Kepler: Issueshttps://projects.ecoinformatics.org/ecoinfo/https://projects.ecoinformatics.org/ecoinfo/ecoinfo/favicon.ico?14691340362008-10-22T17:40:53ZEcoinformatics Redmine
Redmine Bug #3546 (New): Automatically load trace for a completed run into the provenance browserhttps://projects.ecoinformatics.org/ecoinfo/issues/35462008-10-22T17:40:53ZTimothy McPhillipsmcphillips@ecoinformatics.org
<p>At present, viewing the trace of a workflow run via the provenance browser (the one in the provenance-apps module) requires either running the provenance browser from the command line or navigating to the trace for the latest workflow run in the MyTraces subtree in the Traces panel of the Workspace pane in Kepler. I almost always want to see the trace immediately on running a workflow.</p>
<p>Could we provide an option to load the trace of the current run automatically when it completes?</p> Bug #3388 (New): error running simihofi.xml workflow in Kepler 1.0.0https://projects.ecoinformatics.org/ecoinfo/issues/33882008-06-09T20:17:43ZKirsten Menger-Andersonkma500@hotmail.com
<p>I get the following error when I first open the simihofi.xml workflow (though the workflow does run):</p>
<p>Error encountered in: <property name="timeResolution" class="ptolemy.actor.parameters.SharedParameter" value="1E-10"> ptolemy.actor.parameters.SharedParameter</p> Bug #3361 (In Progress): parameters lose their Display Name when copy and pastedhttps://projects.ecoinformatics.org/ecoinfo/issues/33612008-06-04T00:23:06ZDerik Barseghianbarseghian@nceas.ucsb.edu
<p>It may be this is the 'proper' behavior, but it doesn't seem so to me (cxh?).</p>
<p>steps to reproduce:<br />- Drag Parameter to canvas<br />- Right click, Customize Name<br />- type in a New Name: new_name, and a Display Name: display_name<br />- Commit<br />- copy and paste the Parameter</p>
<pre><code>The second Parameter has New name: new_name2, and Display name: new_name2, but I think Display name should be: display_name2.</code></pre>
<p>This affects:</p>
<p>GriddlesParameter<br />ColorParameter<br />FileParameter<br />Parameter<br />PortParameter<br />RequireVersion<br />SemanticTypeParameter <br />StringParameter</p> Bug #3295 (New): Python/Ptolemnizer welcome text does not displayhttps://projects.ecoinformatics.org/ecoinfo/issues/32952008-05-13T18:43:06ZDerik Barseghianbarseghian@nceas.ucsb.edu
<p>A minor annoyance, but the SampleDelay actor's "Welcome to the..." text is not displaying in the InteractiveShell as the annotation states. <br />I also notice the SampleDelay actor in this workflow looks different than the one found in the library...</p> Bug #3292 (New): ENM/GDAL_h1K_NS workflow giving an exceptionhttps://projects.ecoinformatics.org/ecoinfo/issues/32922008-05-13T01:04:17ZDerik Barseghianbarseghian@nceas.ucsb.edu
<p>I upgraded to ubuntu 8.04 today, and now the GDAL_h1K_NS workflow is giving an exception (i'm using java 1.5.0_13).</p>
<p>ptolemy.kernel.util.IllegalActionException: in .GDAL_h1K_NS.manager<br />Because:<br />/home/barseghian/Kepler-1.0.0/lib/libgdalactor.so: Can't load IA 32-bit .so on a IA 32-bit platform</p>
<p>Maybe this workflow just needs an annotation warning like the other ENM ones? After a few attempts the Exception changes to a java.lang.NoClassDefFoundError</p> Bug #3291 (New): IPCC_ChangeNightlyBuildTest got an exceptionhttps://projects.ecoinformatics.org/ecoinfo/issues/32912008-05-09T21:57:31ZJing Taotao@nceas.ucsb.edu
<p>Running work-flow, demos/ENM/IPCC_Change_NightlyBuildTest.xml, got an exception. The supposed result is "true", but the result is not. So Nonstrict Test actor threw an exception.</p> Bug #3266 (In Progress): ENM/GARP_MultipleSpecies-V.xml problemshttps://projects.ecoinformatics.org/ecoinfo/issues/32662008-05-02T18:02:43ZDerik Barseghianbarseghian@nceas.ucsb.edu
<p>ENM/GARP_MultipleSpecies-V.xml crashes Ubuntu Kepler. <br />On mac execution completes but just gives ImageJ "Unrecognized comand: ASC TextReader" messages.</p> Bug #3226 (New): Eval: subplots from RExpression overly condensedhttps://projects.ecoinformatics.org/ecoinfo/issues/32262008-04-16T22:42:19ZKevin Drurydrury@nceas.ucsb.edu
<p>Using nightly build 14 Apr 08 under WinXP. The code below generates a publication-quality graphic when run from the R command line. When run in an RExpression actor, however the results are pretty unattractive.</p>
<p>Case 1: With an imageJ actor connected, the resulting RExpressionNUM.png is extremely compressed. i.e., there is lots of white space and the subplots are cramped.</p>
<p>Case 2: With no imageJ actor, and the "Automatically display graphics" button checked, the resulting pdf is less cramped than the png, but still not as well-proportioned as that coming directly from R.</p>
<p>Note: resizing the graphic does not help - proportions remain the same</p>
<ol>
<li>test code for RExpression actor subplot generation</li>
<li>get data and variables in order...<br />library(MASS) ;<br />names(wtloss) ; attach(wtloss) ;<br />w<-Weight ; d<-Days ;</li>
<li>set up stacked subplotting environment, plot top fig<br />par(mfrow=c(2,1)) ; plot(w~d) ; <br />res<-lm(w~d) ; abline(res) ;</li>
<li>plot bottom fig<br />r<-residuals(res) ; plot(d,r) ;</li>
<li>return to default graphics, clean up<br />par(mfrow=c(1,1)) ;<br />detach(wtloss) ;</li>
</ol> Bug #3220 (New): "Save" from TextEditor interferes with workflow save-before-closing prompthttps://projects.ecoinformatics.org/ecoinfo/issues/32202008-04-14T19:15:08Zben leinfelderleinfelder@nceas.ucsb.edu
<p>While editing an RExpression script using the built-in TextEditor ("Open Actor"), Kevin Drury found that if he used "Save" from within the text editor window to save the contents of the script, closed that editor window, then closed the workflow window (that contained other unsaved changes), Kepler would not prompt him for a confirmation to save before closing the workflow. All changes would then be lost.<br />I've reproduced this behavior (we are both on a Mac).</p> Bug #3204 (New): Kepler should have FSM exampleshttps://projects.ecoinformatics.org/ecoinfo/issues/32042008-04-02T21:15:37ZChristopher Brookscxh@eecs.berkeley.edu
<p>Finite State Machines are very powerful, there should<br />be a Kepler-specific scientific workflow that <br />illustrates FSMs.</p> Bug #3149 (New): cannot add arbitrary jars when exporting archivehttps://projects.ecoinformatics.org/ecoinfo/issues/31492008-02-14T19:31:46ZDan Higginshiggins@nceas.ucsb.edu
<p>The "Export Archive (kar)" popup menu asks if the class file of an actor should be included in the kar, but there is no way to add other classes/jars. ie jar libraries that may be needed by the actor. (One specific example - python actor needs the jython.jar to execute)</p>
<p>Need to add a dialog to let the user add arbitrary number of additional jars to a kar file.</p> Bug #3143 (New): dataFrame_R cache problem under parallelshttps://projects.ecoinformatics.org/ecoinfo/issues/31432008-02-11T20:26:29ZDerik Barseghianbarseghian@nceas.ucsb.edu
<p>I'm currently getting the following error with the demos/R/dataFrame_R.xml workflow when trying to run it under Parallels:</p>
<p>Error in file(file, "r") : unable to open connection<br />In addition: Warning message:<br />cannot open file '////.PSF//.Home//.kepler//cache////cachedata//urn.lsid.localhost.7a976669.0.0', reason 'Invalid argument' <br />Execution halted</p>
<p>All other R demos work fine. I've tried deleting .kepler and restarting to no avail. Others have reported success under Parallels.</p> Bug #2388 (New): Incorporating the SRB actors with the gsi authentication frameworkhttps://projects.ecoinformatics.org/ecoinfo/issues/23882006-03-23T00:34:44ZIlkay Altintasaltintas@sdsc.eduBug #1997 (New): Support Getting Metadata for Darwin Core search result itemhttps://projects.ecoinformatics.org/ecoinfo/issues/19972005-03-01T18:49:40ZJing Taotao@nceas.ucsb.edu
<p>In data search result panel, we add a new right click button for getting<br />metadata for the item. But currently we only support eml200 and eml201. We need<br />also support DarwinCore search result too. First we need create a style sheet to<br />transfer Darwincore xml to html.</p> Bug #1914 (In Progress): Implement the 'most recently used' concept for workflows and actorshttps://projects.ecoinformatics.org/ecoinfo/issues/19142005-01-24T18:45:25ZDan Higginshiggins@nceas.ucsb.edu