[kepler-users] Mac OS, Matlab, and library paths

Tue Jun 28 12:12:24 PDT 2011

This works.

And it gets me past the stack trace I was getting before! :)

Here's the transcript. I combined advice from two posts upthread.

bash-3.2# DYLD_LIBRARY_PATH=/Applications/MATLAB_R2011a.app/bin/maci64/ env | grep DYLD
DYLD_LIBRARY_PATH=/Applications/MATLAB_R2011a.app/bin/maci64/
bash-3.2# open /Applications/Kepler-2.2/Kepler.app

Now I'm getting a different stacktrace. I have a properly-licensed Matlab instance running and csh is @ /bin/csh.

ptolemy.kernel.util.IllegalActionException: matlabEngine.open(null) : can't find Matlab engine. Try starting Matlab by hand as an application to verify that Matlab is set up properly and the license is correct. Under Windows, try running "matlab /regserver", the Matlab C API communicates with Matlab via COM, and apparently the COM interface is not automatically registered when Matlab is installed. Under Linux and other types of UNIX, csh must be installed in /bin/csh.
	at ptolemy.matlab.Engine.open(Engine.java:280)
	at ptolemy.matlab.Engine.open(Engine.java:232)
	at ptolemy.matlab.Expression.preinitialize(Expression.java:303)
	at ptolemy.actor.Director.preinitialize(Director.java:1010)
	at ptolemy.actor.Director.preinitialize(Director.java:991)
	at ptolemy.domains.ct.kernel.CTDirector.preinitialize(CTDirector.java:748)
	at ptolemy.domains.ct.kernel.CTMultiSolverDirector.preinitialize(CTMultiSolverDirector.java:637)
	at ptolemy.actor.CompositeActor.preinitialize(CompositeActor.java:1735)
	at ptolemy.actor.Manager.preinitializeAndResolveTypes(Manager.java:983)
	at ptolemy.actor.Manager.initialize(Manager.java:643)
	at ptolemy.actor.Manager.execute(Manager.java:340)
	at ptolemy.actor.Manager.run(Manager.java:1164)
	at ptolemy.actor.Manager$3.run(Manager.java:1217)

On Jun 28, 2011, at 3:02 PM, Sean Riddle wrote:

> I can't get launchd.conf to set DYLD_LIBRARY_PATH, but for some reason
> it doesn't set anything else either. But DYLD_LIBRARY_PATH is
> settable, at least in some ways:
> 
> dhcp33-gc5:~ sean$ DYLD_LIBRARY_PATH=hello env | grep "DYLD_LIBRARY_PATH"
> DYLD_LIBRARY_PATH=hello
> 
> I would recommend trying the support including in the build system for
> setting environment variables. Create a file
> kepler/module-info/environment.txt and specify the value there. You
> can look at r/module-info/environment.txt for an example. Note that as
> in the example, you can (and possible must, I'm not sure) specify
> separate values for all three of the platforms that Kepler supports.
> 
> - Sean
> 
> On Tue, Jun 28, 2011 at 11:27 AM, Joe Futrelle <jfutrelle at whoi.edu> wrote:
>> I tried that, didn't work.
>> 
>> Again, I have no problem setting system-wide environment variables in launchd.conf. If I set "foo" to "bar" then "foo" is set to "bar" in my environment. But if I set DYLD_LIBRARY_PATH to anything, it's like I didn't set it at all.
>> 
>> Exactly the same behavior with environment.plist. It seems to me like DYLD_LIBRARY_PATH is on some kind of blacklist.
>> 
>> On Jun 28, 2011, at 2:15 PM, Sean Riddle wrote:
>> 
>>> I always heard that if you wanted to set environment variables for GUI
>>> applications in OS X, you needed to edit the environment.plist file. A
>>> stackoverflow thread
>>> (http://stackoverflow.com/questions/135688/setting-environment-variables-in-os-x)
>>> says it can be set on a per-user basis at ~/.MacOSX/environment.plist.
>>> However, that thread also says that launchd.conf also works for GUI
>>> applications. Maybe try setting it in environment.plist to see if that
>>> makes a difference.
>>> 
>>> - Sean
>>> 
>>> PS - Property List Editor in Utilities is what creates and edits .plist files.
>>> 
>>> On Tue, Jun 28, 2011 at 11:09 AM, Joe Futrelle <jfutrelle at whoi.edu> wrote:
>>>> Hi, I'm trying to run Matlab codes from Kepler in Mac OS (Snow Leopard). As an inexperienced user I'm simply firing up the prepackaged Mac OS distribution of Kepler and double-clicking on the app icon.
>>>> 
>>>> It's no problem constructing a workflow with a "Matlab expression" in it, but when I run I get a stacktrace about the Matlab libraries not being on the DYLD_LIBRARY_PATH.
>>>> 
>>>> I'm having no trouble finding those libraries manually; they're right where they should be in my Matlab install, and they're 64 bit, and everything seems in order.
>>>> 
>>>> Setting DYLD_LIBRARY_PATH doesn't seem possible in Mac OS; I can set environment variables in launchd.conf, but launchd appears to silently ignore DYLD_LIBRARY_PATH; maybe it's special-casing it for some reason.
>>>> 
>>>> I'm having trouble finding a previous post on this list, or a bug in Kepler's bugzilla database, or a documentation section or FAQ entry that explains how to solve this. It's clear that some people have had problems with this in the past, but I don't see a clear description of what I should be doing. Any and all advice welcome.
>>>> 
>>>> Mac OS version: 10.6.7
>>>> Java version: 1.6.0_24 (Java HotSpot(TM) 64-Bit Server VM (build 19.1-b02-334, mixed mode))
>>>> Kepler version: 2.2
>>>> Matlab version: R2011a
>>>> 
>>>> --
>>>> Joe Futrelle
>>>> Woods Hole Oceanographic Institution
>>>> jfutrelle at whoi.edu
>>>> 
>>>> 
>>>> 
>>>> 
>>>> _______________________________________________
>>>> Kepler-users mailing list
>>>> Kepler-users at kepler-project.org
>>>> http://lists.nceas.ucsb.edu/kepler/mailman/listinfo/kepler-users
>>>> 
>>> 
>> 
>> --
>> Joe Futrelle
>> Woods Hole Oceanographic Institution
>> jfutrelle at whoi.edu
>> 
>> 
>> 
>> 
>> 
> 

--
Joe Futrelle
Woods Hole Oceanographic Institution
jfutrelle at whoi.edu