[armedbear-devel] integrating abcl into Protege

Wed Mar 10 23:22:26 UTC 2010

On Wed, Mar 10, 2010 at 5:29 PM, Alessio Stalla <alessiostalla at gmail.com> wrote:
> On Wed, Mar 10, 2010 at 11:06 PM, Timothy Redmond <tredmond at stanford.edu> wrote:
>> On Wed, 2010-03-10 at 22:19 +0100, Alessio Stalla wrote:
>>> On Wed, Mar 10, 2010 at 9:14 PM, Alan Ruttenberg
>>> <alanruttenberg at gmail.com> wrote:
>>> > Protege is an ontology development tool. I'm interested in using abcl
>>> > to develop plugins and TIm Redmond was kind enough to have a stab at
>>> > doing a first pass integration, but ran into trouble. I wonder if his
>>> > report makes rings a bell?
>>>
>>> Surely the function/class loading code has changed quite a lot since
>>> 0.18.1, so I'd advise you to try with abcl from trunk (or wait till
>>> 0.19 is released). Maybe the problem won't go away, but it's worth
>>> trying - at least we'll get a stack trace that's more meaningful wrt.
>>> the current state of affairs.
>>
>> I included the error on trunk below.  The url returned by the class
>> loader has the wrong format.  For some reason this url is being parsed
>> in the Pathname class and it gets into trouble.  I was thinking that it
>> might be possible for me to make a minimal change to the code somehow to
>> fix this but I have not yet figured out exactly how to make this change.
>
> Pathname represents a path to a file or, since recently, an entry in a
> Jar file, but it's not able to represent an arbitrary URL.
>
> I know little about OSGi, but probably it requires some special
> handling if one wants to explicitly load resources like ABCL does.
>
> As an attempt which I really doubt will work, you can try this:
> since what is failing is getLispHome() in class Site, and that can
> also use the "abcl.home" system property, you could try to set that
> property to "jar:file:/whatever/abcl.jar!/org/armedbear/lisp/" before
> loading ABCL and cross your fingers. You'll probably get past the
> current failing point but some other things will probably fail. Even
> if it works, it's not a good solution at all; still, it might serve as
> a temporary hack until we figure out how to behave in a OSGi context.

A bit better is to not hardcode the location:

(defvar *abcl-jar*
  (make-pathname :device (pathname-device (java::jcall "toString"
(java::jcall "getResource" (java::jclass "org.armedbear.lisp.Main")
"/org/armedbear/lisp/Main.class")))))

Can we put that in system.lisp?

-Alan

>
> Alessio
>
>> -Timothy
>>
>> java.lang.Error
>>        at org.armedbear.lisp.Primitives$pf_error.execute(Primitives.java:1561)
>>        at org.armedbear.lisp.Primitive.execute(Primitive.java:108)
>>        at org.armedbear.lisp.Symbol.execute(Symbol.java:775)
>>        at org.armedbear.lisp.Lisp.error(Lisp.java:357)
>>        at org.armedbear.lisp.Pathname.<init>(Pathname.java:184)
>>        at org.armedbear.lisp.Site.init(Site.java:59)
>>        at org.armedbear.lisp.Site.getLispHome(Site.java:72)
>>        at org.armedbear.lisp.Site.<clinit>(Site.java:82)
>>        at org.armedbear.lisp.Load.loadSystemFile(Load.java:255)
>>        at org.armedbear.lisp.Interpreter.initializeLisp(Interpreter.java:158)
>>        at org.armedbear.lisp.Interpreter.createInstance(Interpreter.java:69)
>>        at org.sciencecommons.protege.lisp.LispContext.<init>(LispContext.java:14)
>>        at org.sciencecommons.protege.lisp.LispContext.getInstance(LispContext.java:20)
>>        at org.sciencecommons.protege.lisp.Activator.start(Activator.java:13)
>>        at org.apache.felix.framework.util.SecureAction.startActivator(SecureAction.java:639)
>>        at org.apache.felix.framework.Felix.activateBundle(Felix.java:1700)
>>        at org.apache.felix.framework.Felix.startBundle(Felix.java:1622)
>>        at org.apache.felix.framework.BundleImpl.start(BundleImpl.java:915)
>>        at org.apache.felix.framework.BundleImpl.start(BundleImpl.java:902)
>>        at org.protege.editor.core.BundleManager.startPlugins(BundleManager.java:110)
>>        at org.protege.editor.core.BundleManager.loadPlugins(BundleManager.java:41)
>>        at org.protege.editor.core.ProtegeApplication.loadPlugins(ProtegeApplication.java:277)
>>        at org.protege.editor.core.ProtegeApplication.initApplication(ProtegeApplication.java:171)
>>        at org.protege.editor.core.ProtegeApplication.start(ProtegeApplication.java:113)
>>        at org.apache.felix.framework.util.SecureAction.startActivator(SecureAction.java:639)
>>        at org.apache.felix.framework.Felix.activateBundle(Felix.java:1700)
>>        at org.apache.felix.framework.Felix.startBundle(Felix.java:1622)
>>        at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1077)
>>        at org.apache.felix.framework.StartLevelImpl.run(StartLevelImpl.java:264)
>>        at java.lang.Thread.run(Thread.java:619)
>> ERROR placeholder called with arguments:
>> #<ERROR {1876E5D}>
>> Unsupported URL: 'bundle://10.0:2/org/armedbear/lisp/boot.lisp'
>>
>>
>>>
>>> Alessio
>>>
>>> > -Alan
>>> >
>>> >
>>> > ---------- Forwarded message ----------
>>> > From: Timothy Redmond <tredmond at stanford.edu>
>>> > Date: Wed, Mar 10, 2010 at 2:12 PM
>>> > Subject: [POSSIBLE VIRUS:###] Re: further on common lisp integration
>>> > To: Alan Ruttenberg <alanruttenberg at gmail.com>
>>> >
>>> >
>>> >
>>> > There is something of a difficulty in using this library.  It is doing
>>> > some funky stuff with urls and class loaders and this doesn't work with
>>> > Protege.  Probably could be made to work by making some changes to the
>>> > abcl sources.  In particular it seems to detect that it is loading
>>> > through the class loader if the prefix begins with jar which is not a
>>> > correct assumption in general.
>>> >
>>> > But here is a start if you want to debug a bit more.
>>> >
>>> > -Timothy
>>> >
>>> >
>>> >
>>> >
>>> > java.util.zip.ZipException: error in opening zip file
>>> >        at java.util.zip.ZipFile.open(Native Method)
>>> >        at java.util.zip.ZipFile.<init>(ZipFile.java:114)
>>> >        at java.util.zip.ZipFile.<init>(ZipFile.java:75)
>>> >        at org.armedbear.lisp.ZipCache.getZip(ZipCache.java:54)
>>> >        at org.armedbear.lisp.Lisp.readFunctionBytes(Lisp.java:1305)
>>> >        at org.armedbear.lisp.AutoloadedFunctionProxy$2.execute(AutoloadedFunctionProxy.java:307)
>>> >        at org.armedbear.lisp.LispThread.execute(LispThread.java:562)
>>> >        at org.armedbear.lisp.Lisp.evalCall(Lisp.java:494)
>>> >        at org.armedbear.lisp.Lisp.eval(Lisp.java:459)
>>> >        at org.armedbear.lisp.Lisp.processTagBody(Lisp.java:767)
>>> >        at org.armedbear.lisp.dotimes.execute(dotimes.java:105)
>>> >        at org.armedbear.lisp.Lisp.eval(Lisp.java:449)
>>> >        at org.armedbear.lisp.Load.faslLoadStream(Load.java:628)
>>> >        at org.armedbear.lisp.Load.access$100(Load.java:70)
>>> >        at org.armedbear.lisp.Load$1.execute(Load.java:485)
>>> >        at org.armedbear.lisp.LispThread.execute(LispThread.java:579)
>>> >        at org.armedbear.lisp.Lisp.evalCall(Lisp.java:501)
>>> >        at org.armedbear.lisp.Lisp.eval(Lisp.java:459)
>>> >        at org.armedbear.lisp.Load.loadStream(Load.java:593)
>>> >        at org.armedbear.lisp.Load.loadFileFromStream(Load.java:556)
>>> >        at org.armedbear.lisp.Load.loadFileFromStream(Load.java:499)
>>> >        at org.armedbear.lisp.Load.loadSystemFile(Load.java:415)
>>> >        at org.armedbear.lisp.Load$4.execute(Load.java:774)
>>> >        at org.armedbear.lisp.LispThread.execute(LispThread.java:562)
>>> >        at org.armedbear.lisp.Lisp.evalCall(Lisp.java:494)
>>> >        at org.armedbear.lisp.Lisp.eval(Lisp.java:459)
>>> >        at org.armedbear.lisp.Load.loadStream(Load.java:593)
>>> >        at org.armedbear.lisp.Load.loadFileFromStream(Load.java:556)
>>> >        at org.armedbear.lisp.Load.loadFileFromStream(Load.java:499)
>>> >        at org.armedbear.lisp.Load.loadSystemFile(Load.java:415)
>>> >        at org.armedbear.lisp.Interpreter.initializeLisp(Interpreter.java:158)
>>> >        at org.armedbear.lisp.Interpreter.createInstance(Interpreter.java:69)
>>> >        at org.sciencecommons.protege.lisp.LispContext.<init>(LispContext.java:14)
>>> >        at org.sciencecommons.protege.lisp.LispContext.getInstance(LispContext.java:20)
>>> >        at org.sciencecommons.protege.lisp.Activator.start(Activator.java:13)
>>> >        at org.apache.felix.framework.util.SecureAction.startActivator(SecureAction.java:639)
>>> >        at org.apache.felix.framework.Felix.activateBundle(Felix.java:1700)
>>> >        at org.apache.felix.framework.Felix.startBundle(Felix.java:1622)
>>> >        at org.apache.felix.framework.BundleImpl.start(BundleImpl.java:915)
>>> >        at org.apache.felix.framework.BundleImpl.start(BundleImpl.java:902)
>>> >        at org.protege.editor.core.BundleManager.startPlugins(BundleManager.java:110)
>>> >        at org.protege.editor.core.BundleManager.loadPlugins(BundleManager.java:41)
>>> >        at org.protege.editor.core.ProtegeApplication.loadPlugins(ProtegeApplication.java:277)
>>> >        at org.protege.editor.core.ProtegeApplication.initApplication(ProtegeApplication.java:171)
>>> >        at org.protege.editor.core.ProtegeApplication.start(ProtegeApplication.java:113)
>>> >        at org.apache.felix.framework.util.SecureAction.startActivator(SecureAction.java:639)
>>> >        at org.apache.felix.framework.Felix.activateBundle(Felix.java:1700)
>>> >        at org.apache.felix.framework.Felix.startBundle(Felix.java:1622)
>>> >        at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1077)
>>> >        at org.apache.felix.framework.StartLevelImpl.run(StartLevelImpl.java:264)
>>> >        at java.lang.Thread.run(Thread.java:619)
>>> > java.lang.Error
>>> >        at org.armedbear.lisp.Primitives$70.execute(Primitives.java:1462)
>>> >        at org.armedbear.lisp.Primitive.execute(Primitive.java:108)
>>> >        at org.armedbear.lisp.Symbol.execute(Symbol.java:770)
>>> >        at org.armedbear.lisp.Lisp.error(Lisp.java:354)
>>> >        at org.armedbear.lisp.Lisp.readFunctionBytes(Lisp.java:1329)
>>> >        at org.armedbear.lisp.AutoloadedFunctionProxy$2.execute(AutoloadedFunctionProxy.java:307)
>>> >        at org.armedbear.lisp.LispThread.execute(LispThread.java:562)
>>> >        at org.armedbear.lisp.Lisp.evalCall(Lisp.java:494)
>>> >        at org.armedbear.lisp.Lisp.eval(Lisp.java:459)
>>> >        at org.armedbear.lisp.Lisp.processTagBody(Lisp.java:767)
>>> >        at org.armedbear.lisp.dotimes.execute(dotimes.java:105)
>>> >        at org.armedbear.lisp.Lisp.eval(Lisp.java:449)
>>> >        at org.armedbear.lisp.Load.faslLoadStream(Load.java:628)
>>> >        at org.armedbear.lisp.Load.access$100(Load.java:70)
>>> >        at org.armedbear.lisp.Load$1.execute(Load.java:485)
>>> >        at org.armedbear.lisp.LispThread.execute(LispThread.java:579)
>>> >        at org.armedbear.lisp.Lisp.evalCall(Lisp.java:501)
>>> >        at org.armedbear.lisp.Lisp.eval(Lisp.java:459)
>>> >        at org.armedbear.lisp.Load.loadStream(Load.java:593)
>>> >        at org.armedbear.lisp.Load.loadFileFromStream(Load.java:556)
>>> >        at org.armedbear.lisp.Load.loadFileFromStream(Load.java:499)
>>> >        at org.armedbear.lisp.Load.loadSystemFile(Load.java:415)
>>> >        at org.armedbear.lisp.Load$4.execute(Load.java:774)
>>> >        at org.armedbear.lisp.LispThread.execute(LispThread.java:562)
>>> >        at org.armedbear.lisp.Lisp.evalCall(Lisp.java:494)
>>> >        at org.armedbear.lisp.Lisp.eval(Lisp.java:459)
>>> >        at org.armedbear.lisp.Load.loadStream(Load.java:593)
>>> >        at org.armedbear.lisp.Load.loadFileFromStream(Load.java:556)
>>> >        at org.armedbear.lisp.Load.loadFileFromStream(Load.java:499)
>>> >        at org.armedbear.lisp.Load.loadSystemFile(Load.java:415)
>>> >        at org.armedbear.lisp.Interpreter.initializeLisp(Interpreter.java:158)
>>> >        at org.armedbear.lisp.Interpreter.createInstance(Interpreter.java:69)
>>> >        at org.sciencecommons.protege.lisp.LispContext.<init>(LispContext.java:14)
>>> >        at org.sciencecommons.protege.lisp.LispContext.getInstance(LispContext.java:20)
>>> >        at org.sciencecommons.protege.lisp.Activator.start(Activator.java:13)
>>> >        at org.apache.felix.framework.util.SecureAction.startActivator(SecureAction.java:639)
>>> >        at org.apache.felix.framework.Felix.activateBundle(Felix.java:1700)
>>> >        at org.apache.felix.framework.Felix.startBundle(Felix.java:1622)
>>> >        at org.apache.felix.framework.BundleImpl.start(BundleImpl.java:915)
>>> >        at org.apache.felix.framework.BundleImpl.start(BundleImpl.java:902)
>>> >        at org.protege.editor.core.BundleManager.startPlugins(BundleManager.java:110)
>>> >        at org.protege.editor.core.BundleManager.loadPlugins(BundleManager.java:41)
>>> >        at org.protege.editor.core.ProtegeApplication.loadPlugins(ProtegeApplication.java:277)
>>> >        at org.protege.editor.core.ProtegeApplication.initApplication(ProtegeApplication.java:171)
>>> >        at org.protege.editor.core.ProtegeApplication.start(ProtegeApplication.java:113)
>>> >        at org.apache.felix.framework.util.SecureAction.startActivator(SecureAction.java:639)
>>> >        at org.apache.felix.framework.Felix.activateBundle(Felix.java:1700)
>>> >        at org.apache.felix.framework.Felix.startBundle(Felix.java:1622)
>>> >        at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1077)
>>> >        at org.apache.felix.framework.StartLevelImpl.run(StartLevelImpl.java:264)
>>> >        at java.lang.Thread.run(Thread.java:619)
>>> >
>>> > _______________________________________________
>>> > armedbear-devel mailing list
>>> > armedbear-devel at common-lisp.net
>>> > http://common-lisp.net/cgi-bin/mailman/listinfo/armedbear-devel
>>> >
>>> >
>>
>>
>>
>