Thu Oct 21 12:07:13 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 1037959168. Total amount of memory in the Java virtual machine: 129761280. Free memory: 102131528. Java version: 1.8.0_231. jshortcut.dll loaded via tmp generated pathname: C:\Users\Jai\AppData\Local\Temp\jshortcut-1383459766966532497.dll 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 1.8.0_231 os.name: Windows 10 memory: 27.7/129.9 processors available: 16 useCommandThread: false Sat Oct 23 13:44:38 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 4219469824. Total amount of memory in the Java virtual machine: 134217728. Free memory: 121171368. Java version: 17.0.1. Sat Oct 23 14:55:29 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 4219469824. Total amount of memory in the Java virtual machine: 134217728. Free memory: 83126536. Java version: 17.0.1. 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 17.0.1 os.name: Windows 10 memory: 44.2/134.2 processors available: 16 useCommandThread: false Sat Oct 23 14:58:30 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 4219469824. Total amount of memory in the Java virtual machine: 134217728. Free memory: 83215880. Java version: 17.0.1. Sat Oct 23 14:58:31 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 4219469824. Total amount of memory in the Java virtual machine: 134217728. Free memory: 83175912. Java version: 17.0.1. 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 17.0.1 os.name: Windows 10 memory: 45.9/134.2 processors available: 16 useCommandThread: false 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 17.0.1 os.name: Windows 10 memory: 46.5/134.2 processors available: 16 useCommandThread: false Exception in thread "main" java.lang.ExceptionInInitializerError at java.base/javax.crypto.Cipher.getInstance(Cipher.java:546) at java.base/sun.security.ssl.SSLCipher.isTransformationAvailable(SSLCipher.java:511) at java.base/sun.security.ssl.SSLCipher.(SSLCipher.java:500) at java.base/sun.security.ssl.SSLCipher.(SSLCipher.java:82) at java.base/sun.security.ssl.CipherSuite.(CipherSuite.java:69) at java.base/sun.security.ssl.SSLContextImpl.getApplicableSupportedCipherSuites(SSLContextImpl.java:343) at java.base/sun.security.ssl.SSLContextImpl$AbstractTLSContext.(SSLContextImpl.java:556) at java.base/java.lang.Class.forName0(Native Method) at java.base/java.lang.Class.forName(Class.java:375) at java.base/java.security.Provider$Service.getImplClass(Provider.java:1933) at java.base/java.security.Provider$Service.getDefaultConstructor(Provider.java:1964) at java.base/java.security.Provider$Service.newInstanceOf(Provider.java:1878) at java.base/java.security.Provider$Service.newInstanceUtil(Provider.java:1886) at java.base/java.security.Provider$Service.newInstance(Provider.java:1861) at java.base/sun.security.jca.GetInstance.getInstance(GetInstance.java:236) at java.base/sun.security.jca.GetInstance.getInstance(GetInstance.java:164) at java.base/javax.net.ssl.SSLContext.getInstance(SSLContext.java:185) at java.base/javax.net.ssl.SSLContext.getDefault(SSLContext.java:110) at java.base/javax.net.ssl.SSLSocketFactory.getDefault(SSLSocketFactory.java:83) at java.base/javax.net.ssl.HttpsURLConnection.getDefaultSSLSocketFactory(HttpsURLConnection.java:336) at java.base/javax.net.ssl.HttpsURLConnection.(HttpsURLConnection.java:292) at java.base/sun.net.www.protocol.https.HttpsURLConnectionImpl.(HttpsURLConnectionImpl.java:81) at java.base/sun.net.www.protocol.https.Handler.openConnection(Handler.java:62) at java.base/sun.net.www.protocol.https.Handler.openConnection(Handler.java:57) at java.base/java.net.URL.openConnection(URL.java:1094) at com.compomics.util.Util.sendGAUpdate(Util.java:115) at eu.isas.peptideshaker.gui.WelcomeDialog.(WelcomeDialog.java:83) at eu.isas.peptideshaker.gui.PeptideShakerGUI.(PeptideShakerGUI.java:761) at eu.isas.peptideshaker.gui.PeptideShakerGUI.main(PeptideShakerGUI.java:538) Caused by: java.lang.SecurityException: Can not initialize cryptographic mechanism at java.base/javax.crypto.JceSecurity.(JceSecurity.java:119) ... 29 more Caused by: java.lang.SecurityException: Can't read cryptographic policy directory: unlimited at java.base/javax.crypto.JceSecurity.setupJurisdictionPolicies(JceSecurity.java:333) at java.base/javax.crypto.JceSecurity$1.run(JceSecurity.java:110) at java.base/javax.crypto.JceSecurity$1.run(JceSecurity.java:107) at java.base/java.security.AccessController.doPrivileged(AccessController.java:569) at java.base/javax.crypto.JceSecurity.(JceSecurity.java:106) ... 29 more Exception in thread "main" java.lang.ExceptionInInitializerError at java.base/javax.crypto.Cipher.getInstance(Cipher.java:546) at java.base/sun.security.ssl.SSLCipher.isTransformationAvailable(SSLCipher.java:511) at java.base/sun.security.ssl.SSLCipher.(SSLCipher.java:500) at java.base/sun.security.ssl.SSLCipher.(SSLCipher.java:82) at java.base/sun.security.ssl.CipherSuite.(CipherSuite.java:69) at java.base/sun.security.ssl.SSLContextImpl.getApplicableSupportedCipherSuites(SSLContextImpl.java:343) at java.base/sun.security.ssl.SSLContextImpl$AbstractTLSContext.(SSLContextImpl.java:556) at java.base/java.lang.Class.forName0(Native Method) at java.base/java.lang.Class.forName(Class.java:375) at java.base/java.security.Provider$Service.getImplClass(Provider.java:1933) at java.base/java.security.Provider$Service.getDefaultConstructor(Provider.java:1964) at java.base/java.security.Provider$Service.newInstanceOf(Provider.java:1878) at java.base/java.security.Provider$Service.newInstanceUtil(Provider.java:1886) at java.base/java.security.Provider$Service.newInstance(Provider.java:1861) at java.base/sun.security.jca.GetInstance.getInstance(GetInstance.java:236) at java.base/sun.security.jca.GetInstance.getInstance(GetInstance.java:164) at java.base/javax.net.ssl.SSLContext.getInstance(SSLContext.java:185) at java.base/javax.net.ssl.SSLContext.getDefault(SSLContext.java:110) at java.base/javax.net.ssl.SSLSocketFactory.getDefault(SSLSocketFactory.java:83) at java.base/javax.net.ssl.HttpsURLConnection.getDefaultSSLSocketFactory(HttpsURLConnection.java:336) at java.base/javax.net.ssl.HttpsURLConnection.(HttpsURLConnection.java:292) at java.base/sun.net.www.protocol.https.HttpsURLConnectionImpl.(HttpsURLConnectionImpl.java:81) at java.base/sun.net.www.protocol.https.Handler.openConnection(Handler.java:62) at java.base/sun.net.www.protocol.https.Handler.openConnection(Handler.java:57) at java.base/java.net.URL.openConnection(URL.java:1094) at com.compomics.util.Util.sendGAUpdate(Util.java:115) at eu.isas.peptideshaker.gui.WelcomeDialog.(WelcomeDialog.java:83) at eu.isas.peptideshaker.gui.PeptideShakerGUI.(PeptideShakerGUI.java:761) at eu.isas.peptideshaker.gui.PeptideShakerGUI.main(PeptideShakerGUI.java:538) Caused by: java.lang.SecurityException: Can not initialize cryptographic mechanism at java.base/javax.crypto.JceSecurity.(JceSecurity.java:119) ... 29 more Caused by: java.lang.SecurityException: Can't read cryptographic policy directory: unlimited at java.base/javax.crypto.JceSecurity.setupJurisdictionPolicies(JceSecurity.java:333) at java.base/javax.crypto.JceSecurity$1.run(JceSecurity.java:110) at java.base/javax.crypto.JceSecurity$1.run(JceSecurity.java:107) at java.base/java.security.AccessController.doPrivileged(AccessController.java:569) at java.base/javax.crypto.JceSecurity.(JceSecurity.java:106) ... 29 more Sat Oct 23 15:22:13 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 4219469824. Total amount of memory in the Java virtual machine: 134217728. Free memory: 83531144. Java version: 17.0.1. 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 17.0.1 os.name: Windows 10 memory: 45.9/134.2 processors available: 16 useCommandThread: false Exception in thread "main" java.lang.ExceptionInInitializerError at java.base/javax.crypto.Cipher.getInstance(Cipher.java:546) at java.base/sun.security.ssl.SSLCipher.isTransformationAvailable(SSLCipher.java:511) at java.base/sun.security.ssl.SSLCipher.(SSLCipher.java:500) at java.base/sun.security.ssl.SSLCipher.(SSLCipher.java:82) at java.base/sun.security.ssl.CipherSuite.(CipherSuite.java:69) at java.base/sun.security.ssl.SSLContextImpl.getApplicableSupportedCipherSuites(SSLContextImpl.java:343) at java.base/sun.security.ssl.SSLContextImpl$AbstractTLSContext.(SSLContextImpl.java:556) at java.base/java.lang.Class.forName0(Native Method) at java.base/java.lang.Class.forName(Class.java:375) at java.base/java.security.Provider$Service.getImplClass(Provider.java:1933) at java.base/java.security.Provider$Service.getDefaultConstructor(Provider.java:1964) at java.base/java.security.Provider$Service.newInstanceOf(Provider.java:1878) at java.base/java.security.Provider$Service.newInstanceUtil(Provider.java:1886) at java.base/java.security.Provider$Service.newInstance(Provider.java:1861) at java.base/sun.security.jca.GetInstance.getInstance(GetInstance.java:236) at java.base/sun.security.jca.GetInstance.getInstance(GetInstance.java:164) at java.base/javax.net.ssl.SSLContext.getInstance(SSLContext.java:185) at java.base/javax.net.ssl.SSLContext.getDefault(SSLContext.java:110) at java.base/javax.net.ssl.SSLSocketFactory.getDefault(SSLSocketFactory.java:83) at java.base/javax.net.ssl.HttpsURLConnection.getDefaultSSLSocketFactory(HttpsURLConnection.java:336) at java.base/javax.net.ssl.HttpsURLConnection.(HttpsURLConnection.java:292) at java.base/sun.net.www.protocol.https.HttpsURLConnectionImpl.(HttpsURLConnectionImpl.java:81) at java.base/sun.net.www.protocol.https.Handler.openConnection(Handler.java:62) at java.base/sun.net.www.protocol.https.Handler.openConnection(Handler.java:57) at java.base/java.net.URL.openConnection(URL.java:1094) at com.compomics.util.Util.sendGAUpdate(Util.java:115) at eu.isas.peptideshaker.gui.WelcomeDialog.(WelcomeDialog.java:83) at eu.isas.peptideshaker.gui.PeptideShakerGUI.(PeptideShakerGUI.java:761) at eu.isas.peptideshaker.gui.PeptideShakerGUI.main(PeptideShakerGUI.java:538) Caused by: java.lang.SecurityException: Can not initialize cryptographic mechanism at java.base/javax.crypto.JceSecurity.(JceSecurity.java:119) ... 29 more Caused by: java.lang.SecurityException: Can't read cryptographic policy directory: unlimited at java.base/javax.crypto.JceSecurity.setupJurisdictionPolicies(JceSecurity.java:333) at java.base/javax.crypto.JceSecurity$1.run(JceSecurity.java:110) at java.base/javax.crypto.JceSecurity$1.run(JceSecurity.java:107) at java.base/java.security.AccessController.doPrivileged(AccessController.java:569) at java.base/javax.crypto.JceSecurity.(JceSecurity.java:106) ... 29 more Sat Oct 23 15:22:57 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 4219469824. Total amount of memory in the Java virtual machine: 134217728. Free memory: 81744592. Java version: 17.0.1. 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 17.0.1 os.name: Windows 10 memory: 46.7/134.2 processors available: 16 useCommandThread: false Exception in thread "main" java.lang.ExceptionInInitializerError at java.base/javax.crypto.Cipher.getInstance(Cipher.java:546) at java.base/sun.security.ssl.SSLCipher.isTransformationAvailable(SSLCipher.java:511) at java.base/sun.security.ssl.SSLCipher.(SSLCipher.java:500) at java.base/sun.security.ssl.SSLCipher.(SSLCipher.java:82) at java.base/sun.security.ssl.CipherSuite.(CipherSuite.java:69) at java.base/sun.security.ssl.SSLContextImpl.getApplicableSupportedCipherSuites(SSLContextImpl.java:343) at java.base/sun.security.ssl.SSLContextImpl$AbstractTLSContext.(SSLContextImpl.java:556) at java.base/java.lang.Class.forName0(Native Method) at java.base/java.lang.Class.forName(Class.java:375) at java.base/java.security.Provider$Service.getImplClass(Provider.java:1933) at java.base/java.security.Provider$Service.getDefaultConstructor(Provider.java:1964) at java.base/java.security.Provider$Service.newInstanceOf(Provider.java:1878) at java.base/java.security.Provider$Service.newInstanceUtil(Provider.java:1886) at java.base/java.security.Provider$Service.newInstance(Provider.java:1861) at java.base/sun.security.jca.GetInstance.getInstance(GetInstance.java:236) at java.base/sun.security.jca.GetInstance.getInstance(GetInstance.java:164) at java.base/javax.net.ssl.SSLContext.getInstance(SSLContext.java:185) at java.base/javax.net.ssl.SSLContext.getDefault(SSLContext.java:110) at java.base/javax.net.ssl.SSLSocketFactory.getDefault(SSLSocketFactory.java:83) at java.base/javax.net.ssl.HttpsURLConnection.getDefaultSSLSocketFactory(HttpsURLConnection.java:336) at java.base/javax.net.ssl.HttpsURLConnection.(HttpsURLConnection.java:292) at java.base/sun.net.www.protocol.https.HttpsURLConnectionImpl.(HttpsURLConnectionImpl.java:81) at java.base/sun.net.www.protocol.https.Handler.openConnection(Handler.java:62) at java.base/sun.net.www.protocol.https.Handler.openConnection(Handler.java:57) at java.base/java.net.URL.openConnection(URL.java:1094) at com.compomics.util.Util.sendGAUpdate(Util.java:115) at eu.isas.peptideshaker.gui.WelcomeDialog.(WelcomeDialog.java:83) at eu.isas.peptideshaker.gui.PeptideShakerGUI.(PeptideShakerGUI.java:761) at eu.isas.peptideshaker.gui.PeptideShakerGUI.main(PeptideShakerGUI.java:538) Caused by: java.lang.SecurityException: Can not initialize cryptographic mechanism at java.base/javax.crypto.JceSecurity.(JceSecurity.java:119) ... 29 more Caused by: java.lang.SecurityException: Can't read cryptographic policy directory: unlimited at java.base/javax.crypto.JceSecurity.setupJurisdictionPolicies(JceSecurity.java:333) at java.base/javax.crypto.JceSecurity$1.run(JceSecurity.java:110) at java.base/javax.crypto.JceSecurity$1.run(JceSecurity.java:107) at java.base/java.security.AccessController.doPrivileged(AccessController.java:569) at java.base/javax.crypto.JceSecurity.(JceSecurity.java:106) ... 29 more Sat Oct 23 17:02:53 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 3750756352. Total amount of memory in the Java virtual machine: 163053568. Free memory: 114474824. Java version: 1.8.0_311. 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 1.8.0_311 os.name: Windows 10 memory: 59.8/163.1 processors available: 16 useCommandThread: false PeptideShaker processing failed. See the PeptideShaker log for details. java.io.FileNotFoundException: C:\Users\Jai\Desktop\uniprot-bovine.fmi\uniprot-bovine_concatenated_target_decoy.fmi (The system cannot find the path specified) at java.io.FileOutputStream.open0(Native Method) at java.io.FileOutputStream.open(Unknown Source) at java.io.FileOutputStream.(Unknown Source) at java.io.FileOutputStream.(Unknown Source) at com.compomics.util.experiment.identification.protein_inference.fm_index.FMIndex.init(FMIndex.java:1346) at com.compomics.util.experiment.identification.protein_inference.fm_index.FMIndex.(FMIndex.java:581) at eu.isas.peptideshaker.fileimport.FileImporter.importSequences(FileImporter.java:957) at eu.isas.peptideshaker.fileimport.FileImporter.importFiles(FileImporter.java:219) at eu.isas.peptideshaker.PeptideShaker.importFiles(PeptideShaker.java:219) at eu.isas.peptideshaker.gui.NewDialog$20.run(NewDialog.java:736) at java.lang.Thread.run(Unknown Source) Free memory: 1575106520 Sat Oct 23 18:35:32 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 3750756352. Total amount of memory in the Java virtual machine: 128974848. Free memory: 115808464. Java version: 1.8.0_311. Sat Oct 23 21:14:39 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 3750756352. Total amount of memory in the Java virtual machine: 128974848. Free memory: 113593784. Java version: 1.8.0_311. 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 1.8.0_311 os.name: Windows 10 memory: 61.6/163.1 processors available: 16 useCommandThread: false PeptideShaker processing failed. See the PeptideShaker log for details. java.io.FileNotFoundException: C:\Users\Jai\Desktop\uniprot-bovine.fmi\uniprot-bovine_concatenated_target_decoy.fmi (The system cannot find the path specified) at java.io.FileOutputStream.open0(Native Method) at java.io.FileOutputStream.open(Unknown Source) at java.io.FileOutputStream.(Unknown Source) at java.io.FileOutputStream.(Unknown Source) at com.compomics.util.experiment.identification.protein_inference.fm_index.FMIndex.init(FMIndex.java:1346) at com.compomics.util.experiment.identification.protein_inference.fm_index.FMIndex.(FMIndex.java:581) at eu.isas.peptideshaker.fileimport.FileImporter.importSequences(FileImporter.java:957) at eu.isas.peptideshaker.fileimport.FileImporter.importFiles(FileImporter.java:219) at eu.isas.peptideshaker.PeptideShaker.importFiles(PeptideShaker.java:219) at eu.isas.peptideshaker.gui.NewDialog$20.run(NewDialog.java:736) at java.lang.Thread.run(Unknown Source) Free memory: 1117629680 PeptideShaker processing failed. See the PeptideShaker log for details. java.io.FileNotFoundException: C:\Users\Jai\Desktop\uniprot-bovine.fmi\uniprot-bovine_concatenated_target_decoy.fmi (The system cannot find the path specified) at java.io.FileOutputStream.open0(Native Method) at java.io.FileOutputStream.open(Unknown Source) at java.io.FileOutputStream.(Unknown Source) at java.io.FileOutputStream.(Unknown Source) at com.compomics.util.experiment.identification.protein_inference.fm_index.FMIndex.init(FMIndex.java:1346) at com.compomics.util.experiment.identification.protein_inference.fm_index.FMIndex.(FMIndex.java:581) at eu.isas.peptideshaker.fileimport.FileImporter.importSequences(FileImporter.java:957) at eu.isas.peptideshaker.fileimport.FileImporter.importFiles(FileImporter.java:219) at eu.isas.peptideshaker.PeptideShaker.importFiles(PeptideShaker.java:219) at eu.isas.peptideshaker.gui.NewDialog$20.run(NewDialog.java:736) at java.lang.Thread.run(Unknown Source) Free memory: 1383302080 Sun Oct 24 00:19:45 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 3750756352. Total amount of memory in the Java virtual machine: 128974848. Free memory: 115800672. Java version: 1.8.0_311. Sun Oct 24 12:03:56 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 3750756352. Total amount of memory in the Java virtual machine: 128974848. Free memory: 112545928. Java version: 1.8.0_311. javax.xml.stream.XMLStreamException: ParseError at [row,col]:[1,50] Message: White spaces are required between publicId and systemId. at com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(Unknown Source) at com.sun.xml.internal.stream.XMLEventReaderImpl.nextEvent(Unknown Source) at com.compomics.software.autoupdater.MetaDataXMLParser.(MetaDataXMLParser.java:31) at com.compomics.software.autoupdater.WebDAO.getLatestVersionNumberFromRemoteRepo(WebDAO.java:37) at com.compomics.software.autoupdater.WebDAO.newVersionReleased(WebDAO.java:105) at com.compomics.software.CompomicsWrapper.checkForNewDeployedVersion(CompomicsWrapper.java:522) at eu.isas.peptideshaker.gui.PeptideShakerGUI.checkForNewVersion(PeptideShakerGUI.java:8479) at eu.isas.peptideshaker.gui.PeptideShakerGUI.(PeptideShakerGUI.java:627) at eu.isas.peptideshaker.gui.PeptideShakerGUI.main(PeptideShakerGUI.java:538) 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 1.8.0_311 os.name: Windows 10 memory: 59.5/163.1 processors available: 16 useCommandThread: false Sun Oct 24 12:07:56 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 3750756352. Total amount of memory in the Java virtual machine: 163053568. Free memory: 144754760. Java version: 1.8.0_311. javax.xml.stream.XMLStreamException: ParseError at [row,col]:[1,50] Message: White spaces are required between publicId and systemId. at com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(Unknown Source) at com.sun.xml.internal.stream.XMLEventReaderImpl.nextEvent(Unknown Source) at com.compomics.software.autoupdater.MetaDataXMLParser.(MetaDataXMLParser.java:31) at com.compomics.software.autoupdater.WebDAO.getLatestVersionNumberFromRemoteRepo(WebDAO.java:37) at com.compomics.software.autoupdater.WebDAO.newVersionReleased(WebDAO.java:105) at com.compomics.software.CompomicsWrapper.checkForNewDeployedVersion(CompomicsWrapper.java:522) at eu.isas.peptideshaker.gui.PeptideShakerGUI.checkForNewVersion(PeptideShakerGUI.java:8479) at eu.isas.peptideshaker.gui.PeptideShakerGUI.(PeptideShakerGUI.java:627) at eu.isas.peptideshaker.gui.PeptideShakerGUI.main(PeptideShakerGUI.java:538) 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 1.8.0_311 os.name: Windows 10 memory: 64.5/163.1 processors available: 16 useCommandThread: false Sun Oct 24 12:08:30 IST 2021: PeptideShaker version 2.2.0. Memory given to the Java virtual machine: 3750756352. Total amount of memory in the Java virtual machine: 163053568. Free memory: 144445464. Java version: 1.8.0_311. javax.xml.stream.XMLStreamException: ParseError at [row,col]:[1,50] Message: White spaces are required between publicId and systemId. at com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(Unknown Source) at com.sun.xml.internal.stream.XMLEventReaderImpl.nextEvent(Unknown Source) at com.compomics.software.autoupdater.MetaDataXMLParser.(MetaDataXMLParser.java:31) at com.compomics.software.autoupdater.WebDAO.getLatestVersionNumberFromRemoteRepo(WebDAO.java:37) at com.compomics.software.autoupdater.WebDAO.newVersionReleased(WebDAO.java:105) at com.compomics.software.CompomicsWrapper.checkForNewDeployedVersion(CompomicsWrapper.java:522) at eu.isas.peptideshaker.gui.PeptideShakerGUI.checkForNewVersion(PeptideShakerGUI.java:8479) at eu.isas.peptideshaker.gui.PeptideShakerGUI.(PeptideShakerGUI.java:627) at eu.isas.peptideshaker.gui.PeptideShakerGUI.main(PeptideShakerGUI.java:538) 1714 script command tokens (C) 2009 Jmol Development Jmol Version: 12.0.43 2011-05-03 14:21 java.vendor: Oracle Corporation java.version: 1.8.0_311 os.name: Windows 10 memory: 63.2/163.1 processors available: 16 useCommandThread: false