GARP_MultipleSpecies-V.xml problems
- workflow completes successfully on OSX
- 01:50 PM Bug #3266: ENM/GARP_MultipleSpecies-V.xml problems
- this workflow crashes on windows almost immediately after beginning execution. on ubuntu, it doesn't crash until alm...
- 12:35 PM Bug #3269: authentication system throws NPE
- this now works in the cvs branch and in a new installer i just created. closing this bug.
- 10:03 AM Bug #3273 (Resolved): Improve authentication dialogue so that the reason for authentication is clear
- As it exists currently, the LDAP authentication mechanism is reused for a number of authentication scenarios. It is ...
- 09:50 AM Bug #2960: Change RExpression actor to use meaningful graphic file output names
- During the follow up meeting, we decided to use the following approach for the R expression file output:
For each run...
05/04/2008
- 11:32 AM Bug #3269: authentication system throws NPE
- i can recreate this error in the installer version of kepler, but not in my local development version (using release ...
- 10:45 AM Bug #3271: Random Errors with data authentication system
- I am able to start an authenticated query, hit cancel when prompted for login (once for each document type being sear...
- 10:38 AM Bug #3270: disable DIGIR Data Source by default
- i've committed changes to the release branch that allow the selection status of the services to be preserved when the...
05/02/2008
- 04:04 PM Bug #3270: disable DIGIR Data Source by default
- ben - awhile ago i had things such that when you clicked on the data tab it would then invoke the update, graying out...
- 03:17 PM Bug #3270: disable DIGIR Data Source by default
- also, I don't know that there is a benefit for waiting 30 seconds before executing the services list refresh thread. ...
- 03:16 PM Bug #3270: disable DIGIR Data Source by default
- keep in mind that there is a 30 second delay after kepler starts up at which point the service list is automatically ...
- 03:10 PM Bug #3270: disable DIGIR Data Source by default
- Chad, i think we can reproduce the reset selection issue (at least in ubuntu).
1. Diselect digir in source window an... - 03:01 PM Bug #3270: disable DIGIR Data Source by default
- There seem to be some major issues with the threading in this functionality. The check box for digir is getting rese...
- 02:48 PM Bug #3270: disable DIGIR Data Source by default
- this may not as straightforward as you might think since the services are retrieved from the registry every time kepl...
- 02:21 PM Bug #3270 (Resolved): disable DIGIR Data Source by default
- chatting on irc, chad jing and i think we should disable DIGIR in the Services List panel by default, since it's stil...
- 03:46 PM Bug #3269: authentication system throws NPE
- The login anonymously is needed for the kepler component repository. It's there so that people don't have to have a ...
- 03:23 PM Bug #3269: authentication system throws NPE
- is there a reason we have the "login anonymously" button?
i believe it is an artifact of functionality that is no lon... - 02:05 PM Bug #3269 (Resolved): authentication system throws NPE
- after a fresh install, go to the data tab. remove the digir selection, search for 'datos'. click the 'login anonymo...
- 03:07 PM Bug #3271: Random Errors with data authentication system
- The cancel button does not cancel after the 2nd authentication. You may have one successful search, but if you resta...
- 03:03 PM Bug #3271 (Resolved): Random Errors with data authentication system
- There are many random errors occurring with the data search/authentication system. This is a tracking bug for these ...
- 01:14 PM Bug #3268: Python/PythonFileLineCounter.xml workflow problem
- Changed it to use itself instead of build.xml.
- 01:11 PM Bug #3268: Python/PythonFileLineCounter.xml workflow problem
- Pick any text file that is in the release. The workflow just counts lines. I had assumed that build.xml would be there
- 12:23 PM Bug #3268: Python/PythonFileLineCounter.xml workflow problem
- This should be changed. nothing should depend on build.xml in the installed version of kepler.
- 12:14 PM Bug #3268 (Resolved): Python/PythonFileLineCounter.xml workflow problem
- This workflow wants to operate on file build.xml, but build.xml is not in the release.
- 12:14 PM Bug #3266: ENM/GARP_MultipleSpecies-V.xml problems
- fixed the mac problem by adding a plugins symlink to the working dir.
- 11:02 AM Bug #3266 (In Progress): ENM/GARP_MultipleSpecies-V.xml problems
- ENM/GARP_MultipleSpecies-V.xml crashes Ubuntu Kepler.
On mac execution completes but just gives ImageJ "Unrecognize... - 12:08 PM Bug #3267: ENM/GARP_SingleSpecies_BestRuleSet-IV.xml problems
- Fixed the problem on the mac by creating a symlink to the plugins directory.
- 11:38 AM Bug #3267: ENM/GARP_SingleSpecies_BestRuleSet-IV.xml problems
- The Mac error 'ImageJ "Unrecognized comand: ASC
TextReader" also occurs on the GARP Model ImageJ workflow. It looks l... - 11:32 AM Bug #3267: ENM/GARP_SingleSpecies_BestRuleSet-IV.xml problems
- It crashed my kepler in ubuntu too.
- 11:25 AM Bug #3267: ENM/GARP_SingleSpecies_BestRuleSet-IV.xml problems
- I just ran this on ubuntu and had no problems. Is there a way to make the error occur?
- 11:14 AM Bug #3267 (Resolved): ENM/GARP_SingleSpecies_BestRuleSet-IV.xml problems
- ENM/GARP_SingleSpecies_BestRuleSet-IV.xml crashes Ubuntu Kepler.
On mac execution completes but gives ImageJ "Unreco... - 11:20 AM Bug #3250: windows exe opens dos box
- kepler.exe has been changed back to a gui application and kepler-console.bat
added. (We chose .bat instead of .exe s... - 10:41 AM Bug #3265 (New): ascToRaw needs more error handling
- There are several try/catch statements in AscToRaw.java that either have nothing in the catch statement or just a sin...
- 10:40 AM Bug #3264: workflow ENM/ASC2RAWTest gives an exception under ubuntu
- fixed. the directory listing actor was pulling in all the files in the lib/testdata/garp directory instead of just t...
- 10:30 AM Bug #3264: workflow ENM/ASC2RAWTest gives an exception under ubuntu
- This looks like a problem with AscToRaw.getHeaderInformation(). The error handling for missing header information is...
- 10:03 AM Bug #3264: workflow ENM/ASC2RAWTest gives an exception under ubuntu
- I also see the error on 2nd run problem on the Mac. So ignore comment #2
If one deletes the *.raw files created the ... - 09:55 AM Bug #3264: workflow ENM/ASC2RAWTest gives an exception under ubuntu
- I just tried in mac too. The first time, the workflow worked. However, it failed when i clicked the run button at the...
- 09:34 AM Bug #3264: workflow ENM/ASC2RAWTest gives an exception under ubuntu
- Dan, did you try run twice? Sometimes, the first time worked, but the second time failed.
- 09:11 AM Bug #3264: workflow ENM/ASC2RAWTest gives an exception under ubuntu
- This workflow seems to run fine on a Mac. This suggests that the problem is not with the workflow (ie a platform spec...
- 10:07 AM Bug #3261: ApplicationFramework/CredentialRetrieve workflow has problems
- I removed this workflow since no one commented.
05/01/2008
- 06:39 PM Bug #3254: Annotations for some Ptolemy demos are not wrapped
- The annotations in the Ptolemy demos are fixed.
I hacked up a filter that did most of the heavy lifting.
The Ptolemy ... - 01:10 PM Bug #3254: Annotations for some Ptolemy demos are not wrapped
- I'm still at it . . .
The filter has problems. I should have this done sometime today.
- 12:08 PM Bug #3254: Annotations for some Ptolemy demos are not wrapped
- christopher, is this now fixed? If so, can I close this bug?
- 10:49 AM Bug #3254: Annotations for some Ptolemy demos are not wrapped
- Ok, I have a filter than can fix this problem.
Unless I hear otherwise, I'm going to update the appropriate demos
in ... - 03:34 PM Bug #3264: workflow ENM/ASC2RAWTest gives an exception under ubuntu
- added that this blocks 3245
- 03:33 PM Bug #3264 (Resolved): workflow ENM/ASC2RAWTest gives an exception under ubuntu
- This workflow needs to be removed or fixed for release
Running under Ubuntu gives an exception that starts with: "... - 03:21 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- The file licenses.txt now includes the text of all of the non-BSD licenses that apply to libraries included in the re...
- 01:57 PM Bug #3261: ApplicationFramework/CredentialRetrieve workflow has problems
- I've seen that change of UI look and feel before on linux. I'm not sure what causes it.
I think we can remove thi... - 01:49 PM Bug #3261 (Resolved): ApplicationFramework/CredentialRetrieve workflow has problems
- I think this needs to be fixed or removed for release.
To reproduce (on Ubuntu running Kepler from Chad's latest i... - 11:39 AM Bug #3253: IzPack Windows Installer should install in a directory with the version number
- BTW -
Ptolemy II does the Ptolemy/ptII7.0.1 trick, take a look
in ptII/adm/gen-7.0 of the rel-7-0-beta-2 tree
Basic... - 11:15 AM Bug #3253: IzPack Windows Installer should install in a directory with the version number
- I changed the installer to default to Kepler-1.0.0. I can't find a way to specify ../Kepler/1.0 or ../Kepler/Kepler-...
- 11:17 AM Bug #3250: windows exe opens dos box
- maybe as a compromise, we could have kepler.exe and kepler-console.exe. The first would not open the dos box, the la...
- 09:23 AM Bug #3196: Find/Change license on gpl/lgpl code
- Did all tasks in comment 13. Also removed libgishull.so. I think this bug is now finished. I'm closing it.
04/30/2008
- 11:54 PM Bug #3255: Diva ConcurrentModificationException
- I've checked in a fix to ptolemy.kernel.util.Attribute.
Basically, if incrementWorkspaceVersion is false, then get w... - 07:36 PM Bug #3255: Diva ConcurrentModificationException
- I think I've narrowed down the problem and hope to have a solution tonight
or tomorrow. I posted my notes to the ptd... - 12:33 PM Bug #3255: Diva ConcurrentModificationException
- I saw it with the Kepler 1.0.0 kepler.exe
I can't repeat it. I was trying
ptolemy/actor/lib/hoc/demo/ApplyFFT/Apply... - 12:16 PM Bug #3255: Diva ConcurrentModificationException
- You're seeing this when you run the installer or a specific workflow?
- 09:18 AM Bug #3255 (Resolved): Diva ConcurrentModificationException
- I'm seeing the following stack trace in the DOS window when
I run the Kepler-1.0.0 installer on a Windows 2003 Serve... - 05:51 PM Bug #3196: Find/Change license on gpl/lgpl code
- The following source files have been deleted:
cpp/gis/grass/GISHull/hull.cpp
org/nmiworkflow/GlobusJob.java
org/nmiw... - 05:37 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- We need to add to the distribution a file including all of the non-BSD licenses that apply to libraries included in t...
- 03:26 PM Bug #3250: windows exe opens dos box
- Reopening this an an enhancement (Forgot to leave it open last time).
- 03:16 PM Bug #3250: windows exe opens dos box
- I'm removing the block on 3245 for this bug, but leaving
it open. I'm also changing this to an enhancment.
Feel free... - 02:01 PM Bug #3250: windows exe opens dos box
- The configuration was changed from gui to console so that stdout would appear.
I'm not sure sending it to a log file ... - 12:20 PM Bug #3250: windows exe opens dos box
- Kepler.exe is created using Launch4j.
Docs are at http://launch4j.sourceforge.net/docs.html#Configuration_file
Ptolem... - 11:55 AM Bug #3250: windows exe opens dos box
- I don't see how to easily do this, so I'm going to leave it as is.
- 02:21 PM Bug #3257: Typos in html docs and demos.
- Checked in fixed typos to release branch.
- 02:07 PM Bug #3257 (Resolved): Typos in html docs and demos.
- A couple of typos in the documentation and demos.
- 01:24 PM Bug #3254: Annotations for some Ptolemy demos are not wrapped
- This is an 'old' problem that, as I remember, had to do with the exact way the annotation was created. We had to go b...
- 12:31 PM Bug #3254: Annotations for some Ptolemy demos are not wrapped
- These models are in Ptolemy.
I don't know if this should hold up the release.
To replicate, start Kepler 1.0.0 from t... - 12:13 PM Bug #3254: Annotations for some Ptolemy demos are not wrapped
- which file is this in?
- 09:11 AM Bug #3254 (Resolved): Annotations for some Ptolemy demos are not wrapped
- The annotation for the SDF Expression demo is not wrapped,
it runs off the right side of the screen.
However, the... - 12:17 PM Bug #3248: .sh files should be removed for windows installer
- kepler.sh will stay. closing this bug.
- 11:15 AM Bug #3248: .sh files should be removed for windows installer
- The kepler.exe from the 4/29 kepler-1.0.0 windows installer works for me.
However, I really think that we need to in... - 11:08 AM Bug #3248: .sh files should be removed for windows installer
- It would be nice if kepler.exe were the only executable on Windows.
Christopher: does this work for you on cygwin? - 10:57 AM Bug #3248: .sh files should be removed for windows installer
- ok, I'll leave them. I've asked dan crawl if he's going to create a keplerexecute.bat file. right now, the only bat...
- 07:32 AM Bug #3248: .sh files should be removed for windows installer
- I think the .sh files should stay under Windows
as I use cygwin. I don't think the .bat files
will work under cygwin. - 11:53 AM Bug #3256: path problems on Mac with CommandLine demo workflows
- fixed with method from comment 2.
- 11:32 AM Bug #3256: path problems on Mac with CommandLine demo workflows
- Solution is to create a symbolic link in the Kepler.app/Kepler directory back to the /Applications/Kepler/demos direc...
- 10:58 AM Bug #3256: path problems on Mac with CommandLine demo workflows
- The demos/getting-started/03_ImageDisplay.xml example also fails on the Mac
It looks like moving the demos dir up on... - 10:52 AM Bug #3256 (Resolved): path problems on Mac with CommandLine demo workflows
- On 1.0 release installer check, the CommandLine_1 and CommandLine_2 demo workflows (in demos/getting-started dir) fai...
- 10:30 AM Bug #3252: Ptolemy ack in installer splash screen has typos and was outdated
- I'm going to go ahead and close this bug since it's fixed in cvs. I'll go back and check all of the 3245 blockers wh...
- 08:13 AM Bug #3252 (Resolved): Ptolemy ack in installer splash screen has typos and was outdated
- In the Kepler 1.0.0 IzPack installer splash screen, there is a
missing "S" and an extra </p> in the Ptolemy support ... - 10:28 AM Bug #3247: Documentation intro screen typo
- fixed.
- 10:26 AM Bug #3246: Typo in Documentation Screen
- fixed.
- 08:19 AM Bug #3253 (Resolved): IzPack Windows Installer should install in a directory with the version number
- The installer should install in a directory that contains the
version number of the release.
Under Windows, the d... - 08:05 AM Bug #3251 (Resolved): Installer Splash Screen should be an HTML Widget
- Is there anyway to use an HTML widget for the Installation Screen here?
The Ptolemy IzPack Installer uses an HTML wi...
04/29/2008
- 05:15 PM Bug #3250 (Resolved): windows exe opens dos box
- try to make the kepler.exe file not open a dos box with windows.
- 05:11 PM Bug #3248 (Resolved): .sh files should be removed for windows installer
- remove the kepler.sh and keplerexecute.sh files in the windows installer.
- 05:02 PM Bug #3247: Documentation intro screen typo
- This is also the "about" screen.
- 05:01 PM Bug #3247: Documentation intro screen typo
- Date is also wrong.
- 04:59 PM Bug #3247 (Resolved): Documentation intro screen typo
- Still says "Release Candidate"
- 04:56 PM Bug #3246 (Resolved): Typo in Documentation Screen
- Giude to Ecological Niche Modeling should be *Guide* to ...
- 12:30 PM Bug #3245 (Resolved): Release 1.0 installer tracking bug
- Current issues:
1) IzPack is extremely slow when an installer is built for multiple OSs. I've alerted the IzPack t...
04/28/2008
- 02:10 PM Bug #3195: Check all documentation for 1.0 release
- I have now reviewed all documentation. Kirstin is making changes and will have the pdf files for the release hopeful...
04/25/2008
- 01:40 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- Here's a list of the files I removed. the ones with a "--" are had a secondary compile time dependency on the jar (i...
- 12:12 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- Here are other file that will have to be removed if these jars are deleted. This list does not include the actors th...
- 11:02 AM Bug #3198: test dynamic library installations on all platforms
- this now works on all platforms. will retest with real installers before the release.
- 09:59 AM Bug #3195: Check all documentation for 1.0 release
- I've incorporated Chad's User Manual and GSG feedback and created new PDF files of the docs for the 1.0.0 release. Al...
04/24/2008
- 11:50 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- I'm closing the Matlab bug because I opened bug# 3242
"dlls should not go in c:/Windows/System32" - 03:04 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- cplibs.bat/sh is run by the installer. If it doesn't run, the libraries for the gdal stuff don't work. I'm open to ...
- 02:50 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- Sorry, I forgot to add -kb. I added it to the linux and mac versions.
The current ptmatlab.dll works for me, both in... - 12:43 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- I fixed the cvs -kb problem of ptmatlab.dll in the devel head and release branch.
- 12:23 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- This is the cygcheck -s output from my machine.
- 12:22 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- I'm not sure what's up with c:/Windows/System32/ptmatlab.dll.
The file I have is
$ ls -l c:/Windows/System32/ptmatlab... - 12:11 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- I updated the repository so that ptmatlab.dll is executable. I'm moving Christopher's other suggestions for permissi...
- 11:48 PM Bug #3242 (Resolved): dlls should not go in c:/Windows/System32
- In bug# 3233, I noticed that dlls were showing up in c:/Windows/System32.
Chad wrote:
> cplibs.bat/sh is run by the... - 06:30 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- We can delete the following jar files:
doublePolygon.jar
NimrodService.jar
griddlesActorLib.jar
ncsu.jar
edu.sdsc.gl... - 03:01 PM Bug #3216: Demo workflows do not run
- I've sent the list of non-working demos to everyone. It's best to discard them as they are not critical except for a ...
- 12:40 PM Bug #3234: IJMacro does not work in several demo workflows
- Works for me now on a clean checkout. Not sure what was up.
- 11:55 AM Bug #3234: IJMacro does not work in several demo workflows
- Sean, can you please clarify whether this is still a bug. If it isn't, please close it. If you are having related i...
- 12:12 PM Bug #3240 (Resolved): Fix permissions on kepler CVS files.
- Christopher suggests we redo all of the permissions for kepler:
I suggest fixing the permissions for the java and ... - 11:50 AM Bug #3237: Search actor in remote repository doesn't work
- Following the above plan, we fixed the issue. Ben, chand and i tested it and it worked. Now kepler can search the rem...
- 11:45 AM Bug #3195: Check all documentation for 1.0 release
- finished reviewing the GSG. I checked my changes into CVS with track changes on.
- 09:25 AM Bug #3238 (Resolved): Refactor NMI build
- The NMI build needs to be refactored in several ways after the release. Here's the list of things I think needs to b...
04/23/2008
- 05:37 PM Bug #3196: Find/Change license on gpl/lgpl code
- The header files in the following folders under src/cpp need to have license text inserted into them:
backprop
garp
... - 09:54 AM Bug #3196: Find/Change license on gpl/lgpl code
- The following source files still have GPL licenses:
- cpp/gis/grass/GISHull/hull.cpp
- org/geon/GridOverlay.java
- o... - 04:00 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- FYI, I had no problems with ptmatlab.dll on cygwin.
Was your c:\windows\system32\ptmatlab.dll was the same version f... - 03:37 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- I replaced the kepler/lib/ptmatlab.dll with the $PTII/lib/ptmatlab.dll_msvc
because the previous ptmatlab.dll gave me... - 03:47 PM Bug #2990: file|open dialog should open in workflows directory
- I'm reopening this bug because if the user uses the kepler.sh script
then having File->Open open kepler/demos is odd.... - 12:52 PM Bug #3097: incorrect classpath in generated ptexecute.sh and momlexecute.sh
- I updated kepler.exe for windows and removed kepler.bat.
The remaining tasks are enhancements for a later release. - 12:24 PM Bug #3207: consolidate command line execution actors
- Ok, I folded these changes into ptII rel-7-0-beta-2.
I spent some time working with the file redirection operators by... - 12:23 PM Bug #3207: consolidate command line execution actors
- This model writes a random number to a file using the Exec actor, but
the file is not created before the attempt to r... - 11:02 AM Bug #3108: ENM GARP Baseline 3-Actor GARP - Browser Display demo fails with NameDuplication: convertTo?
- A workflow in the workflows/ folder doesn't affect Kepler 1.0, since we're not releasing it, just demos/
- 10:02 AM Bug #3182: check for consistent licensing text in all source files
- Most of the remaining issues are listed under bug #2318 now (as well as bug #3196).
*** This bug has been marked as ... - 10:02 AM Bug #2318: Copyrights and licenses of subpackages need to be handled
- *** Bug 3182 has been marked as a duplicate of this bug. ***
- 08:24 AM Bug #3237: Search actor in remote repository doesn't work
- Targeting this at 1.0.0 to fix a critical problem.
04/22/2008
- 10:06 PM Bug #3237 (Resolved): Search actor in remote repository doesn't work
- The reason of the search not work is that kepler sets "entity" as
namespace when it searches actors. In query.xsd an... - 05:46 PM Bug #3026: Actor documentation does not appear in older workflows
- All updated workflows have been committed.
- 05:30 PM Bug #3115: Need to check Kepler for memory leaks
- I did not detect significant memory leaks. From a cost-benefit perspective, there is little advantage to push to find...
- 05:10 PM Bug #3207: consolidate command line execution actors
- Ok, I'll update ptII rel-7-0-beta-2 tomorrow (Wed).
I'm taking this bug pending the update. - 02:14 PM Bug #3207: consolidate command line execution actors
- By prepending sh or cmd, the command can use file redirection operators.
I tested this actor on several platforms, a... - 05:07 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- I'm just back from running a workshop yesterday.
I can patch these on Wed, 4/23, so I'm taking this bug. I'll reassi... - 04:50 PM Bug #3195: Check all documentation for 1.0 release
page 280: The page ends with "can be found here:" but the path after the colon
is not a link.
page 303: include a U...
04/21/2008
- 04:34 PM Bug #3195: Check all documentation for 1.0 release
page 170: heading of table is widowed
page 181: kepler earthgrid
page 181: table header widowed
page 183: in the ...- 11:45 AM Bug #3195: Check all documentation for 1.0 release
- need to update http://www.kepler-project.org/Wiki.jsp?page=Documentation
- 02:05 PM Bug #3097: incorrect classpath in generated ptexecute.sh and momlexecute.sh
- I moved the wfexecute functionality into kepler.sh and kepler.bat.
Remaining tasks:
1. kepler.bat functionality sho... - 01:01 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- Okay, it looks like I was looking at compile-time dependencies instead of the full list. That negates the problems wi...
- 11:49 AM Bug #2318: Copyrights and licenses of subpackages need to be handled
- We need to include extra JARs per these license restrictions: http://java.sun.com/webservices/docs/1.5/ReleaseNotes.h...
- 11:38 AM Bug #3234: IJMacro does not work in several demo workflows
- Seems to be a problem with my checkout. IJMacro works fine now. I am still getting hangs whenever I need to use a Dar...
- 10:09 AM Bug #3236 (Resolved): remove strict requirements for PTII and KEPLER env variables
- From an email from matt on kepler-dev:
I agree, it would be better if we could build without requiring that
JAVA...
04/20/2008
- 03:52 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- Once the patches in comments #1 and #2 have been applied, this bug can be closed.
- 03:47 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- UtilityFunctions.loadLibrary() fails to find the jni library on Linux. Please apply the attached patch.
- 03:43 PM Bug #3233: finalize ptolemy matlab actor for 1.0 release
- I updated the KAR file to use TextStyle for the expression parameter, but the KAR parser ignores it. (If I add the sa...
04/18/2008
- 04:10 PM Bug #3207: consolidate command line execution actors
- I did the merge.
I added a parameter called "prependPlatformDependentShellCommand",
which, if set to true, will prepe... - 08:58 AM Bug #3207: consolidate command line execution actors
- I'm part way through the merge, and had two questions.
1) The new version of the actor always uses adds prepends cmd... - 03:59 PM Bug #3195: Check all documentation for 1.0 release
page 115: figure 5.17 looks kinda bad. the pull out box needs to be redone.
page 122: reference to the "kepler ear...- 07:52 AM Bug #3195: Check all documentation for 1.0 release
- Chad wrote:
> page 13: Kepler 1.0 is based on the Jan 31 ...
> It's based on Ptolemy 7 beta 2
Kepler 1.0 is based o... - 12:07 PM Bug #3234: IJMacro does not work in several demo workflows
- Using a new check out of the 1.0 RELEASE version of Kepler, I see no problems with the IJMacro actor on a MacbookPro,...
- 09:01 AM Bug #3234: IJMacro does not work in several demo workflows
- Is this in the head of CVS or the 1.0 release branch?
I cannot check on a Mac at the moment, but the message looks l... - 12:38 AM Bug #3234 (Resolved): IJMacro does not work in several demo workflows
- Running on an installed version of Kepler on OS X.5, in several ENM workflows that try to use IJMacro to display an i...
- 10:35 AM Bug #3235 (New): Add an Edit, Select All menu item and respective accelerator
- Many (most?) programs have a Select All feature. This would allow, for example, a Kepler Mac user to "apple A" and th...
04/17/2008
- 08:35 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- Good News. I have finished examining all of the remaining runtime jars, and I have found only one major problem.
The... - 05:28 PM Bug #3209: ecogrid SearchRegistryAction error when disconnected from network
- Remove the error message panel and decrease debug level from error to warn in src/org/ecoinformatics/seek/ecogrid/Sea...
- 05:01 PM Bug #3195: Check all documentation for 1.0 release
- page 13: Kepler 1.0 is based on the Jan 31 ...
It's based on Ptolemy 7 beta 2
page 13: cheminformatics
is that the ... - 04:44 PM Bug #3233 (Resolved): finalize ptolemy matlab actor for 1.0 release
- For 1.0 release, we decided to use the Ptolemy matlab actor. The following needs to be done:
- use TextArea for ex... - 01:13 PM Bug #3207: consolidate command line execution actors
- I'll take this bug and fold the Exec actor changes into the ptII release
branch. - 12:57 PM Bug #3207: consolidate command line execution actors
- I committed my remaining updates to Exec.java. Once it has been folded into ptII CVS, this bug can be closed.
- 10:57 AM Bug #3225: If R is not present, then error message just says "null"
- Added a better error message. Also pointed the user to section 8.2.2 of the user manual that explains how to install...
- 09:38 AM Bug #3208: consolidate matlab actors
- retarget to 1.1
- 09:32 AM Bug #3230: Matrix Viewer actor does not accept RExpression matrices
- The RExpression matrix was created solely to pass a matrix to another RExpression actor. It is NOT a Kepler/Ptolemy m...
- 09:25 AM Bug #3226: Eval: subplots from RExpression overly condensed
- Differences in graphs created by R depend on the graphics device (i.e. png file, pdf file, or R plotting window and t...
04/16/2008
- 04:48 PM Bug #3231 (New): 3-way table output (multiway cross tabulation actor?)
- 3-way tables are a useful extension of 2-way tables, which are a basic tool for exploring relationships in data. R h...
- 04:40 PM Bug #3230 (New): Matrix Viewer actor does not accept RExpression matrices
- 2-way tables are a common way to view relationships between bivariate data. The The RExpression actor is quite good ...
- 04:23 PM Bug #3209: ecogrid SearchRegistryAction error when disconnected from network
- The short term solution is just removing the error message. Kepler will keep silent if it couldn't connect to the reg...
- 03:40 PM Bug #3209: ecogrid SearchRegistryAction error when disconnected from network
- retarget to 1.1
- 04:21 PM Bug #3228 (New): Kepler need a central place to handle network disconnection
- When we start kepler, if there is no network disconnection, kepler should have a decent way to handle it - for exampl...
- 04:08 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- odc-kepler-0.1.r18530.jar has been removed from 1.0 branch.
- 03:59 PM Bug #3206: ecogrid error message occurs when running disconnected from network
- It was fixed base above solution.
- 03:42 PM Bug #3226 (New): Eval: subplots from RExpression overly condensed
- Using nightly build 14 Apr 08 under WinXP. The code below generates a publication-quality graphic when run from the ...
- 03:30 PM Bug #3115: Need to check Kepler for memory leaks
- My notes are at:
http://ptolemy.eecs.berkeley.edu/ptolemyII/ptIIlatest/ptII/doc/coding/performance.htm - 03:24 PM Bug #3225 (Resolved): If R is not present, then error message just says "null"
- If I build Kepler using RELEASE-BRANCH-1-0-0 and ptII using rel-7-0-beta-2
from source using:
ant full-clean rebuil... - 01:01 PM Bug #3196: Find/Change license on gpl/lgpl code
- The four Opendap actor files now have a BSD license.
04/15/2008
- 08:01 PM Bug #3097: incorrect classpath in generated ptexecute.sh and momlexecute.sh
- I tried wfexecute, it looks pretty slick, below are some comments.
- The name is a little funny. wtf comes to mind, ... - 07:16 PM Bug #3122: Get installer size down
- For comparison,
Ptolemy II 7.0.1 Windows Installer: 131Mb
Ptolemy II 7.0.1 Windows zip: 44.7Mb
Ptolemy II 7.0.1 Unix... - 07:03 PM Bug #3207: consolidate command line execution actors
- I can fold this in to the ptII devel tree asap, but should this ship in 1.0.0
or wait? - 04:13 PM Bug #3207: consolidate command line execution actors
- I updated the External Execution actor based on the design in comment #2.
If there are no complaints, I will remove ... - 07:02 PM Bug #3208: consolidate matlab actors
- Perhaps consolidating the Matlab actors should be post 1.0.0?
- 06:59 PM Bug #2531: The link from Kepler intro page to the Ptolemy quick links page is broken
- I checked this in Kepler-1.0.0 and the Ptolemy demos all open.
I'm closing this bug. - 06:29 PM Bug #3179: Distinguish "download" and "information" attribute values in eml distributlon online url
- Tested it against server and it worked.
- 03:17 PM Bug #3209: ecogrid SearchRegistryAction error when disconnected from network
- I'm reopening this since the error window now occurs regardless of any data sources actually being used (either the D...
- 02:51 PM Bug #3130: Add an accelerator (keyboard shortcut) for opening a new blank workflow
- Thanks Christopher, works great.
- 02:39 PM Bug #3206: ecogrid error message occurs when running disconnected from network
- I followed the procedure and duplicated this error message. However, i didn't see it hurt anything. I took a look at ...
- 02:34 PM Bug #3223 (New): interactive graphics in R
- Hello,
Just fyi, the identify() function does not seem to work when called from the RExpression actor. (I'm using... - 02:07 PM Bug #3222 (New): save new workflow template
- Hello,
This is a suggestion about usability, not a bug. It would be very nice to be able to save a workflow that... - 01:09 PM Bug #3144: add link in OSX Applications folder
- The mac installer now installs like this:
/Applications/Kepler/Kepler(.app) - launcher directory...includes most of ... - 12:18 PM Bug #3221 (New): offset new windows
- New blank workflow windows overlap exactly. It would be nice if each new window was slightly offset from the last.
- 11:35 AM Bug #3202: Remove the workflows directory from the release
- I created two clean targets in the build script so that you can either clean the directory for a windows or a mac ins...
04/14/2008
- 11:29 PM Bug #3130: Add an accelerator (keyboard shortcut) for opening a new blank workflow
- I merged these changes into the ptII tree, but not into
the ptII rel-7-0-beta-2 branch for two reasons:
1) Adding Con... - 01:26 PM Bug #3130: Add an accelerator (keyboard shortcut) for opening a new blank workflow
- This has been implemented in TableauFrame.java.
However, ClassDefinitionController.java already set meta-n to create... - 06:55 PM Bug #2962: Add metadata to data tokens so that it can be used downstream
- Turns out there is a strict vector test that does not allow extra attributes on a vector (used in barplot() method). ...
- 06:31 PM Bug #3179: Distinguish "download" and "information" attribute values in eml distributlon online url
- Modified the Entity and EML2Parser class. The value of attribute "function" in distribution url will be stored. In EM...
- 03:01 PM Bug #3140: RBNBToKepler2 actor output port generation problem
- niagara-dev is back up, contains a few empty channels and a channel with a period in its name, and all is well.
- 02:23 PM Bug #3220: "Save" from TextEditor interferes with workflow save-before-closing prompt
- aaron will take a look at this - really dives into the ptolemy code. Some starting places:
ptolemy.actor.gui.Effigy
... - 12:15 PM Bug #3220 (New): "Save" from TextEditor interferes with workflow save-before-closing prompt
- While editing an RExpression script using the built-in TextEditor ("Open Actor"), Kevin Drury found that if he used "...
- 01:41 PM Bug #3144: add link in OSX Applications folder
- I think the installed version is for users only. Developers who want to write java code should get a development ver...
- 01:13 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- IANAL (I am not a lawyer), but what I suggest is that you clearly document
that some portions of Kepler are released ... - 11:42 AM Bug #2318: Copyrights and licenses of subpackages need to be handled
- I have removed those from the RELEASE-BRANCH-1-0-0, I should have said. They are still in head.
- 11:40 AM Bug #2318: Copyrights and licenses of subpackages need to be handled
- I have removed rbnb-3.1b2.jar and RDIPD0Ensemble.jar (and associated code and workflows).
- 10:36 AM Bug #3216: Demo workflows do not run
- IPCC_Change_MinTemp.xml, IPCC_Change_Precip.xml, IPCC_Change_Rad,
IPCC_Change_Wind.xml, - Errors upon opening. Path ...
04/11/2008
- 05:43 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- If you need to remove a jar...
If there is a jar on the "bad list" and you cannot get the license fixed. (Say it is ... - 03:36 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- The problem with jar licenses illustrates one good reason to cleanly partition the Kepler system into a core of essen...
- 03:03 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- We have some major problems with licensing here. Very major problems.
Sean Riddle and I have examined licenses for o... - 03:06 PM Bug #3216: Demo workflows do not run
- It looks like most, if not all, of the problems reported here are Macintosh (and maybe Linux) specific!
I.e. workflo... - 03:04 PM Bug #3144: add link in OSX Applications folder
- Dan's suggestion that the folder structure in the OS X installation mimic the development version checked out of CVS ...
- 02:07 PM Bug #3144: add link in OSX Applications folder
- I took a look at the installation XML definition, with an eye toward hiding
away much of the complexity. I got it to ... - 02:12 PM Bug #3219: White space in installation path fails on config file read
- added to both the HEAD and the release branch
- 11:16 AM Bug #3219: White space in installation path fails on config file read
- *** Bug 3215 has been marked as a duplicate of this bug. ***
- 11:10 AM Bug #3219: White space in installation path fails on config file read
- I do not have write permissions yet for checking it in.
- 11:06 AM Bug #3219 (Resolved): White space in installation path fails on config file read
- When Kepler is installed on windows with white spaces in the installation path an exception is thrown from ConfigXML....
- 11:16 AM Bug #3215: Spaces in KEPLER path causes build problems
- Duplicate of bug 3219.
*** This bug has been marked as a duplicate of bug 3219 ***
04/10/2008
- 03:34 PM Bug #3122: Get installer size down
- windows installer with R: 166 MB
windows installer without R: 93 MB - 02:57 PM Bug #3122: Get installer size down
- added new build targets to pair down the kepler directory for each operating system. so far I have built a Mac insta...
- 01:55 PM Bug #2318: Copyrights and licenses of subpackages need to be handled
- The licensing on gnu-regexp-1.0.8.jar could be problematic. It is only used in org.ecoinformatics.util.Util.substitut...
- 11:45 AM Bug #2318: Copyrights and licenses of subpackages need to be handled
- Note that our proposal for handling LGPL jars in Kepler 1.0 is limited to those with version 3 of the LGPL license only.
- 11:30 AM Bug #2318: Copyrights and licenses of subpackages need to be handled
- David Welker is investigating the licenses for all 3rd-party jar files included in Kepler. Not all of them are BSD co...
- 11:49 AM Bug #3216: Demo workflows do not run
- I'm using MacOS 10.5.2, Java 1.5.0_13, with a 2.4 GHz processor and 2 gigs of RAM.
- 11:46 AM Bug #3130: Add an accelerator (keyboard shortcut) for opening a new blank workflow
- I'll postpone. Looking in Top.java, where I thought this change might go (now I'm not sure), it isn't immediately app...
- 11:23 AM Bug #3196: Find/Change license on gpl/lgpl code
- > Jianting Zhang suggests removing GRASS support in cpp/gis/grass from the Kepler
> distribution. Comments?
There a... - 11:06 AM Bug #3196: Find/Change license on gpl/lgpl code
- Source licenses update:
Jianting Zhang suggests removing GRASS support in cpp/gis/grass from the Kepler distribution...
04/09/2008
- 03:31 PM Bug #3026: Actor documentation does not appear in older workflows
- Done with all but ENM demos. I will wait until they all run before I run the automated document replacement.
- 02:28 PM Bug #3216: Demo workflows do not run
- IPCC_Change_MinTemp.xml, IPCC_Change_Precip.xml, IPCC_Change_Rad,
IPCC_Change_Wind.xml, - Errors upon opening. ---- ... - 12:41 PM Bug #3216: Demo workflows do not run
- ENM/GARP_SingleSpecies_BestRuleSet-IV.xml - After completing its ten iterations, actually crashes the Kepler environm...
- 11:32 AM Bug #3216 (Resolved): Demo workflows do not run
- I have run into a couple of demo workflows that don't run while checking the replacement of the embedded documentatio...
- 01:12 PM Bug #3195: Check all documentation for 1.0 release
- Kirsten has found a bunch of actors that still have no documentation. Here's the current list:
AddPointToSVG (no do... - 12:23 PM Bug #3182: check for consistent licensing text in all source files
- I was given permission by John Harris on 4/9/08 to change the license in the code owned by Numeric Solutions. I chan...
- 11:51 AM Bug #3126: add R system installation to the Mac installer
- This is now working on multiple computers. I'll send the installer out for others to test.
- 10:53 AM Bug #3187: RExpression actor does not share focus
- This will not be included in the branch of ptolemy (rel70b2) we are using to build kepler 1.0
Retargeting for after 1... - 10:14 AM Bug #3211: Need XSLT stylesheet to build actor docs
- created stylesheet and build target to build the actor documentation and an index to go with it.
04/08/2008
- 05:59 PM Bug #3215 (Resolved): Spaces in KEPLER path causes build problems
- Aaron Schultz reports - when trying to build under windows (in eclipse) with spaces in the -DKEPLER variable, Config...
- 10:51 AM Bug #3207: consolidate command line execution actors
- Hi Christopher,
Thanks for helping out. The Ptolemy Exec actor is called "External
Execution" in its KAR file, so th... - 10:38 AM Bug #3214: R actor does not handle single quotes in character string data
- R allows the use of single or double quotes to indicate character strings. The RExpression actor was using single qu...
- 10:34 AM Bug #3214 (Resolved): R actor does not handle single quotes in character string data
- When string values (in my case they were from a RecordToken emitted by the EML actor) include single quotes (or apost...
- 10:31 AM Bug #3213: R expression actor introduces leading/trailing whitespace
- Added the "strip.white=TRUE" parameter to calls to the scan() method in the R code we generate when dealing with char...
- 10:29 AM Bug #3213 (Resolved): R expression actor introduces leading/trailing whitespace
- When a temporary file is used for caching length R commands, leading whitespace is being added. The list values: "OB...
- 10:26 AM Bug #3212: EML2 Actor does not reconfigure available columns after initial download
- Added calls to the generteLabelListAndTypteListFromColumns() [sic] method whenever the _columns variable was modified.
- 10:24 AM Bug #3212 (Resolved): EML2 Actor does not reconfigure available columns after initial download
- After the selected entity has been changed for the EML actor, the ports are reconfigured to show the available column...
- 10:02 AM Bug #3209: ecogrid SearchRegistryAction error when disconnected from network
- added messagehandler error reporting when the services registry is not available.
if, on start up, there is an error ...
04/07/2008
- 09:21 PM Bug #3210: add netCDF support to Kepler
- The RExpression actor could also be used to read/write netCDF files using one of several netCDF packages available in...
- 04:56 PM Bug #3156: RBNBToKepler actors should only download data for connected ports.
- This has been fixed. I will close it when bug 3159 is closed.
- 04:55 PM Bug #3161: progress meter when downloading data with RBNBToKepler actors
- I'm using org.ecoinformatics.seek.datasource.DataSourceIcon now, and the icon renders "Busy" when busy.
If this is ... - 04:51 PM Bug #3155: RBNBToKepler actors should allow different output formats
- This has been added to the new DataTurbine actor.
Bug can be closed when bug 3159 is fixed. - 04:49 PM Bug #3140: RBNBToKepler2 actor output port generation problem
- I believe these are the answers to my original questions:
1) Does one need to do a Fetch to get channel types?
Yes.... - 03:39 PM Bug #3126: add R system installation to the Mac installer
- This works on my computer, but for some reason not on other computers. not sure why. reopening the bug.
- 11:36 AM Bug #3126: add R system installation to the Mac installer
- The installer can now include and launch the R installer. I tried figuring out a way to not have to launch the R ins...
- 10:46 AM Bug #3126: add R system installation to the Mac installer
- I've got this mostly working now. Just adding some finishing touches.
- 03:25 PM Bug #3211 (Resolved): Need XSLT stylesheet to build actor docs
- Kirsten wants to include the actor documentation in an indexed PDF along with the release. We need to write an XSLT ...
- 03:11 PM Bug #3198: test dynamic library installations on all platforms
- does not work on ubuntu. need to figure out how to set the LD_LIBRARY_PATH with izpack.
- 02:39 PM Bug #3198: test dynamic library installations on all platforms
- tested on windows. works.
- 02:15 PM Bug #3198: test dynamic library installations on all platforms
- tested on osx. works.
- 01:48 PM Bug #3209: ecogrid SearchRegistryAction error when disconnected from network
- I'd say show an alert when something is trying to use a data source, e.g. the ecogrid actor. Otherwise, ignore it.
- 12:32 PM Bug #3144: add link in OSX Applications folder
- I think that Kepler.app should be inside the Kepler folder mainly to keep the installed version looking like the CBS ...
- 12:00 PM Bug #3144: add link in OSX Applications folder
- Currently, Kepler is installed in /Applications/Kepler. The Kepler.app shortcut shows up in the Kepler folder. This...
- 12:04 PM Bug #2872: md5 checksums
- I will do this when the final installers are cut.
- 12:03 PM Bug #3199: include R 2.6 in the installer
- R 2.6.2 is now included in the windows and mac installer. We may want to have a non-R installer for both mac and win...
- 09:26 AM Bug #3196: Find/Change license on gpl/lgpl code
- IANAL, but my recollection of the LGPL is that you need to make the source code
available, but it is not necessary to...
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