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Processing failed with error 500. .MalformedByteSequenceException: Invalid byte 2 of 3-byte UTF-8 sequence.
See original GitHub issueHi,
Thanks for providing such a nice project. I have a similar issue as #472 . Put the screen shot here first.
I build my local grobid server, then use the python client. The procedure is processFulltextDocument.
The error messages are here:
127.0.0.1 - - [30/Jul/2020:02:14:59 +0000] "POST /api/processFulltextDocument HTTP/1.1" 500 89 "-" "python-requests/2.23.0" 378
ERROR [2020-07-30 02:14:59,633] org.grobid.service.process.GrobidRestProcessFiles: An unexpected exception occurs.
! org.apache.xerces.impl.io.MalformedByteSequenceException: Invalid byte 2 of 3-byte UTF-8 sequence.
! at org.apache.xerces.impl.io.UTF8Reader.invalidByte(Unknown Source)
! at org.apache.xerces.impl.io.UTF8Reader.read(Unknown Source)
! at org.apache.xerces.impl.XMLEntityScanner.load(Unknown Source)
! at org.apache.xerces.impl.XMLEntityScanner.scanLiteral(Unknown Source)
! at org.apache.xerces.impl.XMLScanner.scanAttributeValue(Unknown Source)
! at org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanAttribute(Unknown Source)
! at org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown Source)
! ... 87 common frames omitted
! Causing: org.xml.sax.SAXParseException: Invalid byte 2 of 3-byte UTF-8 sequence.
! at org.apache.xerces.util.ErrorHandlerWrapper.createSAXParseException(Unknown Source)
! at org.apache.xerces.util.ErrorHandlerWrapper.fatalError(Unknown Source)
! at org.apache.xerces.impl.XMLErrorReporter.reportError(Unknown Source)
! at org.apache.xerces.impl.XMLErrorReporter.reportError(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 org.apache.xerces.jaxp.SAXParserImpl.parse(Unknown Source)
! at java.xml/javax.xml.parsers.SAXParser.parse(SAXParser.java:197)
! at org.grobid.core.document.Document.addTokenizedDocument(Document.java:376)
! ... 77 common frames omitted
! Causing: org.grobid.core.exceptions.GrobidException: [PARSING_ERROR] Cannot parse file: /Ship03/Sources/grobid/grobid-home/tmp/E38zA47w7D.lxml
! at org.grobid.core.document.Document.addTokenizedDocument(Document.java:388)
! at org.grobid.core.engines.Segmentation.processing(Segmentation.java:94)
! at org.grobid.core.engines.FullTextParser.processing(FullTextParser.java:134)
! at org.grobid.core.engines.FullTextParser.processing(FullTextParser.java:113)
! at org.grobid.core.engines.Engine.fullTextToTEIDoc(Engine.java:489)
! at org.grobid.core.engines.Engine.fullTextToTEI(Engine.java:480)
! at org.grobid.service.process.GrobidRestProcessFiles.processFulltextDocument(GrobidRestProcessFiles.java:179)
! at org.grobid.service.GrobidRestService.processFulltext(GrobidRestService.java:234)
! at org.grobid.service.GrobidRestService.processFulltextDocument_post(GrobidRestService.java:189)
! at jdk.internal.reflect.GeneratedMethodAccessor14.invoke(Unknown Source)
! at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
! at java.base/java.lang.reflect.Method.invoke(Method.java:566)
! at org.glassfish.jersey.server.model.internal.ResourceMethodInvocationHandlerFactory$1.invoke(ResourceMethodInvocationHandlerFactory.java:81)
! at org.glassfish.jersey.server.model.internal.AbstractJavaResourceMethodDispatcher$1.run(AbstractJavaResourceMethodDispatcher.java:144)
! at org.glassfish.jersey.server.model.internal.AbstractJavaResourceMethodDispatcher.invoke(AbstractJavaResourceMethodDispatcher.java:161)
! at org.glassfish.jersey.server.model.internal.JavaResourceMethodDispatcherProvider$ResponseOutInvoker.doDispatch(JavaResourceMethodDispatcherProvider.java:160)
! at org.glassfish.jersey.server.model.internal.AbstractJavaResourceMethodDispatcher.dispatch(AbstractJavaResourceMethodDispatcher.java:99)
! at org.glassfish.jersey.server.model.ResourceMethodInvoker.invoke(ResourceMethodInvoker.java:389)
! at org.glassfish.jersey.server.model.ResourceMethodInvoker.apply(ResourceMethodInvoker.java:347)
! at org.glassfish.jersey.server.model.ResourceMethodInvoker.apply(ResourceMethodInvoker.java:102)
! at org.glassfish.jersey.server.ServerRuntime$2.run(ServerRuntime.java:326)
! at org.glassfish.jersey.internal.Errors$1.call(Errors.java:271)
! at org.glassfish.jersey.internal.Errors$1.call(Errors.java:267)
! at org.glassfish.jersey.internal.Errors.process(Errors.java:315)
! at org.glassfish.jersey.internal.Errors.process(Errors.java:297)
! at org.glassfish.jersey.internal.Errors.process(Errors.java:267)
! at org.glassfish.jersey.process.internal.RequestScope.runInScope(RequestScope.java:317)
! at org.glassfish.jersey.server.ServerRuntime.process(ServerRuntime.java:305)
! at org.glassfish.jersey.server.ApplicationHandler.handle(ApplicationHandler.java:1154)
! at org.glassfish.jersey.servlet.WebComponent.serviceImpl(WebComponent.java:473)
! at org.glassfish.jersey.servlet.WebComponent.service(WebComponent.java:427)
! at org.glassfish.jersey.servlet.ServletContainer.service(ServletContainer.java:388)
! at org.glassfish.jersey.servlet.ServletContainer.service(ServletContainer.java:341)
! at org.glassfish.jersey.servlet.ServletContainer.service(ServletContainer.java:228)
! at io.dropwizard.jetty.NonblockingServletHolder.handle(NonblockingServletHolder.java:49)
! at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1623)
! at io.dropwizard.servlets.ThreadNameFilter.doFilter(ThreadNameFilter.java:35)
! at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1610)
! at io.dropwizard.jersey.filter.AllowedMethodsFilter.handle(AllowedMethodsFilter.java:45)
! at io.dropwizard.jersey.filter.AllowedMethodsFilter.doFilter(AllowedMethodsFilter.java:39)
! at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1610)
! at org.eclipse.jetty.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:311)
! at org.eclipse.jetty.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:265)
! at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1610)
! at com.google.inject.servlet.FilterChainInvocation.doFilter(FilterChainInvocation.java:89)
! at com.google.inject.servlet.ManagedFilterPipeline.dispatch(ManagedFilterPipeline.java:120)
! at com.google.inject.servlet.GuiceFilter.doFilter(GuiceFilter.java:135)
! at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1610)
! at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:540)
! at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:255)
! at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1345)
! at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:203)
! at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:480)
! at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:201)
! at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1247)
! at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:144)
! at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)
! at com.codahale.metrics.jetty9.InstrumentedHandler.handle(InstrumentedHandler.java:239)
! at io.dropwizard.jetty.RoutingHandler.handle(RoutingHandler.java:52)
! at org.eclipse.jetty.server.handler.gzip.GzipHandler.handle(GzipHandler.java:703)
! at io.dropwizard.jetty.BiDiGzipHandler.handle(BiDiGzipHandler.java:67)
! at org.eclipse.jetty.server.handler.RequestLogHandler.handle(RequestLogHandler.java:56)
! at org.eclipse.jetty.server.handler.StatisticsHandler.handle(StatisticsHandler.java:174)
! at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)
! at org.eclipse.jetty.server.Server.handle(Server.java:505)
! at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:370)
! at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:267)
! at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:305)
! at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:103)
! at org.eclipse.jetty.io.ChannelEndPoint$2.run(ChannelEndPoint.java:117)
! at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.runTask(EatWhatYouKill.java:333)
! at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:310)
! at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.tryProduce(EatWhatYouKill.java:168)
! at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:126)
! at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:366)
! at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:698)
! at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.run(QueuedThreadPool.java:804)
I also try your website version, got the same error.
Here are my pdf files. Hu_Relation_Networks_for_CVPR_2018_paper.pdf Shen_Neural_Style_Transfer_CVPR_2018_paper.pdf
Thank you for your help.
Issue Analytics
- State:
- Created 3 years ago
- Comments:5
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Thanks @xmlyqing00. I’m reopening this issue since we want to fix the problem in pdfalto 😉
Dear @xmlyqing00 thanks for reporting this problem and providing us with some useful error cases.
As @kermitt2 explained in #472 this problem must be addressed in the underlying pdfalto project, see issue: https://github.com/kermitt2/pdfalto/issues/68.
If you need to have the service working with these pdfs, I suggest you to merge the PR #475 into your grobid local git repository. That should fix the issue for the time being.