Hi Donna, I used 64bit windows version, before conversion the metric file is about 4Megabyte, but after conversion the metric file become 4Gigabyte. And the error message of command significance-threshold-free is the same as the previous one.
Thanks, Gang <goog_32396192> > <goog_32396192>Hi Gang, > I have seen that error before. You uploaded the metric, but there should > also be associated LEFT-RIGHT.VertexArea.tmap.random.5000x.metric.data1-4 > files. Make sure those exist and did not get moved/deleted accidentally. > Also consider using a caret_command.exe from an older distribution, e.g.: > http://brainmap.wustl.edu/pub/caret/caret_distribution_Windows32.v5.62.zip > login pub > password download > Specifically, I think the caret_command -file-convert steps between the > smoothing and TFCE steps might work better with the older version. I > suspect the error below might be a file conversion glitch resulting from > your particular caret_command.exe, but we won't know if that's true unless > it works with an older one. (Note that the only things caret_command is > being used for in this script is conversion to XML and smoothing.) > I recently ran into conversion problems with certain versions of > caret_command. > If you capture the output of the script to a file, does caret_command > complain during the conversion steps? > Donna > On Apr 16, 2012, at 10:27 AM, gangli wrote: > >* Hi Donna, > *> > * *>* I have done 5000 iteration of the permutation, but when I am trying > to use the command: significance-threshold-free, I saw some errors. I have > upload the file: LEFT-RIGHT.VertexArea.tmap.random.5000x.metric, could you > please help check the errors? > *> > * *>* Apr 16, 2012 11:10:52 AM > edu.wustl.caret.niftilib.NiftiXmlFileEntityResolver resolveEntity > *>* INFO: Resolving: http://www.nitrc.org/frs/download.php/1594/gifti.dtd > *>* Apr 16, 2012 11:10:52 AM > edu.wustl.caret.niftilib.NiftiXmlFileEntityResolver resolveEntity > *>* INFO: Ignoring null > http://www.nitrc.org/frs/download.php/1594/gifti.dtd > *>* Apr 16, 2012 11:10:52 AM edu.wustl.caret.giftijlib.GiftiDataArrayFile > readFile > *>* SEVERE: SAX Exception > *>* org.xml.sax.SAXException: While reading line 1, column 1:Content is > not allowed in prolog. > *>* at > edu.wustl.caret.niftilib.NiftiXmlDefaultHandler.fatalError(NiftiXmlDefaultHandler.java:45) > *>* at > com.sun.org.apache.xerces.internal.util.ErrorHandlerWrapper.fatalError(ErrorHandlerWrapper.java:180) > *>* at > com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:441) > *>* at > com.sun.org.apache.xerces.internal.impl.XMLErrorReporter.reportError(XMLErrorReporter.java:368) > *>* at > com.sun.org.apache.xerces.internal.impl.XMLScanner.reportFatalError(XMLScanner.java:1375) > *>* at > com.sun.org.apache.xerces.internal.impl.XMLDocumentScannerImpl$PrologDriver.next(XMLDocumentScannerImpl.java:996) > *>* at > com.sun.org.apache.xerces.internal.impl.XMLDocumentScannerImpl.next(XMLDocumentScannerImpl.java:607) > *>* at > com.sun.org.apache.xerces.internal.impl.XMLDocumentFragmentScannerImpl.scanDocument(XMLDocumentFragmentScannerImpl.java:488) > *>* at > com.sun.org.apache.xerces.internal.parsers.XML11Configuration.parse(XML11Configuration.java:835) > *>* at > com.sun.org.apache.xerces.internal.parsers.XML11Configuration.parse(XML11Configuration.java:764) > *>* at > com.sun.org.apache.xerces.internal.parsers.XMLParser.parse(XMLParser.java:123) > *>* at > com.sun.org.apache.xerces.internal.parsers.AbstractSAXParser.parse(AbstractSAXParser.java:1210) > *>* at > com.sun.org.apache.xerces.internal.jaxp.SAXParserImpl$JAXPSAXParser.parse(SAXParserImpl.java:568) > *>* at > edu.wustl.caret.giftijlib.GiftiDataArrayFile.readFile(GiftiDataArrayFile.java:724) > *>* at > edu.wustl.caret.files.GiftiDataArrayBasedFile.readGiftiXmlFormat(GiftiDataArrayBasedFile.java:976) > *>* at > edu.wustl.caret.files.AbstractFile.readFilesData(AbstractFile.java:1292) > *>* at > edu.wustl.caret.files.AbstractFile.readFileOnDisk(AbstractFile.java:1199) > *>* at edu.wustl.caret.files.AbstractFile.readFile(AbstractFile.java:972) > *>* at > edu.wustl.caret.statistics.StatisticOperationSignificanceTFCE.executeOperation(StatisticOperationSignificanceTFCE.java:319) > *>* at > edu.wustl.caret.statistics.StatisticMain.main(StatisticMain.java:120) > *> > * *>* ERROR: edu.wustl.caret.giftijlib.GiftiException: > org.xml.sax.SAXException: While reading line 1, column 1:Content is not > allowed in prolog. > *> > * *> > * *>* Thanks a lot, > *>* Gang*
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