Hi Vagisha,
I really appreciate the quick response, thank you. I have not yet made the data public but here is the full error if it helps?
500: Unexpected server error
[SQLITE_NOTADB] File opened that is not a database file (file is encrypted or is not a database)
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java.sql.SQLException: [SQLITE_NOTADB] File opened that is not a database file (file is encrypted or is not a database)
at org.sqlite.DB.newSQLException(DB.java:383)
at org.sqlite.DB.newSQLException(DB.java:387)
at org.sqlite.DB.throwex(DB.java:374)
at org.sqlite.NativeDB.prepare(Native Method)
at org.sqlite.DB.prepare(DB.java:123)
at org.sqlite.Stmt.executeQuery(Stmt.java:121)
at org.labkey.targetedms.parser.blib.BlibSpectrumReader.hasRetentionTimesTable(BlibSpectrumReader.java:286)
at org.labkey.targetedms.parser.blib.BlibSpectrumReader.hasValidRtTable(BlibSpectrumReader.java:298)
at org.labkey.targetedms.parser.blib.BlibSpectrumReader.readSpectrum(BlibSpectrumReader.java:211)
at org.labkey.targetedms.parser.blib.BlibSpectrumReader.getSpectrum(BlibSpectrumReader.java:90)
at org.labkey.targetedms.view.spectrum.LibrarySpectrumMatchGetter.getMatch(LibrarySpectrumMatchGetter.java:162)
at org.labkey.targetedms.view.spectrum.LibrarySpectrumMatchGetter.getMatches(LibrarySpectrumMatchGetter.java:143)
at org.labkey.targetedms.TargetedMSController.addSpectrumViews(TargetedMSController.java:2080)
at org.labkey.targetedms.TargetedMSController$PrecursorAllChromatogramsChartAction.getView(TargetedMSController.java:1265)
at org.labkey.targetedms.TargetedMSController$PrecursorAllChromatogramsChartAction.getView(TargetedMSController.java:1192)
at org.labkey.api.action.SimpleViewAction.handleRequest(SimpleViewAction.java:77)
at org.labkey.api.action.BaseViewAction.handleRequest(BaseViewAction.java:176)
at org.labkey.api.action.SpringActionController.handleRequest(SpringActionController.java:487)
at org.labkey.api.module.DefaultModule.dispatch(DefaultModule.java:1265)
at org.labkey.api.view.ViewServlet._service(ViewServlet.java:204)
at org.labkey.api.view.ViewServlet.service(ViewServlet.java:131)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:742)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
at org.labkey.api.data.TransactionFilter.doFilter(TransactionFilter.java:38)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
at org.labkey.api.module.ModuleLoader.doFilter(ModuleLoader.java:1220)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
at org.labkey.api.security.AuthFilter.doFilter(AuthFilter.java:215)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
at org.labkey.core.filters.SetCharacterEncodingFilter.doFilter(SetCharacterEncodingFilter.java:118)
at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:199)
at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:96)
at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:493)
at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:137)
at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:81)
at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:660)
at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87)
at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343)
at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:798)
at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66)
at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:806)
at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1498)
at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49)
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:835)
request attributes
LABKEY.OriginalURL = http://localhost:8080/targetedms/U Victoria - Genome BC Proteomics Centre/MRM assay development in DBS/precursorAllChromatogramsChart.view?id=8996259
LABKEY.StartTime = 1562276765194
LABKEY.action = precursorAllChromatogramsChart
org.springframework.web.servlet.DispatcherServlet.CONTEXT = TargetedMS WebApplicationContext: startup date [Fri Apr 26 14:37:58 PDT 2019]; parent: Root WebApplicationContext
LABKEY.controller = targetedms
LABKEY.Counter = 0
org.labkey.api.util.ExceptionUtil$exception = java.sql.SQLException: [SQLITE_NOTADB] File opened that is not a database file (file is encrypted or is not a database)
X-LABKEY-CSRF = 2eb3b4295aa65c83b0fd99082bc98467
LABKEY.container = /U Victoria - Genome BC Proteomics Centre/MRM assay development in DBS
LABKEY.RequestURL = /targetedms/U%20Victoria%20-%20Genome%20BC%20Proteomics%20Centre/MRM%20assay%20development%20in%20DBS/precursorAllChromatogramsChart.view?id=8996259
LABKEY.OriginalURLHelper = /targetedms/U%20Victoria%20-%20Genome%20BC%20Proteomics%20Centre/MRM%20assay%20development%20in%20DBS/precursorAllChromatogramsChart.view?id=8996259
core schema database configuration
Server URL jdbc:postgresql://localhost/labkey
Product Name PostgreSQL
Product Version 10.7
Driver Name PostgreSQL JDBC Driver
Driver Version 42.2.5