This sounds like an issue I vaguely remember in which namespace prefixes
were defined on the foxml root element, and this was causing some chaos
down the line when inline XML was parsed in a different context. I'm
rooting around old commits and JIRA issues trying to track it down- I think
there was a fix for DC, but I'm wondering if older versions of FCRepo might
have done the same thing with the rdfs and audit namespaces.
If I'm right, fixing this also means that the akubra migration utility will
have to recalculate checksums- not much to be done there, the content is
materially different.
- Ben
On Thu, Jul 18, 2013 at 12:21 PM, Benjamin Armintor <[email protected]>wrote:
> Javier:
> Thanks for your report. I've stubbed out an issue to track this problem
> at https://jira.duraspace.org/browse/FCREPO-1195. If we can confirm it,
> we'll try to get a fix into the 3.7 release (expected by the end of July).
>
> - Ben
>
>
> On Wed, Jul 17, 2013 at 3:11 AM, Javier Molina <
> [email protected]> wrote:
>
>> Hi all,
>>
>> I am working with fscu to try to migrate from legacy to akubra low level
>> storage.
>>
>> I configured both lls appropriately and run the command below.
>>
>> /opt/fedora/fedora-3.6/fcrepo-store-util-0.1.0-SNAPSHOT/bin$ ./fcsu copy
>> legacy akubra
>>
>>
>> Then after sometime (I think it uses a DB to stage the file names to
>> transfer) I can see messages about the transfer progress, however I see
>> messages, like the one at the end of the e-mail, very often after some
>> examination it seems that objects that contain an xml entry for
>> audit:auditTrail won't work and just be ignored by fscu.
>>
>> Has anyone have some advice on how to make fscu work properly with those
>> entries?
>>
>> Thanks,
>> Javier
>>
>>
>>
>> WARN Error parsing Fedora object; ignoring: 2009/0325/16/31/changeme_70
>> java.io.IOException: Error parsing foxml:xmlContent
>> at
>> com.github.cwilper.fcrepo.dto.foxml.FOXMLReader.readXMLContent(FOXMLReader.java:220)
>> ~[fcrepo-dto-foxml-1.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.dto.foxml.FOXMLReader.readDatastreamVersion(FOXMLReader.java:158)
>> ~[fcrepo-dto-foxml-1.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.dto.foxml.FOXMLReader.readDatastream(FOXMLReader.java:128)
>> ~[fcrepo-dto-foxml-1.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.dto.foxml.FOXMLReader.readObject(FOXMLReader.java:86)
>> ~[fcrepo-dto-foxml-1.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.dto.foxml.FOXMLReader.readObject(FOXMLReader.java:70)
>> ~[fcrepo-dto-foxml-1.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.store.legacy.Util.readObject(Util.java:37)
>> ~[fcrepo-store-legacy-0.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.store.legacy.LegacyFedoraStore$1.computeNext(LegacyFedoraStore.java:188)
>> [fcrepo-store-legacy-0.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.store.legacy.LegacyFedoraStore$1.computeNext(LegacyFedoraStore.java:182)
>> [fcrepo-store-legacy-0.1.0-SNAPSHOT.jar:na]
>> at
>> com.google.common.collect.AbstractIterator.tryToComputeNext(AbstractIterator.java:136)
>> [guava-collections-r03.jar:na]
>> at
>> com.google.common.collect.AbstractIterator.hasNext(AbstractIterator.java:131)
>> [guava-collections-r03.jar:na]
>> at
>> com.github.cwilper.fcrepo.store.util.commands.BatchObjectCommand.execute(BatchObjectCommand.java:29)
>> [fcrepo-store-util-0.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.store.util.StoreUtil.execute(StoreUtil.java:43)
>> [fcrepo-store-util-0.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.store.util.StoreUtil.main(StoreUtil.java:51)
>> [fcrepo-store-util-0.1.0-SNAPSHOT.jar:na]
>> Caused by: java.io.IOException: javax.xml.transform.TransformerException:
>> javax.xml.transform.TransformerException:
>> com.sun.org.apache.xml.internal.utils.WrappedRuntimeException: The prefix
>> "audit" for element "audit:auditTrail" is not bound.
>> at
>> com.github.cwilper.fcrepo.dto.core.io.XMLUtil.prettyPrint(XMLUtil.java:124)
>> ~[fcrepo-dto-core-1.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.dto.core.io.XMLUtil.prettyPrint(XMLUtil.java:102)
>> ~[fcrepo-dto-core-1.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.dto.core.InlineXML.<init>(InlineXML.java:66)
>> ~[fcrepo-dto-core-1.1.0-SNAPSHOT.jar:na]
>> at
>> com.github.cwilper.fcrepo.dto.foxml.FOXMLReader.readXMLContent(FOXMLReader.java:218)
>> ~[fcrepo-dto-foxml-1.1.0-SNAPSHOT.jar:na]
>> ... 12 common frames omitted
>> Caused by: javax.xml.transform.TransformerException:
>> javax.xml.transform.TransformerException:
>> com.sun.org.apache.xml.internal.utils.WrappedRuntimeException: The prefix
>> "audit" for element "audit:auditTrail" is not bound.
>> at
>> com.sun.org.apache.xalan.internal.xsltc.trax.TransformerImpl.transform(TransformerImpl.java:723)
>> ~[na:1.6.0_27]
>> at
>> com.sun.org.apache.xalan.internal.xsltc.trax.TransformerImpl.transform(TransformerImpl.java:317)
>> ~[na:1.6.0_27]
>> at
>> com.github.cwilper.fcrepo.dto.core.io.XMLUtil.prettyPrint(XMLUtil.java:119)
>> ~[fcrepo-dto-core-1.1.0-SNAPSHOT.jar:na]
>> ... 15 common frames omitted
>> Caused by: javax.xml.transform.TransformerException:
>> com.sun.org.apache.xml.internal.utils.WrappedRuntimeException: The prefix
>> "audit" for element "audit:auditTrail" is not bound.
>> at
>> com.sun.org.apache.xalan.internal.xsltc.trax.TransformerImpl.getDOM(TransformerImpl.java:550)
>> ~[na:1.6.0_27]
>> at
>> com.sun.org.apache.xalan.internal.xsltc.trax.TransformerImpl.transform(TransformerImpl.java:713)
>> ~[na:1.6.0_27]
>> ... 17 common frames omitted
>> Caused by: com.sun.org.apache.xml.internal.utils.WrappedRuntimeException:
>> The prefix "audit" for element "audit:auditTrail" is not bound.
>> at
>> com.sun.org.apache.xalan.internal.xsltc.dom.XSLTCDTMManager.getDTM(XSLTCDTMManager.java:450)
>> ~[na:1.6.0_27]
>> at
>> com.sun.org.apache.xalan.internal.xsltc.dom.XSLTCDTMManager.getDTM(XSLTCDTMManager.java:238)
>> ~[na:1.6.0_27]
>> at
>> com.sun.org.apache.xalan.internal.xsltc.trax.TransformerImpl.getDOM(TransformerImpl.java:528)
>> ~[na:1.6.0_27]
>> ... 18 common frames omitted
>>
>>
>>
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