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The webprotege code base
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Ontology download failed #775

Open zhibor opened 2 years ago

zhibor commented 2 years ago

Describe the bug Download project errors

To Reproduce Steps to reproduce the behavior:

  1. Go to the project list at https://webprotege.stanford.edu/#projects/list
  2. Click the menu button for the project of interest
  3. Select Download from the popup menu
  4. See the error below
WebProtege Initialization Error
An error occurred during the initialization of WebProtege which prevented WebProtege from starting.

Error Message
java.nio.file.NoSuchFileException: /srv/protege/webprotege-data/data-store/project-data/0b6dcf4c-0ed4-4b80-9955-3117cd6333a2/change-data/change-data.binary
    at java.base/sun.nio.fs.UnixException.translateToIOException(UnixException.java:92)
    at java.base/sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:111)
    at java.base/sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:116)
    at java.base/sun.nio.fs.UnixFileSystemProvider.newByteChannel(UnixFileSystemProvider.java:219)
    at java.base/java.nio.file.Files.newByteChannel(Files.java:371)
    at java.base/java.nio.file.Files.newByteChannel(Files.java:422)
    at java.base/java.nio.file.spi.FileSystemProvider.newInputStream(FileSystemProvider.java:420)
    at java.base/java.nio.file.Files.newInputStream(Files.java:156)
    at edu.stanford.bmir.protege.web.server.revision.HeadRevisionNumberFinder.getHeadRevisionNumber(HeadRevisionNumberFinder.java:50)
    at edu.stanford.bmir.protege.web.server.download.ProjectDownloadService.getHeadRevisionNumber(ProjectDownloadService.java:214)
    at edu.stanford.bmir.protege.web.server.download.ProjectDownloadService.downloadProject(ProjectDownloadService.java:84)
    at edu.stanford.bmir.protege.web.server.download.ProjectDownloadServlet.startProjectDownload(ProjectDownloadServlet.java:91)
    at edu.stanford.bmir.protege.web.server.download.ProjectDownloadServlet.doGet(ProjectDownloadServlet.java:81)
    at javax.servlet.http.HttpServlet.service(HttpServlet.java:624)
    at javax.servlet.http.HttpServlet.service(HttpServlet.java:731)
    at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:303)
    at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
    at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)
    at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)
    at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
    at edu.stanford.bmir.protege.web.server.filter.WebProtegeWebAppFilter.doFilter(WebProtegeWebAppFilter.java:75)
    at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)
    at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
    at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:218)
    at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:110)
    at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:498)
    at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:169)
    at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:103)
    at org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:962)
    at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:116)
    at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:445)
    at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1091)
    at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:637)
    at org.apache.tomcat.util.net.AprEndpoint$SocketProcessor.doRun(AprEndpoint.java:2549)
    at org.apache.tomcat.util.net.AprEndpoint$SocketProcessor.run(AprEndpoint.java:2538)
    at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128)
    at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628)
    at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61)
    at java.base/java.lang.Thread.run(Thread.java:829)

Expected behavior Expect to export/download an ontology

Desktop (please complete the following information):

Additional context None