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From Pei Chen <pei.c...@wiredinformatics.com>
Subject Re: UMLS Integration
Date Tue, 16 Dec 2014 05:18:19 GMT
Praveen,
The error looks specific to UMLS metamorphosys rather than cTAKES.  I am
assuming you are trying to install UMLS locally from scratch rather than
using the bundled cTAKES resources.

Did you confirm that all of the files have been downloaded correctly per
Metamorphosys instructions:
http://www.nlm.nih.gov/research/umls/licensedcontent/umlsknowledgesources.html
 The error seems to be related to incomplete or corrupted zip files?



    Pei Chen
Wired Informatics <http://www.wiredinformatics.com>
265 Franklin St Ste 1702
Boston, MA 02110
tel: (617) 433-7544
Pei.Chen@wiredinformatics.com


> ---------- Forwarded message ----------
> From: Jay_Ram <pandupraveen585@gmail.com>
> Date: Tue, Dec 16, 2014 at 12:07 AM
> Subject: UMLS Integration
> To: dev@ctakes.apache.org
>
> Hi All,
>
> I downloaded UMLS resource, to use them offline by loading in mysql. I
> followed them which are mentioned to load data into mysql. But I am unable
> to do it show error
> --------------------------------------------
> Loading MetamorphoSys ...
>     [Please be patient and wait for MetamorphoSys to begin]
> --------------------------------------------
> java.util.zip.ZipException: invalid LOC header (bad signature)
>         at java.util.zip.ZipFile.read(Native Method)
>         at java.util.zip.ZipFile.access$1400(Unknown Source)
>         at java.util.zip.ZipFile$ZipFileInputStream.read(Unknown Source)
>         at java.util.zip.ZipFile$ZipFileInflaterInputStream.fill(Unknown
> Source)
>         at java.util.zip.InflaterInputStream.read(Unknown Source)
>         at java.util.zip.InflaterInputStream.read(Unknown Source)
>         at java.util.zip.CheckedInputStream.read(Unknown Source)
>         at java.util.zip.GZIPInputStream.readUByte(Unknown Source)
>         at java.util.zip.GZIPInputStream.readUShort(Unknown Source)
>         at java.util.zip.GZIPInputStream.readHeader(Unknown Source)
>         at java.util.zip.GZIPInputStream.<init>(Unknown Source)
>         at
>
> gov.nih.nlm.umls.meta.io.RRFMetadataInputStream.openSourceFile(RRFMetadataInputStream.java:390)
>         at
>
> gov.nih.nlm.umls.meta.io.RRFConceptInputStream.open(RRFConceptInputStream.java:175)
>         at
>
> gov.nih.nlm.umls.meta.io.RRFMetathesaurusInputStream.open(RRFMetathesaurusInputStream.java:125)
>         at
>
> gov.nih.nlm.umls.mmsys.io.RRFMetamorphoSysInputStream.open(RRFMetamorphoSysInputStream.java:629)
>         at
>
> gov.nih.nlm.umls.mmsys.subset.gui.MetamorphoSysGUI.validateGUIConfigurables(MetamorphoSysGUI.java:1097)
>         at
>
> gov.nih.nlm.umls.mmsys.subset.gui.BeginSubsetAction.actionPerformed(BeginSubsetAction.java:110)
>         at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
>         at javax.swing.AbstractButton$Handler.actionPerformed(Unknown
> Source)
>         at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown
> Source)
>         at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
>         at javax.swing.AbstractButton.doClick(Unknown Source)
>         at javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
>         at
> javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown
> Source)
>         at java.awt.AWTEventMulticaster.mouseReleased(Unknown Source)
>         at java.awt.Component.processMouseEvent(Unknown Source)
>         at javax.swing.JComponent.processMouseEvent(Unknown Source)
>         at java.awt.Component.processEvent(Unknown Source)
>         at java.awt.Container.processEvent(Unknown Source)
>         at java.awt.Component.dispatchEventImpl(Unknown Source)
>         at java.awt.Container.dispatchEventImpl(Unknown Source)
>         at java.awt.Component.dispatchEvent(Unknown Source)
>         at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown
> Source)
>         at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
>         at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
>         at java.awt.Container.dispatchEventImpl(Unknown Source)
>         at java.awt.Window.dispatchEventImpl(Unknown Source)
>         at java.awt.Component.dispatchEvent(Unknown Source)
>         at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
>         at java.awt.EventQueue.access$200(Unknown Source)
>         at java.awt.EventQueue$3.run(Unknown Source)
>         at java.awt.EventQueue$3.run(Unknown Source)
>         at java.security.AccessController.doPrivileged(Native Method)
>         at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
> Source)
>         at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
> Source)
>         at java.awt.EventQueue$4.run(Unknown Source)
>         at java.awt.EventQueue$4.run(Unknown Source)
>         at java.security.AccessController.doPrivileged(Native Method)
>         at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
> Source)
>         at java.awt.EventQueue.dispatchEvent(Unknown Source)
>         at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown
> Source)
>         at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
>         at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown
> Source)
>         at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
>         at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
>         at java.awt.EventDispatchThread.run(Unknown Source)
>
> Please help to slove this issue. Thaks in advance.
>
> Regards,
> Praveen.
>

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