Now JIRA will not load - the following extract from the error from the stdout log seems most relevant:
2011-08-31 14:46:17,337 Finalizer WARN [core.entity.jdbc.SQLProcessor] Already closed.
2011-08-31 14:46:17,415 main INFO [atlassian.plugin.util.WaitUntil] Plugins that have yet to be enabled: [com.atlassian.gadgets.embedded, com.atlassian.gadgets.dashboard, com.atlassian.streams.streams-jira-plugin, com.atlassian.jira.gadgets, com.atlassian.jirafisheyeplugin, com.atlassian.gadgets.directory, com.atlassian.jira.rest, com.atlassian.gadgets.oauth.serviceprovider, com.atlassian.gadgets.opensocial], 57 seconds remaining
2011-08-31 14:46:18,525 main INFO [atlassian.plugin.util.WaitUntil] Plugins that have yet to be enabled: [com.atlassian.gadgets.directory], 56 seconds remaining
2011-08-31 14:46:20,728 main INFO [atlassian.plugin.loaders.ScanningPluginLoader] No plugins found to be deployed
2011-08-31 14:46:21,712 main FATAL [atlassian.jira.upgrade.ConsistencyLauncher] A fatal error occured during initialisation. JIRA has been locked.
com.atlassian.jira.InfrastructureException: Error occurred while starting Plugin Manager. Unable to esablish a connection with the database. (Network error IOException: Connection refused: connect)
Well, the log says it is aDB connectivity issue!
Unable to esablish a connection with the database. (Network error IOException: Connection refused: connect)
Did you check that?
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Resolved by disabling the service called "Apache Tomcat 6", which was what was starting the previous version of JIRA and preventing the new version from loading. This only became apparent after rebooting the server - Apache service started first every time.
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