{"action":"opened","issue":{"url":"https://api.github.com/repos/compomics/peptide-shaker/issues/189","repository_url":"https://api.github.com/repos/compomics/peptide-shaker","labels_url":"https://api.github.com/repos/compomics/peptide-shaker/issues/189/labels{/name}","comments_url":"https://api.github.com/repos/compomics/peptide-shaker/issues/189/comments","events_url":"https://api.github.com/repos/compomics/peptide-shaker/issues/189/events","html_url":"https://github.com/compomics/peptide-shaker/issues/189","id":163872608,"number":189,"title":"Can't reopen PeptideShaker projects","user":{"login":"pjvolders","id":2227853,"avatar_url":"https://avatars.githubusercontent.com/u/2227853?v=3","gravatar_id":"","url":"https://api.github.com/users/pjvolders","html_url":"https://github.com/pjvolders","followers_url":"https://api.github.com/users/pjvolders/followers","following_url":"https://api.github.com/users/pjvolders/following{/other_user}","gists_url":"https://api.github.com/users/pjvolders/gists{/gist_id}","starred_url":"https://api.github.com/users/pjvolders/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/pjvolders/subscriptions","organizations_url":"https://api.github.com/users/pjvolders/orgs","repos_url":"https://api.github.com/users/pjvolders/repos","events_url":"https://api.github.com/users/pjvolders/events{/privacy}","received_events_url":"https://api.github.com/users/pjvolders/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2016-07-05T15:02:05Z","updated_at":"2016-07-05T15:02:05Z","closed_at":null,"body":"Hi,\r\n\r\nI'm having some trouble with PeptideShaker on Ubuntu 14.04.4. Everything works fine when the project is processed and opened the first time (processing from SearchGUI), but when I save the project and try to reopen it in PeptideShaker I get the following error: \"It looks like another instance of PeptideShaker is still connected to the file. Please close all instances of PeptideShaker and try again.\". I tried copying the file and exporting in cpsx and zip format. I have provided the cpsx and PeptideShaker log file below.\r\n\r\nCheers,\r\nPJ\r\n\r\nhttps://www.dropbox.com/s/xu3cirm08z1ad8n/Spectral%20Searching%202.cpsx?dl=0\r\n\r\nTue Jul 05 10:51:47 CEST 2016: PeptideShaker version 1.12.1.\r\nMemory given to the Java virtual machine: 3817865216.\r\nTotal amount of memory in the Java virtual machine: 163053568.\r\nFree memory: 126803552.\r\nJava version: 1.8.0_91.\r\n1714 script command tokens\r\n(C) 2009 Jmol Development\r\nJmol Version: 12.0.43  2011-05-03 14:21\r\njava.vendor: Oracle Corporation\r\njava.version: 1.8.0_91\r\nos.name: Linux\r\nmemory: 54.6/163.1\r\nprocessors available: 16\r\nuseCommandThread: false\r\njava.sql.SQLSyntaxErrorException: Table/View 'PEPTIDESHAKER_EXPERIMENT_SETTINGS' does not exist.\r\n\tat org.apache.derby.impl.jdbc.SQLExceptionFactory40.getSQLException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.Util.generateCsSQLException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.TransactionResourceImpl.wrapInSQLException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.TransactionResourceImpl.handleException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.EmbedConnection.handleException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.ConnectionChild.handleException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.EmbedStatement.execute(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.EmbedStatement.executeQuery(Unknown Source)\r\n\tat com.compomics.util.db.ObjectsDB.retrieveObjectSynchronized(ObjectsDB.java:801)\r\n\tat com.compomics.util.db.ObjectsDB.retrieveObject(ObjectsDB.java:750)\r\n\tat eu.isas.peptideshaker.fileimport.CpsFileImporter.getPeptideShakerSettings(CpsFileImporter.java:78)\r\n\tat eu.isas.peptideshaker.utils.CpsParent.loadCpsFile(CpsParent.java:245)\r\n\tat eu.isas.peptideshaker.gui.PeptideShakerGUI$104.run(PeptideShakerGUI.java:5461)\r\nCaused by: java.sql.SQLException: Table/View 'PEPTIDESHAKER_EXPERIMENT_SETTINGS' does not exist.\r\n\tat org.apache.derby.impl.jdbc.SQLExceptionFactory.getSQLException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.SQLExceptionFactory40.wrapArgsForTransportAcrossDRDA(Unknown Source)\r\n\t... 13 more\r\nCaused by: ERROR 42X05: Table/View 'PEPTIDESHAKER_EXPERIMENT_SETTINGS' does not exist.\r\n\tat org.apache.derby.iapi.error.StandardException.newException(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.FromBaseTable.bindTableDescriptor(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.FromBaseTable.bindNonVTITables(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.FromList.bindTables(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.SelectNode.bindNonVTITables(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.DMLStatementNode.bindTables(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.DMLStatementNode.bind(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.CursorNode.bindStatement(Unknown Source)\r\n\tat org.apache.derby.impl.sql.GenericStatement.prepMinion(Unknown Source)\r\n\tat org.apache.derby.impl.sql.GenericStatement.prepare(Unknown Source)\r\n\tat org.apache.derby.impl.sql.conn.GenericLanguageConnectionContext.prepareInternalStatement(Unknown Source)\r\n\t... 7 more\r\njava.sql.SQLSyntaxErrorException: Table/View 'PEPTIDESHAKER_EXPERIMENT_SETTINGS' does not exist.\r\n\tat org.apache.derby.impl.jdbc.SQLExceptionFactory40.getSQLException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.Util.generateCsSQLException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.TransactionResourceImpl.wrapInSQLException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.TransactionResourceImpl.handleException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.EmbedConnection.handleException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.ConnectionChild.handleException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.EmbedStatement.execute(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.EmbedStatement.executeQuery(Unknown Source)\r\n\tat com.compomics.util.db.ObjectsDB.retrieveObjectSynchronized(ObjectsDB.java:801)\r\n\tat com.compomics.util.db.ObjectsDB.retrieveObject(ObjectsDB.java:750)\r\n\tat eu.isas.peptideshaker.fileimport.CpsFileImporter.getPeptideShakerSettings(CpsFileImporter.java:78)\r\n\tat eu.isas.peptideshaker.utils.CpsParent.loadCpsFile(CpsParent.java:245)\r\n\tat eu.isas.peptideshaker.gui.PeptideShakerGUI$104.run(PeptideShakerGUI.java:5461)\r\nCaused by: java.sql.SQLException: Table/View 'PEPTIDESHAKER_EXPERIMENT_SETTINGS' does not exist.\r\n\tat org.apache.derby.impl.jdbc.SQLExceptionFactory.getSQLException(Unknown Source)\r\n\tat org.apache.derby.impl.jdbc.SQLExceptionFactory40.wrapArgsForTransportAcrossDRDA(Unknown Source)\r\n\t... 13 more\r\nCaused by: ERROR 42X05: Table/View 'PEPTIDESHAKER_EXPERIMENT_SETTINGS' does not exist.\r\n\tat org.apache.derby.iapi.error.StandardException.newException(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.FromBaseTable.bindTableDescriptor(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.FromBaseTable.bindNonVTITables(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.FromList.bindTables(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.SelectNode.bindNonVTITables(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.DMLStatementNode.bindTables(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.DMLStatementNode.bind(Unknown Source)\r\n\tat org.apache.derby.impl.sql.compile.CursorNode.bindStatement(Unknown Source)\r\n\tat org.apache.derby.impl.sql.GenericStatement.prepMinion(Unknown Source)\r\n\tat org.apache.derby.impl.sql.GenericStatement.prepare(Unknown Source)\r\n\tat org.apache.derby.impl.sql.conn.GenericLanguageConnectionContext.prepareInternalStatement(Unknown Source)\r\n\t... 7 more\r\n"}}
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