[armedbear-devel] integrating abcl into Protege

Alessio Stalla alessiostalla at gmail.com
Wed Mar 10 21:19:18 UTC 2010 

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.

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)
>
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