Mailing-List: contact user-help@uima.apache.org; run by ezmlm
Precedence: bulk
Reply-To: user@uima.apache.org
MIME-Version: 1.0
In-Reply-To: <F3964E16-DF94-4CEA-805E-78A2C4DB1502@apache.org>
References: <CA+3KvkM9xYHQeyBh-_fU7-bTqW8UKevQUHS+UCALkm9GDubYTg@mail.gmail.com>
 <F3964E16-DF94-4CEA-805E-78A2C4DB1502@apache.org>
From: "Pablo N. Mendes" <pablomendes@gmail.com>
Date: Sat, 7 May 2016 13:15:59 -0700
Message-ID: <CA+3KvkOpnVO3jKO+VzrNBTq3v6_K4PXB1by-EpL40B5nHARatw@mail.gmail.com>
Subject: Re: No sofaFS for specified sofaRef found
To: user@uima.apache.org
Content-Type: multipart/alternative; boundary=94eb2c0bcaeec6dafd05324640d6
archived-at: Sat, 07 May 2016 20:16:52 -0000

--94eb2c0bcaeec6dafd05324640d6
Content-Type: text/plain; charset=UTF-8

Thanks for your reply. I did not generate the XMI. It was provided to me in
a file and I could not for the life of me figure out why it wasn't parsing.
Only after I added the sofa="1" it deserialized perfectly.

So I figured I'd send a comment here to:
1) make it easier for others searching for this error message;
2) see if the community feels like it's worth changing the error message
(so it's clearer) or the parsing code so that this is not an issue in the
future (e.g. couldn't we assume sofa=1 when not specified?)

Is CasCopier known to omit sofa=1 when generating XMI? I noticed you
rewrote it for DKPro.

Cheers,
Pablo


On Sat, May 7, 2016 at 6:46 AM, Richard Eckart de Castilho <rec@apache.org>
wrote:

> Were you using a CasCopier for the generation of this XMI?
>
> Cheers,
>
> -- Richard
>
> > On 07.05.2016, at 00:30, Pablo N. Mendes <pablomendes@gmail.com> wrote:
> >
> > Folks,
> > I am getting "No sofaFS for specified sofaRef found" while trying to
> > deserialize an XMI. I found the message a bit cryptic and didn't find
> much
> > help on the lazyweb, so I bit the bullet and spent a few hours poking
> > around. It seems to be a missing "sofa" attribute. If the sofa attribute
> > has the wrong value, then you get "xmi id <id> is referenced but not
> > defined" which is very nice and clear. But if you omit the sofa attribute
> > you get "No sofaFS for specified sofaRef found" which is less informative
> > IMHO.
> >
> > Extra info below.
> >
> > Cheers,
> > Pablo
> >
> > $ diff cas1.xmi cas2.xmi
> > 9c9
> > < <ls:DocumentMetadata xmi:id="18" sofa="1" source="file001.txt"
> > documentId="001"/>
> > ---
> >> <ls:DocumentMetadata xmi:id="18" source="file001.txt" documentId="001"/>
> >
> >
> >
> >
> > VERSIONS
> >
> >    <uima.version>2.8.1</uima.version>
> >    <uimafit.version>2.1.0</uimafit.version>
> >
> > JAVA CODE SNIPPET
> >
> > org.apache.uima.util.XmlCasDeserializer.deserialize(inputStream,
> > jCas.getCas());
> >
> > STACK TRACE
> >
> > Exception in thread "main" org.apache.uima.cas.CASRuntimeException: No
> > sofaFS for specified sofaRef found.
> > at org.apache.uima.cas.impl.CASImpl.getSofa(CASImpl.java:806)
> > at
> >
> org.apache.uima.cas.impl.FSIndexRepositoryImpl.ll_addFS_common(FSIndexRepositoryImpl.java:2781)
> > at
> >
> org.apache.uima.cas.impl.FSIndexRepositoryImpl.ll_addFS(FSIndexRepositoryImpl.java:2763)
> > at
> >
> org.apache.uima.cas.impl.FSIndexRepositoryImpl.addFS(FSIndexRepositoryImpl.java:2068)
> > at
> >
> org.apache.uima.cas.impl.XmiCasDeserializer$XmiCasDeserializerHandler.endDocument(XmiCasDeserializer.java:1486)
> > at
> >
> org.apache.uima.util.XmlCasDeserializer$XmlCasDeserializerHandler.endDocument(XmlCasDeserializer.java:127)
> > at org.apache.xerces.parsers.AbstractSAXParser.endDocument(Unknown
> Source)
> > at org.apache.xerces.impl.XMLDocumentScannerImpl.endEntity(Unknown
> Source)
> > at org.apache.xerces.impl.XMLEntityManager.endEntity(Unknown Source)
> > at org.apache.xerces.impl.XMLEntityScanner.load(Unknown Source)
> > at org.apache.xerces.impl.XMLEntityScanner.skipSpaces(Unknown Source)
> > at
> >
> org.apache.xerces.impl.XMLDocumentScannerImpl$TrailingMiscDispatcher.dispatch(Unknown
> > Source)
> > at
> >
> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown
> > Source)
> > at org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source)
> > at org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source)
> > at org.apache.xerces.parsers.XMLParser.parse(Unknown Source)
> > at org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source)
> > at
> >
> org.apache.uima.util.XmlCasDeserializer.deserialize(XmlCasDeserializer.java:83)
> > at
> >
> org.apache.uima.util.XmlCasDeserializer.deserialize(XmlCasDeserializer.java:58)
> > ...
> >
> >
> > CAS1.xmi
> >
> > <?xml version="1.0" encoding="UTF-8"?>
> > <xmi:XMI
> > xmlns:cas="http:///uima/cas.ecore"
> > xmlns:tcas="http:///uima/tcas.ecore"
> > xmlns:xmi="http://www.omg.org/XMI"
> > xmlns:ls="http:///com/example.ecore"
> > xmi:version="2.0">
> > <cas:NULL xmi:id="0"/>
> > <ls:DocumentMetadata xmi:id="18" sofa="1" source="file001.txt"
> > documentId="001"/>
> > <cas:Sofa xmi:id="1" sofaNum="1" sofaID="_InitialView" mimeType="text"
> > sofaString="This is a test."/>
> > <cas:View sofa="1" members="18"/>
> > </xmi:XMI>
> >
> >
> > CAS2.xmi
> >
> > <?xml version="1.0" encoding="UTF-8"?>
> > <xmi:XMI
> > xmlns:cas="http:///uima/cas.ecore"
> > xmlns:tcas="http:///uima/tcas.ecore"
> > xmlns:xmi="http://www.omg.org/XMI"
> > xmlns:ls="http:///com/example.ecore"
> > xmi:version="2.0">
> > <cas:NULL xmi:id="0"/>
> > <ls:DocumentMetadata xmi:id="18" source="file001.txt" documentId="001"/>
> > <cas:Sofa xmi:id="1" sofaNum="1" sofaID="_InitialView" mimeType="text"
> > sofaString="This is a test."/>
> > <cas:View sofa="1" members="18"/>
> > </xmi:XMI>
> >
> >
> > TYPESYSTEM
> >
> > <?xml version="1.0" encoding="UTF-8" ?>
> >
> > <typeSystemDescription  xmlns="http://uima.apache.org/resourceSpecifier
> ">
> >        <name>ExampleTypeSystem</name>
> >        <description>Just an example</description>
> >        <vendor>example.com</vendor>
> >        <version>1.0</version>
> >        <types>
> >                <typeDescription>
> >                        <name>com.example.DocumentMetadata</name>
> >                        <description></description>
> >
> > <supertypeName>uima.tcas.DocumentAnnotation</supertypeName>
> >                        <features>
> >                                <featureDescription>
> >                                        <name>source</name>
> >                                        <description>Source</description>
> >
> > <rangeTypeName>uima.cas.String</rangeTypeName>
> >                                </featureDescription>
> >                                <featureDescription>
> >                                        <name>documentId</name>
> >                                        <description>Source</description>
> >
> > <rangeTypeName>uima.cas.String</rangeTypeName>
> >                                </featureDescription>
> >                        </features>
> >                </typeDescription>
> >
> >        </types>
> > </typeSystemDescription>
> >
> >
> > --
> > Pablo N. Mendes
> > http://pablomendes.com
>
>


-- 

Pablo N. Mendes
http://pablomendes.com

--94eb2c0bcaeec6dafd05324640d6--