Hi Michal, Thanks for your replies. I did some work on my code and together with java's getenv() I made it all work.
Regards, Slavisa On Tue, Jun 10, 2014 at 12:34 PM, Michal Owsiak <[email protected]> wrote: > Have you already tried accessing them as described here: > > http://docs.oracle.com/javase/tutorial/essential/environment/env.html > > Michal > > > Hi Michal, >> >> Basically we have our own actor that we use to execute commands either >> locally or remotely using our own tools (Nimrod/G and Nimrod/K). The >> problem is in those actors when I try to evaluate the expression which has >> environment variable in it that is not part of the regular set (PATH, HOME >> etc). Is there some way I can evaluate them programatically? >> >> I had to change the code so that the parameter mode is set to lazy >> (command.setLazy(true)) because we try to build the environment from >> incoming ports and such. If I could load the environment variable list and >> parse it myself in the code I would do it. So do you have any idea how to >> access it in code? >> >> Thanks in advance for your answers, >> Slavisa >> >> >> On Tue, Jun 10, 2014 at 12:11 PM, Michal Owsiak <[email protected]> >> wrote: >> >> Is this something you are looking for (see attachment) >>> >>> Michal >>> >>> >>> That works fine. Can we use this somehow in External Execution actors? >>> I >>> >>>> tried and failed. >>>> >>>> What we need is a way to use environment variables to locate >>>> executables, >>>> e.g. FSLDIR=/opt/local/bet, so that I can execute $FSLDIR/bin/bet. I >>>> understand that if added to PATH these will be accessible by simply by >>>> executing 'bet' but we'd still like to have access to environment >>>> variables >>>> to locate specific versions etc. >>>> >>>> Slavisa >>>> >>>> >>>> On Tue, Jun 10, 2014 at 11:56 AM, Michal Owsiak <[email protected]> >>>> wrote: >>>> >>>> Try following instead. >>>> >>>>> >>>>> Inside expression actor use following: >>>>> >>>>> getenv("YOUR_VARIABLE_GOES_HERE") >>>>> >>>>> Michal >>>>> >>>>> >>>>> Hi, >>>>> >>>>> >>>>>> Could someone explain to me if there is a bug or I am doing something >>>>>> wrong >>>>>> that my workflows can't access environment variables. >>>>>> >>>>>> I tried setting them up in usual ways (profile scripts) and by using >>>>>> environment.txt but no actor has access to them. >>>>>> >>>>>> For example I tried setting up TESTVAR and then accessing it in >>>>>> constant >>>>>> actor but it raises an error as if it was not there. Top of the >>>>>> exception >>>>>> stack is just below. >>>>>> >>>>>> Regards, >>>>>> Slavisa Garic >>>>>> PS. I can see this being set with kepler-2.4.0/module-info/ >>>>>> environment.txt >>>>>> when Kepler is launched by kepler.sh and I get messages such as >>>>>> >>>>>> .... >>>>>> Set environment variable: TESTVAR = mymessage >>>>>> Set environment variable: R_HOME = /Library/Frameworks/R. >>>>>> framework/Resources >>>>>> .... >>>>>> >>>>>> >>>>>> ptolemy.kernel.util.IllegalActionException: Error evaluating >>>>>> expression: >>>>>> >>>>>> $TESTVAR >>>>>> >>>>>>> in .Unnamed1.Constant.value >>>>>>> Because: >>>>>>> Error parsing expression "$TESTVAR" >>>>>>> Because: >>>>>>> Encountered "" at line 1, column 1. >>>>>>> Was expecting one of: >>>>>>> >>>>>>> Because: >>>>>>> Error evaluating expression: $TESTVAR >>>>>>> in .Unnamed1.Constant.value >>>>>>> Because: >>>>>>> Error parsing expression "$TESTVAR" >>>>>>> Because: >>>>>>> Encountered "" at line 1, column 1. >>>>>>> Was expecting one of: >>>>>>> >>>>>>> at ptolemy.data.expr.Variable.validate(Variable.java:1491) >>>>>>> at ptolemy.moml.MoMLParser.endDocument(MoMLParser.java:802) >>>>>>> at com.microstar.xml.XmlParser.doParse(XmlParser.java:162) >>>>>>> at com.microstar.xml.XmlParser.parse(XmlParser.java:132) >>>>>>> at ptolemy.moml.MoMLParser.parse(MoMLParser.java:1540) >>>>>>> at ptolemy.moml.MoMLParser.parse(MoMLParser.java:1512) >>>>>>> at ptolemy.moml.MoMLParser.parse(MoMLParser.java:1668) >>>>>>> at ptolemy.moml.MoMLChangeRequest._execute( >>>>>>> MoMLChangeRequest.java:289) >>>>>>> at ptolemy.actor.gui.PtolemyQuery$3._execute(PtolemyQuery.java:824) >>>>>>> at ptolemy.kernel.util.ChangeRequest.execute(ChangeRequest.java:171) >>>>>>> at ptolemy.kernel.util.NamedObj._executeChangeRequests( >>>>>>> NamedObj.java:2559) >>>>>>> at ptolemy.kernel.util.NamedObj.executeChangeRequests( >>>>>>> NamedObj.java:725) >>>>>>> at ptolemy.kernel.util.NamedObj.requestChange(NamedObj.java:1776) >>>>>>> at ptolemy.actor.CompositeActor.requestChange(CompositeActor. >>>>>>> java:1957) >>>>>>> at ptolemy.kernel.util.NamedObj.requestChange(NamedObj.java:1761) >>>>>>> at ptolemy.actor.gui.PtolemyQuery.changed(PtolemyQuery.java:885) >>>>>>> at ptolemy.gui.Query._notifyListeners(Query.java:1928) >>>>>>> at ptolemy.gui.Query$QueryFocusListener.focusLost(Query.java:2515) >>>>>>> at java.awt.AWTEventMulticaster.focusLost(AWTEventMulticaster. >>>>>>> java:213) >>>>>>> at java.awt.Component.processFocusEvent(Component.java:6306) >>>>>>> at java.awt.Component.processEvent(Component.java:6170) >>>>>>> at java.awt.Container.processEvent(Container.java:2084) >>>>>>> at java.awt.Component.dispatchEventImpl(Component.java:4776) >>>>>>> at java.awt.Container.dispatchEventImpl(Container.java:2142) >>>>>>> at java.awt.Component.dispatchEvent(Component.java:4604) >>>>>>> at >>>>>>> java.awt.KeyboardFocusManager.redispatchEvent( >>>>>>> KeyboardFocusManager.java: >>>>>>> 1856) >>>>>>> at >>>>>>> java.awt.DefaultKeyboardFocusManager.typeAheadAssertions( >>>>>>> DefaultKeyboardFocusManager.java:920) >>>>>>> at >>>>>>> java.awt.DefaultKeyboardFocusManager.dispatchEvent( >>>>>>> DefaultKeyboardFocusManager.java:578) >>>>>>> >>>>>>> >>>>>>> ..... >>>>>> >>>>>> ..... >>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>> >>>>>> _______________________________________________ >>>>>> Kepler-dev mailing list >>>>>> [email protected] >>>>>> http://lists.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-dev >>>>>> >>>>>> >>>>>> _______________________________________________ >>>>>> >>>>> Kepler-dev mailing list >>>>> [email protected] >>>>> http://lists.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-dev >>>>> >>>>> >>>>> >>>> >>> >> >> >> _______________________________________________ >> Kepler-dev mailing list >> [email protected] >> http://lists.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-dev >> >> > _______________________________________________ > Kepler-dev mailing list > [email protected] > http://lists.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-dev >
_______________________________________________ Kepler-dev mailing list [email protected] http://lists.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-dev
