Hi Derik,<br><br>Attached the KAR. This workflow also needs a custom actor that executes a Perl script. I have also attached it. <br><br>Thanks for your help<br><br><div class="gmail_quote">2010/7/14 Derik Barseghian <span dir="ltr"><<a href="mailto:barseghian@nceas.ucsb.edu">barseghian@nceas.ucsb.edu</a>></span><br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">Hi Josep,<br>
I'm unable to replicate this problem. I've created a simple workflow and tried:<br>
<br>
./kepler.sh -runwf -nogui -ExecutionId 77 -namejob 'SEPT09' -anotherVar 66 /Users/derik/KeplerData/workflows/MyWorkflows/testwf\[0\].kar<br>
<br>
and this works for me. I've set keepResultantRunKars true in reporting's configuration.xml, and I'm seeing the result kar in workflow-runs, and it looks good. I'm at kepler revision 25100. Are you able to send me your kar to test?<br>
<br>
Derik<div><div></div><div class="h5"><br>
<br>
On Jul 13, 2010, at 1:31 PM, Josep Morer Muņoz wrote:<br>
<br>
</div></div><blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;"><div><div></div><div class="h5">
Hi all,<br>
<br>
Can anyone reply to my question?<br>
<br>
Thanks<br>
<br>
---------- Forwarded message ----------<br>
From: Josep Morer Muņoz <<a href="mailto:josep.morer@gmail.com" target="_blank">josep.morer@gmail.com</a>><br>
Date: 2010/6/28<br>
Subject: How to pass String and File Parameters using Command Line<br>
To: Kepler Users <<a href="mailto:kepler-users@kepler-project.org" target="_blank">kepler-users@kepler-project.org</a>><br>
<br>
<br>
Hi all,<br>
<br>
I am having problems when I try to execute a KAR using the command line with String and File Parameters. As I understand, when a parameter is a number, you put -parameter 2 f.e and if it is a string or a file path, you put -parameter "string". However, for string and file parameters does not work because I am having errors like this:<br>
<br>
urops@ubuntu:~/KeplerLastVersion$ ./kepler.sh -runwf -nogui -stepsrmsd 42 -ExecutionId 35 -namejob 'SEPT09' -numclustersrmsd 5 /home/urops/CBI/Projectes/2/Execucions/35/KeplerMDAnalyser-Module1-RMSD-CBI[0].kar<br>
[null] /home/urops/KeplerLastVersion<br>
[null] Found OS Extension file: /home/urops/KeplerLastVersion/apple-extensions/module-info/osextension.txt<br>
[null] Ran additional initialization for module gui from class org.kepler.module.gui.Initialize<br>
[null] Ran additional initialization for module tagging from class org.kepler.module.tagging.Initialize<br>
[null] Ran additional initialization for module provenance from class org.kepler.module.provenance.Initialize<br>
[null] common tabpane configuration overridden by workflow-run-manager<br>
[null] Ran additional initialization for module workflowrunmanager from class org.kepler.module.workflowrunmanager.Initialize<br>
[null] common tabpane configuration overridden by reporting<br>
[null] Ran additional initialization for module reporting from class org.kepler.module.reporting.Initialize<br>
[null] loading: org.kepler.KeplerConfigurationApplication args: ptolemy/configs/kepler/ConfigNoGUIWithCache.xml -runThenExit -stepsrmsd 42 -ExecutionId 35 -namejob SEPT09 -numclustersrmsd<br>
[null] invoking: org.kepler.KeplerConfigurationApplication.main<br>
[null] Kepler Initializing...<br>
[null] Command failed<br>
[null] java.lang.Exception: Failed to parse "ptolemy/configs/kepler/ConfigNoGUIWithCache.xml -runThenExit -stepsrmsd 42 -ExecutionId 35 -namejob SEPT09 -numclustersrmsd"<br>
[null] at ptolemy.actor.gui.ConfigurationApplication.throwArgsException(ConfigurationApplication.java:651)<br>
[null] at org.kepler.KeplerConfigurationApplication.<init>(KeplerConfigurationApplication.java:288)<br>
[null] at org.kepler.KeplerConfigurationApplication.main(KeplerConfigurationApplication.java:582)<br>
[null] at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)<br>
[null] at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)<br>
[null] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)<br>
[null] at java.lang.reflect.Method.invoke(Method.java:616)<br>
[null] at org.kepler.Kepler.load(Kepler.java:362)<br>
[null] at org.kepler.Kepler.load(Kepler.java:380)<br>
[null] at org.kepler.Kepler.parseArgsAndRun(Kepler.java:308)<br>
[null] at org.kepler.Kepler.main(Kepler.java:210)<br>
[null] Caused by: ptolemy.kernel.util.IllegalActionException: Cannot set parameter -numclustersrmsd when no value is given.<br>
[null] at org.kepler.KeplerConfigurationApplication.parseArgs(KeplerConfigurationApplication.java:308)<br>
[null] at org.kepler.KeplerConfigurationApplication.<init>(KeplerConfigurationApplication.java:193)<br>
[null] ... 9 more<br>
[null] java.lang.Exception: Failed to parse "ptolemy/configs/kepler/ConfigNoGUIWithCache.xml -runThenExit -stepsrmsd 42 -ExecutionId 35 -namejob SEPT09 -numclustersrmsd"<br>
[null] at ptolemy.actor.gui.ConfigurationApplication.throwArgsException(ConfigurationApplication.java:651)<br>
[null] at org.kepler.KeplerConfigurationApplication.<init>(KeplerConfigurationApplication.java:288)<br>
[null] at org.kepler.KeplerConfigurationApplication.main(KeplerConfigurationApplication.java:582)<br>
[null] at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)<br>
[null] at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)<br>
[null] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)<br>
[null] at java.lang.reflect.Method.invoke(Method.java:616)<br>
[null] at org.kepler.Kepler.load(Kepler.java:362)<br>
[null] at org.kepler.Kepler.load(Kepler.java:380)<br>
[null] at org.kepler.Kepler.parseArgsAndRun(Kepler.java:308)<br>
[null] at org.kepler.Kepler.main(Kepler.java:210)<br>
[null] Caused by: ptolemy.kernel.util.IllegalActionException: Cannot set parameter -numclustersrmsd when no value is given.<br>
[null] at org.kepler.KeplerConfigurationApplication.parseArgs(KeplerConfigurationApplication.java:308)<br>
[null] at org.kepler.KeplerConfigurationApplication.<init>(KeplerConfigurationApplication.java:193)<br>
[null] ... 9 more<br>
Exception in thread "main" Java returned: 1<br>
at org.kepler.build.modules.ModulesTask.execute(ModulesTask.java:105)<br>
at org.kepler.build.runner.Kepler.main(Kepler.java:78)<br>
Caused by: Java returned: 1<br>
at org.apache.tools.ant.taskdefs.Java.execute(Java.java:108)<br>
at org.kepler.build.Run.runSuite(Run.java:298)<br>
at org.kepler.build.Run.run(Run.java:202)<br>
at org.kepler.build.modules.ModulesTask.execute(ModulesTask.java:101)<br>
... 1 more<br>
--- Nested Exception ---<br>
Java returned: 1<br>
at org.apache.tools.ant.taskdefs.Java.execute(Java.java:108)<br>
at org.kepler.build.Run.runSuite(Run.java:298)<br>
at org.kepler.build.Run.run(Run.java:202)<br>
at org.kepler.build.modules.ModulesTask.execute(ModulesTask.java:101)<br>
at org.kepler.build.runner.Kepler.main(Kepler.java:78)<br>
<br>
I get this error when I try to pass a String or File parameter with "". Any idea?<br>
<br>
Thanks<br>
-- <br>
Josep<br>
<br>
<br>
<br>
-- <br>
Josep<br></div></div>
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</blockquote>
<br>
----------<br><font color="#888888">
Derik Barseghian<br>
<a href="http://nceas.ucsb.edu/ecoinfo" target="_blank">http://nceas.ucsb.edu/ecoinfo</a> | office: 805-893-5127<br>
Rm 3411, Marine Science Research Building, UCSB<br>
Santa Barbara, CA, 93106-6150<br>
<br>
</font></blockquote></div><br><br clear="all"><br>-- <br>Josep<br>