Originally reported in https://issues.jenkins-ci.org/browse/JENKINS-20630, then moved here.

Linards L added a comment - 03/Dec/13 11:33 AM - edited
Still not fully functional. Reverted to v1.529.
After first upgrade from v1.529 - it booted. After I updated more than 10 plugins and restarted ( second time, no jobs were finished / launched ) jenkins with v1.542, it again died with Jetty issues / spam in logs.
My updated plugins:
Artifactory Plugin
This plugin allows deploying Maven 2, Maven 3, Ivy and Gradle artifacts and build info to the Artifactory artifacts manager.
2.2.1 (2.1.7)
Credentials Plugin
This plugin allows you to store credentials in Jenkins.
1.9.3 1.6
CVS Plugin
This bundled plugin integrates Jenkins with CVS version control system.
2.11 2.9
Disk Usage Plugin
This plugin records disk usage.
0.23 0.20
HTML Publisher Plugin
1.3 1.2
JIRA Plugin
This plugin integrates Atlassian JIRA to Jenkins.
Brīdinājums: Šis spraudnis ir paredzēts Jenkins 1.533 un jaunākai versijai. Tas var gan strādāt, gan nestrādāt ar Jūsu Jenkins instalāciju.
1.39 (1.36)
JobConfigHistory Plugin
Saves copies of all job and system configurations.
2.5 2.4
Maven Project Plugin
Jenkins plugin for building Maven 2/3 jobs via a special project type.
Brīdinājums: Šis spraudnis ir paredzēts Jenkins 1.532 un jaunākai versijai. Tas var gan strādāt, gan nestrādāt ar Jūsu Jenkins instalāciju.
2.0 1.529
Monitoring external jobs
Adds the ability to monitor the result of externally executed jobs.
1.2 1.1
Nested View Plugin
View type to allow grouping job views into multiple levels instead of one big list of tabs.
1.14 1.10
Parameterized Trigger Plugin
This plugin lets you trigger new builds when your build has completed, with various ways of specifying parameters for the new build.
2.21 2.20
SSH Credentials Plugin
This plugin allows you to store SSH credentials in Jenkins.
Brīdinājums: Jaunā versija nav savietojama ar esošo uzstādīto spraudņa versiju. Jobs, kuri izmanto šo spraudni, var būt par iemeslu šo Jobu pārkonfigurācijai.
1.6 0.3
SSH Slaves plugin
This plugin allows you to manage slaves running on *nix machines over SSH.
Brīdinājums: Jaunā versija nav savietojama ar esošo uzstādīto spraudņa versiju. Jobs, kuri izmanto šo spraudni, var būt par iemeslu šo Jobu pārkonfigurācijai.
1.5 0.25
Subversion Plugin
This plugin adds the Subversion support (via SVNKit) to Jenkins.
1.54 1.51
Warnings Plugin
This plugin generates the trend report for compiler warnings in the console log or in log files.
4.38 4.35

cforce added a comment - 12/Dec/13 12:41 PM
@Linards L Please post ur error logs. Did you test with Jenkins 1.543?

Linards L added a comment - 13/Dec/13 12:31 PM - edited
@cforce,
I will do it now, but it will not be valid test anymore because once I reverted to v1.529, I updated plugins. So it might work now, but it does not cover the issue I had earlier - crash after second reboot ( after plugins update ).
Test scenarion:
1. Up and running jenkins v1.529 with master and three slaves; All slaves offline;
2. Plugins - all updated ( from my last attempt ( see date of my previous comment here ));
3. Creating a slave ; installing as windows service ; starting it - up and running;
3.1 Updating java to 1.7u45 ;
3.2 Cannot launch slave-agent.jnlp because previously FAILED installation left old jars in slave directory. I had to delete them to make slave-agent.jlpn connectable, so I could install it as service.
4. Performing automatic upgrade with one job running and one in queue ; waiting till it finishes;
Resulting in error from console before returning
Finished: SUCCESS
in console:
ln builds\lastStableBuild c:\jenkins_master\jobs\trunk-build\lastStable failed
java.nio.file.DirectoryNotEmptyException: c:\jenkins_master\jobs\trunk-ExportDlls\lastStable
at sun.nio.fs.WindowsFileSystemProvider.implDelete(Unknown Source)
at sun.nio.fs.AbstractFileSystemProvider.deleteIfExists(Unknown Source)
at java.nio.file.Files.deleteIfExists(Unknown Source)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
at java.lang.reflect.Method.invoke(Unknown Source)
at hudson.Util.createSymlinkJava7(Util.java:1146)
at hudson.Util.createSymlink(Util.java:1070)
at hudson.model.AbstractBuild.createSymlink(AbstractBuild.java:494)
at hudson.model.AbstractBuild.access$700(AbstractBuild.java:105)
at hudson.model.AbstractBuild$AbstractBuildExecution.post(AbstractBuild.java:729)
at hudson.model.Run.execute(Run.java:1628)
at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:46)
at hudson.model.ResourceController.execute(ResourceController.java:88)
at hudson.model.Executor.run(Executor.java:247)
5. Rebooting jenkins;
6. Updating plugins, if available.
Plugins to be updated:
Credentials Plugin
This plugin allows you to store credentials in Jenkins.
1.9.4 1.9.3
LDAP Plugin
Security realm based on LDAP authentication.
1.7 1.6
Mailer
This plugin allows you to configure email notifications. This is a break-out of the original core based email component.
1.6 1.5
Throttle Concurrent Builds Plugin
This plugin allows for throttling the number of concurrent builds of a project running per node or globally.
1.8.1 1.8
7. Checking result...
[!] Error

hudson.util.HudsonFailedToLoad: org.jvnet.hudson.reactor.ReactorException: java.lang.NullPointerException
at hudson.WebAppMain$3.run(WebAppMain.java:234)
Caused by: org.jvnet.hudson.reactor.ReactorException: java.lang.NullPointerException
at org.jvnet.hudson.reactor.Reactor.execute(Reactor.java:269)
at jenkins.InitReactorRunner.run(InitReactorRunner.java:44)
at jenkins.model.Jenkins.executeReactor(Jenkins.java:908)
at jenkins.model.Jenkins.<init>(Jenkins.java:807)
at hudson.model.Hudson.<init>(Hudson.java:82)
at hudson.model.Hudson.<init>(Hudson.java:78)
at hudson.WebAppMain$3.run(WebAppMain.java:222)
Caused by: java.lang.NullPointerException
at java.io.Reader.<init>(Unknown Source)
at java.io.InputStreamReader.<init>(Unknown Source)
at org.codehaus.groovy.runtime.DefaultGroovyMethods.getText(DefaultGroovyMethods.java:16092)
at groovy.lang.GroovyShell$7.run(GroovyShell.java:714)
at groovy.lang.GroovyShell$7.run(GroovyShell.java:711)
at java.security.AccessController.doPrivileged(Native Method)
at groovy.lang.GroovyShell.parse(GroovyShell.java:711)
at groovy.lang.GroovyShell.parse(GroovyShell.java:790)
at hudson.util.spring.BeanBuilder.parse(BeanBuilder.java:133)
at hudson.security.SecurityRealm.createFilter(SecurityRealm.java:426)
at hudson.security.HudsonFilter.reset(HudsonFilter.java:140)
at jenkins.model.Jenkins.setSecurityRealm(Jenkins.java:2048)
at jenkins.model.Jenkins$20.run(Jenkins.java:2631)
at org.jvnet.hudson.reactor.TaskGraphBuilder$TaskImpl.run(TaskGraphBuilder.java:169)
at org.jvnet.hudson.reactor.Reactor.runTask(Reactor.java:282)
at jenkins.model.Jenkins$7.runTask(Jenkins.java:897)
at org.jvnet.hudson.reactor.Reactor$2.run(Reactor.java:210)
at org.jvnet.hudson.reactor.Reactor$Node.run(Reactor.java:117)
at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at java.lang.Thread.run(Unknown Source)
jenkins.err: http://pastie.org/8550005
I general, in each stage there was some small issues. This is definelty NOT fixed.

Linards L added a comment - 15/Dec/13 6:47 PM - edited
Repeated update process.
Now only updatable plugin was:
Parameterized Trigger Plugin
This plugin lets you trigger new builds when your build has completed, with various ways of specifying parameters for the new build.
2.22 2.21
Result is the same. First reboot is ok. Second - after updating plugin - total crash. Again back to v1.529.