Xena - Digital Preservation Software / Bugs / #288 exporting archive file

Justin Waddell - 2009-11-24

assigned_to: nobody --> acunliffe

labels: --> Normaliser

status: open --> open-fixed
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Justin Waddell - 2009-11-24

There were a number of problems with archive files that needed to be fixed:

* 0-length archive files are not valid and cause problems when attempting to operate on them. 0-length files are now more likely to be guessed as binary files.
* The wrong magic number was being used for jar files, causing them to be guessed as .odt files.
* Problems with the plaintext normaliser for files inside the archives.

Fixes made in Xena v4.3.16, archive v1.2.4, plaintext v3.4.3 (testing branches)

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Allan Cunliffe - 2009-11-25

Tested in Testing Branch - Xena v4.3.16, archive v1.2.4, plaintext v3.4.3.

Ran selection of zip and gzip files through Xena. All were normalised correctly.

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Allan Cunliffe - 2009-11-25

status: open-fixed --> closed-fixed
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Allan Cunliffe - 2009-11-26

Tested in Testing Branch - Xena v4.3.16, archive v1.2.4, plaintext v3.4.3.

I've tested this a bit more thoroughly and there appears to be some problems with exporting archive files.

I normalised a group of archive files (.zip, .gz, .jar)
Opened the archive from the Normalisation Results
From within Xena Viewer, I attempted to Export the archive.
Some allow me to export and others throw up the error:

"java.util.zip.ZipException: duplicate entry. org/w3c/dom/UserDataHandler.class"

Terminal output:

"au.gov.naa.digipres.xena.kernel.XenaException: java.util.zip.ZipException: duplicate entry: org/w3c/dom/UserDataHandler.class
at au.gov.naa.digipres.xena.core.Xena.export(Xena.java:765)
at au.gov.naa.digipres.xena.viewer.NormalisedObjectViewFrame.exportXenaFile(NormalisedObjectViewFrame.java:275)
at au.gov.naa.digipres.xena.viewer.NormalisedObjectViewFrame.access$300(NormalisedObjectViewFrame.java:69)
at au.gov.naa.digipres.xena.viewer.NormalisedObjectViewFrame$2.actionPerformed(NormalisedObjectViewFrame.java:157)
..."

This only happens with some archive files - too large to attach here but one is the xena.jar

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Allan Cunliffe - 2009-11-26

assigned_to: acunliffe --> jwaddell

status: closed-fixed --> open-fixed
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Daniel Black - 2010-11-17

assigned_to: jwaddell --> matthewoliver
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Daniel Black - 2011-01-18

opening based on last comment (though a different problem to what was originally reported)

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Daniel Black - 2011-01-18

summary: GZIP files not normalising --> exporting archive file - duplicate entries

priority: 5 --> 6

status: open-fixed --> open
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Allan Cunliffe - 2011-02-25

Tested in Stable Branch v5.0.0

Looks like this is still an issue in current stable branch.

When exporting Xena.jar, I'm still getting the error:

"java.util.zip.ZipException: duplicate entry.
org/w3c/dom/UserDataHandler.class"

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Michael Carden - 2011-08-01

assigned_to: matthewoliver --> terryoneill
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Allan Cunliffe - 2011-08-29

Tested in Xena imageMagicFix branch (Date: Thu Aug 25 13:49:19 2011 +1000)

Still an issue.

Console output:

Destination: /home/al/Xena/Destination/xena.jar_Zip.xena
au.gov.naa.digipres.xena.kernel.XenaException: org.xml.sax.SAXException: Problem exporting archive entry org/w3c/dom/UserDataHandler.class
java.util.zip.ZipException: duplicate entry: org/w3c/dom/UserDataHandler.class
at au.gov.naa.digipres.xena.core.Xena.export(Xena.java:911)
at au.gov.naa.digipres.xena.viewer.NormalisedObjectViewDialog.exportXenaFile(NormalisedObjectViewDialog.java:305)
at au.gov.naa.digipres.xena.viewer.NormalisedObjectViewDialog.access$300(NormalisedObjectViewDialog.java:72)
at au.gov.naa.digipres.xena.viewer.NormalisedObjectViewDialog$2.actionPerformed(NormalisedObjectViewDialog.java:174)
at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:2012)
at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2335)
at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:404)
at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:253)
at java.awt.Component.processMouseEvent(Component.java:6203)
at javax.swing.JComponent.processMouseEvent(JComponent.java:3267)
at java.awt.Component.processEvent(Component.java:5968)
at java.awt.Container.processEvent(Container.java:2105)
at java.awt.Component.dispatchEventImpl(Component.java:4564)
at java.awt.Container.dispatchEventImpl(Container.java:2163)
at java.awt.Component.dispatchEvent(Component.java:4390)
at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4461)
at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4125)
at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4055)
at java.awt.Container.dispatchEventImpl(Container.java:2149)
at java.awt.Window.dispatchEventImpl(Window.java:2478)
at java.awt.Component.dispatchEvent(Component.java:4390)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:649)
at java.awt.EventQueue.access$000(EventQueue.java:96)
at java.awt.EventQueue$1.run(EventQueue.java:608)
at java.awt.EventQueue$1.run(EventQueue.java:606)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:105)
at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:116)
at java.awt.EventQueue$2.run(EventQueue.java:622)
at java.awt.EventQueue$2.run(EventQueue.java:620)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:105)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:619)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:275)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:200)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:190)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:185)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:177)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:138)
Caused by: org.xml.sax.SAXException: Problem exporting archive entry org/w3c/dom/UserDataHandler.class
java.util.zip.ZipException: duplicate entry: org/w3c/dom/UserDataHandler.class
at au.gov.naa.digipres.xena.plugin.archive.ArchiveDeNormaliser.startElement(ArchiveDeNormaliser.java:166)
at org.xml.sax.helpers.XMLFilterImpl.startElement(XMLFilterImpl.java:551)
at au.gov.naa.digipres.xena.kernel.metadatawrapper.DefaultUnwrapper.startElement(DefaultUnwrapper.java:40)
at org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source)
at org.apache.xerces.parsers.AbstractXMLDocumentParser.emptyElement(Unknown Source)
at org.apache.xerces.impl.XMLNSDocumentScannerImpl.scanStartElement(Unknown Source)
at org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatcher.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.xerces.jaxp.SAXParserImpl$JAXPSAXParser.parse(Unknown Source)
at au.gov.naa.digipres.xena.kernel.normalise.NormaliserManager.export(NormaliserManager.java:1666)
at au.gov.naa.digipres.xena.kernel.normalise.NormaliserManager.export(NormaliserManager.java:1420)
at au.gov.naa.digipres.xena.kernel.normalise.NormaliserManager.export(NormaliserManager.java:1391)
at au.gov.naa.digipres.xena.kernel.normalise.NormaliserManager.export(NormaliserManager.java:1347)
at au.gov.naa.digipres.xena.core.Xena.export(Xena.java:905)
... 39 more
Caused by: java.util.zip.ZipException: duplicate entry: org/w3c/dom/UserDataHandler.class
at java.util.zip.ZipOutputStream.putNextEntry(ZipOutputStream.java:192)
at au.gov.naa.digipres.xena.plugin.archive.ArchiveDeNormaliser.startElement(ArchiveDeNormaliser.java:151)
... 56 more

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exporting archive file - duplicate entries

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