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JTS Doesn't Start After Upgrade from 4.0.4 to 5.0.2


Bob 3 (1532068) | asked Aug 26 '15, 4:16 a.m.
I have a small Windows CLM 4.0.4 installation using Derby and Tomcat that I want to upgrade to CLM 6.0. The required intermediate step is to upgrade to 5.0.2 first. 

I installed CLM 5.0.2 as a new group on the same Windows machine, leaving my old CLM installation intact. I installed a fresh copy of Tomcat 7.0.54 prior to this upgrade. The installation and upgrade (I followed the steps in the interactive upgrade guide, including copying databases and running scripts) went smoothly. Tomcat starts up fine and the manager-gui shows all the WAR files for CLM have been deployed successfully. However, the JTS never successfully starts up when I use server.startup.bat. I've been troubleshooting for hours but can't figure it out. Any guidance or ideas would be most appreciated!

Here is my jts.log:
2015-08-26 02:52:07,277 [  Start Level Event Dispatcher]  INFO nternal.app.servlet.util.ServletDispatchingHandler  - CRJZS0315I Servlet Dispatching Enabled
2015-08-26 02:52:07,277 [  Start Level Event Dispatcher]  INFO nternal.app.servlet.util.ServletDispatchingHandler  - CRJZS0318I Servlet Loopback Disabled
2015-08-26 02:52:09,633 [Component Resolve Thread (Bundle 89)]  INFO nternal.OverridablePropertyFileServerConfiguration  - 
 To submit questions about issues, go to the Jazz.net forum at https://jazz.net/forum. 
 To find more information about a message, see the online product documentation.
2015-08-26 02:52:09,633 [Component Resolve Thread (Bundle 89)]  INFO nternal.OverridablePropertyFileServerConfiguration  - CRJAZ1363I Loading the configuration from "file:/C%3a/PROGRA~1/IBM/JAZZTE~2/server/conf/jts/teamserver.properties".

Here is my Tomcat log:
!SESSION 2015-08-26 02:52:16.840 -----------------------------------------------
eclipse.buildId=unknown
java.fullversion=JRE 1.6.0 IBM J9 2.4 Windows 7 amd64-64 jvmwa6460sr16-20140626_204542 (JIT enabled, AOT enabled)
J9VM - 20140626_204542
JIT  - r9_20130920_46510ifx7
GC   - GA24_Java6_SR16_20140626_1848_B204542_CMPRSS
BootLoader constants: OS=win32, ARCH=x86_64, WS=win32, NL=en_US

!ENTRY org.eclipse.osgi 4 0 2015-08-26 02:52:16.840
!MESSAGE Bundle javax.servlet.jsp@start not found.

!ENTRY org.eclipse.osgi 4 0 2015-08-26 02:52:16.840
!MESSAGE Bundle org.eclipse.equinox.weaving.caching.j9@start not found.

!ENTRY org.eclipse.osgi 4 0 2015-08-26 02:52:16.840
!MESSAGE Error starting bundle: initial@reference:file:plugins/org.eclipse.equinox.weaving.hook_1.0.200.I20130127-2000.jar/
!STACK 0
org.osgi.framework.BundleException: A fragment bundle cannot be started: org.eclipse.equinox.weaving.hook_1.0.200.I20130127-2000 [2]
at org.eclipse.osgi.framework.internal.core.BundleFragment.startWorker(BundleFragment.java:228)
at org.eclipse.osgi.framework.internal.core.AbstractBundle.start(AbstractBundle.java:284)
at org.eclipse.core.runtime.adaptor.EclipseStarter.startBundle(EclipseStarter.java:1133)
at org.eclipse.core.runtime.adaptor.EclipseStarter.startBundles(EclipseStarter.java:1126)
at org.eclipse.core.runtime.adaptor.EclipseStarter.loadBasicBundles(EclipseStarter.java:646)
at org.eclipse.core.runtime.adaptor.EclipseStarter.startup(EclipseStarter.java:301)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:60)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:37)
at java.lang.reflect.Method.invoke(Method.java:611)
at org.eclipse.equinox.servletbridge.FrameworkLauncher.start(FrameworkLauncher.java:387)
at org.eclipse.equinox.servletbridge.BridgeServlet.init(BridgeServlet.java:65)
at javax.servlet.GenericServlet.init(GenericServlet.java:158)
at com.ibm.team.repository.server.servletbridge.JazzServlet.init(JazzServlet.java:50)
at org.apache.catalina.core.StandardWrapper.initServlet(StandardWrapper.java:1284)
at org.apache.catalina.core.StandardWrapper.loadServlet(StandardWrapper.java:1197)
at org.apache.catalina.core.StandardWrapper.load(StandardWrapper.java:1087)
at org.apache.catalina.core.StandardContext.loadOnStartup(StandardContext.java:5210)
at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5493)
at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:150)
at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:901)
at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:877)
at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:632)
at org.apache.catalina.startup.HostConfig.deployWAR(HostConfig.java:1083)
at org.apache.catalina.startup.HostConfig$DeployWar.run(HostConfig.java:1880)
at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:450)
at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:314)
at java.util.concurrent.FutureTask.run(FutureTask.java:149)
at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:895)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:918)
at java.lang.Thread.run(Thread.java:761)

!ENTRY org.eclipse.osgi 4 0 2015-08-26 02:52:21.363
!MESSAGE Bundle org.eclipse.equinox.weaving.hook_1.0.200.I20130127-2000 [2] is not active.

Here is my rm.log:
2015-08-26 02:52:17,246 [  Start Level Event Dispatcher]  INFO nternal.app.servlet.util.ServletDispatchingHandler  - CRJZS0315I Servlet Dispatching Enabled
2015-08-26 02:52:17,246 [  Start Level Event Dispatcher]  INFO nternal.app.servlet.util.ServletDispatchingHandler  - CRJZS0318I Servlet Loopback Disabled
2015-08-26 02:52:20,832 [  Start Level Event Dispatcher]  INFO ing.server.core.repository.RepositoryAccessManager  - Rational DOORS Next Generation is starting. 
  Jazz Foundation - Core Libraries, Version 5.0.2 (RJF-I20141028-1603)
  Rational DOORS Next Generation, Version 5.0.2 (RDNG5.0.2-I20141028_1800)

2015-08-26 02:52:20,832 [  Start Level Event Dispatcher]  INFO ing.server.core.repository.RepositoryAccessManager  - CRRRS9938I  Repository state is: INITIALIZING
2015-08-26 02:52:20,879 [Component Resolve Thread (Bundle 68)]  INFO nternal.OverridablePropertyFileServerConfiguration  - 
 To submit questions about issues, go to the Jazz.net forum at https://jazz.net/forum. 
 To find more information about a message, see the online product documentation.
2015-08-26 02:52:20,879 [Component Resolve Thread (Bundle 68)]  INFO nternal.OverridablePropertyFileServerConfiguration  - CRJAZ1363I Loading the configuration from "file:/C%3a/PROGRA~1/IBM/JAZZTE~2/server/conf/rm/teamserver.properties".


Comments
Kunal Doddanavar commented Aug 26 '15, 6:27 a.m. | edited Aug 27 '15, 2:17 a.m.

 Hi Bob,

           Kindly check for any upgrade errors at the repotools_jts_upgrade/repotools_ccm_upgrade/etc/etc which are located at <5.0.2_install_dir/server/logs> directory for more info if the upgrade went fine or not.

- Kunal


Bob 3 commented Aug 26 '15, 1:12 p.m. | edited Aug 26 '15, 11:52 p.m.

Thanks for your response, Kunal. I couldn't locate any files with precisely the file names you mentioned, but here are some similarly-named logs.


Here is repotools-jts_addTables.log:
2015-08-25 23:18:27,532 Repo Tools
2015-08-25 23:18:27,532 java.version=1.6.0
2015-08-25 23:18:27,532 java.runtime.version=pwa6460sr16fp1-20140706_01 (SR16 FP1)
2015-08-25 23:18:27,548 Provisioning using "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\provision_profiles".
2015-08-25 23:18:27,563 repotools-jts -addTables noPrompt
2015-08-25 23:18:27,563   Jazz Foundation - Core Libraries, Version 5.0.2 (RJF-I20141028-1603)

2015-08-25 23:18:27,579 
 To submit questions about issues, go to the Jazz.net forum at https://jazz.net/forum. 
 To find more information about a message, see the online product documentation.
2015-08-25 23:18:27,594 CRJAZ1363I Loading the configuration from "file:conf/jts/teamserver.properties".
2015-08-25 23:18:27,860 CRJAZ1779I This server is configured as a JTS.
2015-08-25 23:18:28,920 CRJAZ2558I Setting the local server rename state to false and the openServerDescriptionServiceTemporarily state to false.
2015-08-25 23:18:31,073 CRJAZ1365I The server is attempting to connect to the following database: "conf/jts/derby/repositoryDB"
2015-08-25 23:18:31,526 CRJAZ1364I The connection to the following database was successful:
 Db Product Name: Apache Derby
  Db Product Version: 10.10.2.0 - (1582446)
  Jdbc Driver Name: Apache Derby Embedded JDBC Driver
  Jdbc Driver Version: 10.10.2.0 - (1582446)
2015-08-25 23:18:31,728 CRJAZ1971I The server is configured with: 
  Public URI: "https://<privacy>:9443/jts"
2015-08-25 23:18:32,898 CRJAZ2523I Setting the global server rename state to false and the validation state to false.
2015-08-25 23:18:34,287 CRJAZ2105I Checking for a running server...
2015-08-25 23:18:35,457 Removing project move component...
2015-08-25 23:18:35,457 Removed project move component in 0 ms.
2015-08-25 23:18:35,457 Adding tables to the database "conf/jts/derby/repositoryDB". 
2015-08-25 23:18:35,675 CRJAZ1442I The component model of "com.ibm.team.repository" was updated from "32" to "35".
2015-08-25 23:18:36,564 CRJAZ1442I The component model of "com.ibm.team.jfs.resource" was updated from "3" to "8".
2015-08-25 23:18:36,596 CRJAZ1438I A new attribute "changeId" was added to class "com.ibm.team.jfs.resource.internal.Resource".
2015-08-25 23:18:36,642 CRJAZ1440I A new type "Configuration" was added.
2015-08-25 23:18:36,642 CRJAZ1440I A new type "Version" was added.
2015-08-25 23:18:36,658 CRJAZ1442I The component model of "com.ibm.team.links" was updated from "5" to "6".
2015-08-25 23:18:36,674 CRJAZ1438I A new attribute "archived" was added to class "com.ibm.team.links.internal.links.AuditableLink".
2015-08-25 23:18:36,689 CRJAZ1442I The component model of "com.ibm.team.markers" was updated from "1.1" to "2.0".
2015-08-25 23:18:36,876 CRJAZ1441I A new component model for "com.ibm.team.vvc" was added.
2015-08-25 23:18:46,829 CRJAZ2692I No new type handlers found for the current model versions.
2015-08-25 23:18:46,829 The user "ADMIN" has logged in to the database "conf/jts/derby/repositoryDB".
2015-08-25 23:18:46,923 Running post addTables for "com.ibm.team.repository"...
2015-08-25 23:18:46,954 Post addTables for com.ibm.team.repository took 31 ms.

2015-08-25 23:18:46,954 Running post addTables for "com.ibm.team.repository.auth"...
2015-08-25 23:18:46,954 Post addTables for com.ibm.team.repository.auth took 0 ms.

2015-08-25 23:18:46,954 Running post addTables for "com.ibm.team.process"...
2015-08-25 23:18:47,094 Post addTables for com.ibm.team.process took 140 ms.

2015-08-25 23:18:47,094 Running post addTables for "com.ibm.team.jfs.resource"...
2015-08-25 23:18:47,094 Post addTables for com.ibm.team.jfs.resource took 0 ms.

2015-08-25 23:18:47,094 Running post addTables for "com.ibm.team.links"...
2015-08-25 23:18:47,094 Post addTables for com.ibm.team.links took 0 ms.

2015-08-25 23:18:47,094 Running post addTables for "com.ibm.team.markers"...
2015-08-25 23:18:47,110 Post addTables for com.ibm.team.markers took 16 ms.

2015-08-25 23:18:47,110 Running post addTables for "com.ibm.team.reports"...
2015-08-25 23:18:47,157 Post addTables for com.ibm.team.reports took 47 ms.

2015-08-25 23:18:47,157 Running post addTables for "com.ibm.team.repository.friends"...
2015-08-25 23:18:47,157 Post addTables for com.ibm.team.repository.friends took 0 ms.

2015-08-25 23:18:47,157 Running post addTables for "com.ibm.team.jfs.indexes"...
2015-08-25 23:18:47,157 CRJZS5650I Indices directory is C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices
2015-08-25 23:18:47,172 CRJZS6122I The indexes in C:\PROGRA~1\IBM\JAZZTE~2\server\conf\jts\indices must be updated to correct a version mismatch. The update will occur automatically.
2015-08-25 23:18:47,172 CRJZS6120I The server is collecting data to update the indexes in C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices.
2015-08-25 23:18:47,297 CRJZS6121I The indexes in C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices are being updated.
2015-08-25 23:18:49,029 CRJZS6119I The indexes in C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices were updated in 1857 ms. The update is complete.
2015-08-25 23:18:49,044 Post addTables for com.ibm.team.jfs.indexes took 1887 ms.

2015-08-25 23:18:49,044 Running post addTables for "Full Text Migration Handler"...
2015-08-25 23:18:49,044 Post addTables for Full Text Migration Handler took 0 ms.

2015-08-25 23:18:49,044 Running post addTables for "com.ibm.team.jfs.indexes"...
2015-08-25 23:18:49,044 Post addTables for com.ibm.team.jfs.indexes took 0 ms.

2015-08-25 23:18:49,044 Running post addTables for "Full Text Migration Handler"...
2015-08-25 23:18:49,044 Post addTables for Full Text Migration Handler took 0 ms.

2015-08-25 23:18:56,004 The user "ADMIN" has logged out of the database "conf/jts/derby/repositoryDB".
2015-08-25 23:18:56,004 Database tables were added successfully.

repotools-jts_finalizeApplicationMigration.log:
2015-08-25 23:18:27,532 Repo Tools
2015-08-25 23:18:27,532 java.version=1.6.0
2015-08-25 23:18:27,532 java.runtime.version=pwa6460sr16fp1-20140706_01 (SR16 FP1)
2015-08-25 23:18:27,548 Provisioning using "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\provision_profiles".
2015-08-25 23:18:27,563 repotools-jts -addTables noPrompt
2015-08-25 23:18:27,563   Jazz Foundation - Core Libraries, Version 5.0.2 (RJF-I20141028-1603)

2015-08-25 23:18:27,579 
 To submit questions about issues, go to the Jazz.net forum at https://jazz.net/forum. 
 To find more information about a message, see the online product documentation.
2015-08-25 23:18:27,594 CRJAZ1363I Loading the configuration from "file:conf/jts/teamserver.properties".
2015-08-25 23:18:27,860 CRJAZ1779I This server is configured as a JTS.
2015-08-25 23:18:28,920 CRJAZ2558I Setting the local server rename state to false and the openServerDescriptionServiceTemporarily state to false.
2015-08-25 23:18:31,073 CRJAZ1365I The server is attempting to connect to the following database: "conf/jts/derby/repositoryDB"
2015-08-25 23:18:31,526 CRJAZ1364I The connection to the following database was successful:
 Db Product Name: Apache Derby
  Db Product Version: 10.10.2.0 - (1582446)
  Jdbc Driver Name: Apache Derby Embedded JDBC Driver
  Jdbc Driver Version: 10.10.2.0 - (1582446)
2015-08-25 23:18:31,728 CRJAZ1971I The server is configured with: 
  Public URI: "https://<privacy>:9443/jts"
2015-08-25 23:18:32,898 CRJAZ2523I Setting the global server rename state to false and the validation state to false.
2015-08-25 23:18:34,287 CRJAZ2105I Checking for a running server...
2015-08-25 23:18:35,457 Removing project move component...
2015-08-25 23:18:35,457 Removed project move component in 0 ms.
2015-08-25 23:18:35,457 Adding tables to the database "conf/jts/derby/repositoryDB". 
2015-08-25 23:18:35,675 CRJAZ1442I The component model of "com.ibm.team.repository" was updated from "32" to "35".
2015-08-25 23:18:36,564 CRJAZ1442I The component model of "com.ibm.team.jfs.resource" was updated from "3" to "8".
2015-08-25 23:18:36,596 CRJAZ1438I A new attribute "changeId" was added to class "com.ibm.team.jfs.resource.internal.Resource".
2015-08-25 23:18:36,642 CRJAZ1440I A new type "Configuration" was added.
2015-08-25 23:18:36,642 CRJAZ1440I A new type "Version" was added.
2015-08-25 23:18:36,658 CRJAZ1442I The component model of "com.ibm.team.links" was updated from "5" to "6".
2015-08-25 23:18:36,674 CRJAZ1438I A new attribute "archived" was added to class "com.ibm.team.links.internal.links.AuditableLink".
2015-08-25 23:18:36,689 CRJAZ1442I The component model of "com.ibm.team.markers" was updated from "1.1" to "2.0".
2015-08-25 23:18:36,876 CRJAZ1441I A new component model for "com.ibm.team.vvc" was added.
2015-08-25 23:18:46,829 CRJAZ2692I No new type handlers found for the current model versions.
2015-08-25 23:18:46,829 The user "ADMIN" has logged in to the database "conf/jts/derby/repositoryDB".
2015-08-25 23:18:46,923 Running post addTables for "com.ibm.team.repository"...
2015-08-25 23:18:46,954 Post addTables for com.ibm.team.repository took 31 ms.

2015-08-25 23:18:46,954 Running post addTables for "com.ibm.team.repository.auth"...
2015-08-25 23:18:46,954 Post addTables for com.ibm.team.repository.auth took 0 ms.

2015-08-25 23:18:46,954 Running post addTables for "com.ibm.team.process"...
2015-08-25 23:18:47,094 Post addTables for com.ibm.team.process took 140 ms.

2015-08-25 23:18:47,094 Running post addTables for "com.ibm.team.jfs.resource"...
2015-08-25 23:18:47,094 Post addTables for com.ibm.team.jfs.resource took 0 ms.

2015-08-25 23:18:47,094 Running post addTables for "com.ibm.team.links"...
2015-08-25 23:18:47,094 Post addTables for com.ibm.team.links took 0 ms.

2015-08-25 23:18:47,094 Running post addTables for "com.ibm.team.markers"...
2015-08-25 23:18:47,110 Post addTables for com.ibm.team.markers took 16 ms.

2015-08-25 23:18:47,110 Running post addTables for "com.ibm.team.reports"...
2015-08-25 23:18:47,157 Post addTables for com.ibm.team.reports took 47 ms.

2015-08-25 23:18:47,157 Running post addTables for "com.ibm.team.repository.friends"...
2015-08-25 23:18:47,157 Post addTables for com.ibm.team.repository.friends took 0 ms.

2015-08-25 23:18:47,157 Running post addTables for "com.ibm.team.jfs.indexes"...
2015-08-25 23:18:47,157 CRJZS5650I Indices directory is C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices
2015-08-25 23:18:47,172 CRJZS6122I The indexes in C:\PROGRA~1\IBM\JAZZTE~2\server\conf\jts\indices must be updated to correct a version mismatch. The update will occur automatically.
2015-08-25 23:18:47,172 CRJZS6120I The server is collecting data to update the indexes in C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices.
2015-08-25 23:18:47,297 CRJZS6121I The indexes in C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices are being updated.
2015-08-25 23:18:49,029 CRJZS6119I The indexes in C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices were updated in 1857 ms. The update is complete.
2015-08-25 23:18:49,044 Post addTables for com.ibm.team.jfs.indexes took 1887 ms.

2015-08-25 23:18:49,044 Running post addTables for "Full Text Migration Handler"...
2015-08-25 23:18:49,044 Post addTables for Full Text Migration Handler took 0 ms.

2015-08-25 23:18:49,044 Running post addTables for "com.ibm.team.jfs.indexes"...
2015-08-25 23:18:49,044 Post addTables for com.ibm.team.jfs.indexes took 0 ms.

2015-08-25 23:18:49,044 Running post addTables for "Full Text Migration Handler"...
2015-08-25 23:18:49,044 Post addTables for Full Text Migration Handler took 0 ms.

2015-08-25 23:18:56,004 The user "ADMIN" has logged out of the database "conf/jts/derby/repositoryDB".
2015-08-25 23:18:56,004 Database tables were added successfully.

repotools-jts_mergeLPAJTS.log:
2015-08-25 23:19:32,651 Repo Tools
2015-08-25 23:19:32,651 java.version=1.6.0
2015-08-25 23:19:32,651 java.runtime.version=pwa6460sr16fp1-20140706_01 (SR16 FP1)
2015-08-25 23:19:32,651 Provisioning using "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\provision_profiles".
2015-08-25 23:19:32,667 repotools-jts -mergeLPAJTS jtsContextRoot=jts lpaContextRoot=admin oldJTSHome=C:\Program Files\IBM\JazzTeamServer\server\conf oldJTSVersion=4.0.4
2015-08-25 23:19:32,682   Jazz Foundation - Core Libraries, Version 5.0.2 (RJF-I20141028-1603)

2015-08-25 23:19:32,713 
 To submit questions about issues, go to the Jazz.net forum at https://jazz.net/forum. 
 To find more information about a message, see the online product documentation.
2015-08-25 23:19:32,713 CRJAZ1363I Loading the configuration from "file:conf/jts/teamserver.properties".
2015-08-25 23:19:32,916 CRJAZ1779I This server is configured as a JTS.
2015-08-25 23:19:33,540 CRJAZ2558I Setting the local server rename state to false and the openServerDescriptionServiceTemporarily state to false.
2015-08-25 23:19:35,568 CRJAZ1365I The server is attempting to connect to the following database: "conf/jts/derby/repositoryDB"
2015-08-25 23:19:36,052 CRJAZ1364I The connection to the following database was successful:
 Db Product Name: Apache Derby
  Db Product Version: 10.10.2.0 - (1582446)
  Jdbc Driver Name: Apache Derby Embedded JDBC Driver
  Jdbc Driver Version: 10.10.2.0 - (1582446)
2015-08-25 23:19:36,239 CRJAZ1971I The server is configured with: 
  Public URI: "https://<privacy>:9443/jts"
2015-08-25 23:19:37,378 CRJAZ2523I Setting the global server rename state to false and the validation state to false.
2015-08-25 23:19:41,231 CRJAZ2105I Checking for a running server...
2015-08-25 23:19:42,278 The user "ADMIN" has logged in to the database "conf/jts/derby/repositoryDB".
2015-08-25 23:19:42,528 CRJZS5650I Indices directory is C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\indices
2015-08-25 23:19:42,543 CRJZS5800I  Private applications are using a transactional RDF index
2015-08-25 23:19:43,479 CRJZS5658I RDF indexer for private applications has started
2015-08-25 23:19:44,322 CRJZS5656I Text indexer for private applications has started
2015-08-25 23:19:44,322 CRJZS5654I Finished processing 5 resources for the "triple live" index of private applications in 843 ms
2015-08-25 23:19:44,868 CRJZS5654I Finished processing 5 resources for the "text live" index of private applications in 546 ms
2015-08-25 23:19:44,868 CRJZS5579I Reindexing : Deleting "text live" indices for private applications ...
2015-08-25 23:19:44,977 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8
2015-08-25 23:19:45,102 CRJZS5579I Reindexing : Deleting "triple live" indices for private applications ...
2015-08-25 23:19:45,351 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8.configs
2015-08-25 23:19:45,383 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8.index
2015-08-25 23:19:45,398 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8.projects
2015-08-25 23:19:45,429 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8.templates
2015-08-25 23:19:45,445 CRJZS5801I The application /rm is using a transactional RDF index
2015-08-25 23:19:45,445 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8
2015-08-25 23:19:45,695 CRJZS5586I Reindexing : Finished processing "text live" indices for private applications in 827 ms 
2015-08-25 23:19:45,819 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8.configs
2015-08-25 23:19:45,897 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8.index
2015-08-25 23:19:45,960 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8.projects
2015-08-25 23:19:46,038 CRJZS5111I Reindexing storage area storage/com.ibm.team.lpa.47b6f70f-1988-42ef-a968-211794c058a8.templates
2015-08-25 23:19:46,194 CRJZS5586I Reindexing : Finished processing "triple live" indices for private applications in 1092 ms 
2015-08-25 23:19:47,348 Backing up the JTS teamserver properties "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver.properties" to "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver-1440562787348backup.properties"...
2015-08-25 23:19:47,348 Backup file "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver-1440562787348backup.properties" created. 
2015-08-25 23:19:47,348 
2015-08-25 23:19:47,348 
2015-08-25 23:19:47,348 The LPA is migrated successfully.
2015-08-25 23:19:47,348 The user "ADMIN" has logged out of the database "conf/jts/derby/repositoryDB".
2015-08-25 23:19:47,894 CRJZS5652I Indexing services are being shut down ...
2015-08-25 23:19:48,347 CRJZS5651I Indexing services finished shutting down in 453 ms

repotools-jts_migration_jts_upgradeConfigurationFiles.log:
2015-08-25 23:17:32,646 Repo Tools
2015-08-25 23:17:32,662 java.version=1.6.0
2015-08-25 23:17:32,662 java.runtime.version=pwa6460sr16fp1-20140706_01 (SR16 FP1)
2015-08-25 23:17:32,662 Provisioning using "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\provision_profiles".
2015-08-25 23:17:32,677 repotools-jts -migration_jts_updateConfigurationFiles jtsContextRoot=jts lpaContextRoot=admin newJTSHome=C:\Program Files\IBM\JazzTeamServer_5\server\conf newTomcatHome=C:\Program Files\Tomcat 7054 oldJTSHome=C:\Program Files\IBM\JazzTeamServer\server\conf oldJTSVersion=4.0.4 updateTomcatFiles=yes
2015-08-25 23:17:32,693   Jazz Foundation - Core Libraries, Version 5.0.2 (RJF-I20141028-1603)

2015-08-25 23:17:32,740 
 To submit questions about issues, go to the Jazz.net forum at https://jazz.net/forum. 
 To find more information about a message, see the online product documentation.
2015-08-25 23:17:32,740 CRJAZ1363I Loading the configuration from "bundleresource://172.fwk766979511:1/teamserver.properties".
2015-08-25 23:17:32,755 Validating JTS configuration files...
2015-08-25 23:17:32,755 CRJAZ2132I The old JTS version is "4.0.4".
2015-08-25 23:17:37,357 CRJAZ2624I The new JTS version is "5.0.2".
2015-08-25 23:17:37,373 Validating Tomcat configuration files...
2015-08-25 23:17:37,373 
2015-08-25 23:17:37,373 Merging JTS configuration files...
2015-08-25 23:17:37,373 Backing up the JTS teamserver properties "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver.properties" to "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver-1440562657373backup.properties"...
2015-08-25 23:17:37,389 Backup file "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver-1440562657373backup.properties" created. 
2015-08-25 23:17:37,389 
2015-08-25 23:17:37,389 Updating properties file "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver.properties" using the properties defined in "C:\Program Files\IBM\JazzTeamServer\server\conf\jts\teamserver.properties".
2015-08-25 23:17:37,389   - Adding property "com.ibm.team.repository.user.registry.type".
2015-08-25 23:17:37,389   - Adding property "com.ibm.team.repository.db.jdbc.password".
2015-08-25 23:17:37,389   - Adding property "com.ibm.team.repository.notification.mail.from_name".
2015-08-25 23:17:37,389   - Adding property "com.ibm.team.repository.server.webapp.url".
2015-08-25 23:17:37,389   - Adding property "com.ibm.team.repository.db.repoLockId".
2015-08-25 23:17:37,389   - Adding property "com.ibm.team.repository.ws.allow.admin.access".
2015-08-25 23:17:37,389   - Adding property "com.ibm.team.repository.licenseService.floatingLicenseServerURI".
2015-08-25 23:17:37,389   - Adding property "com.ibm.team.datawarehouse.db.jdbc.password".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.repository.notification.mail.from".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.repository.db.type".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.datawarehouse.datawarehouse.provider".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.repository.notification.mail.smtp.server".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.datawarehouse.auth.userId".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.repository.notification.mail.reply".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.datawarehouse.auth.type".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.datawarehouse.auth.password".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.repository.notification.mail.enabled".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.datawarehouse.db.type".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.repository.setup.completed.setup".
2015-08-25 23:17:37,404   - Adding property "com.ibm.team.repository.setup.completed.setup".
2015-08-25 23:17:37,420 Updated JTS teamserver.properties file "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver.properties".
2015-08-25 23:17:37,420 
2015-08-25 23:17:37,420 Backing up the Tomcat users xml file "C:\Program Files\Tomcat 7054/conf/tomcat-users.xml" to "C:\Program Files\Tomcat 7054/conf/tomcat-users-1440562657420backup.xml"...
2015-08-25 23:17:37,420 Backup Tomcat users xml file "C:\Program Files\Tomcat 7054/conf/tomcat-users-1440562657420backup.xml" created.
2015-08-25 23:17:37,420 
2015-08-25 23:17:37,420 Copying Tomcat users xml file "C:\Program Files\IBM\JazzTeamServer\server/tomcat/conf/tomcat-users.xml"...
2015-08-25 23:17:37,420 The Tomcat users xml file was copied successfully. The copied file is present at "C:\Program Files\Tomcat 7054/conf/tomcat-users.xml".
2015-08-25 23:17:37,420 
2015-08-25 23:17:37,420 Backing up Tomcat server xml file "C:\Program Files\Tomcat 7054/conf/server.xml"...
2015-08-25 23:17:37,420 Backup Tomcat server xml file "C:\Program Files\Tomcat 7054/conf/server-1440562657420backup.xml" created.
2015-08-25 23:17:37,420 
2015-08-25 23:17:37,420 Copying Tomcat server xml file "C:\Program Files\IBM\JazzTeamServer\server/tomcat/conf/server.xml"...
2015-08-25 23:17:37,435 The Tomcat server xml file was copied successfully. The copied file is present at "C:\Program Files\Tomcat 7054/conf/server.xml".
2015-08-25 23:17:37,435 
2015-08-25 23:17:37,435 Updating Tomcat server xml file "C:\Program Files\Tomcat 7054/conf/server.xml"...
2015-08-25 23:17:37,467 Updated Tomcat server xml file "C:\Program Files\Tomcat 7054/conf/server.xml".
2015-08-25 23:17:37,467 
2015-08-25 23:17:37,498 Backing up web.xml file "C:\Program Files\Tomcat 7054/webapps/jts/WEB-INF/web.xml"...
2015-08-25 23:17:37,513 Backup web.xml file "C:\Program Files\Tomcat 7054/webapps/jts/WEB-INF/web-1440562657513backup.xml" created.
2015-08-25 23:17:37,513 
2015-08-25 23:17:37,513 Updating web.xml file "C:\Program Files\Tomcat 7054/webapps/jts/WEB-INF/web.xml"...
2015-08-25 23:17:37,513 Updated web.xml file "C:\Program Files\Tomcat 7054/webapps/jts/WEB-INF/web.xml".
2015-08-25 23:17:37,513 
2015-08-25 23:17:37,513 Backing up application war file "C:\Program Files\Tomcat 7054/webapps/jts.war"...
2015-08-25 23:17:37,545 Backup application war file "C:\Program Files\Tomcat 7054/webapps/jts.war.1440562657513backup" created.
2015-08-25 23:17:37,545 
2015-08-25 23:17:37,545 Updating war file "C:\Program Files\Tomcat 7054/webapps/jts.war"...
2015-08-25 23:17:37,950 Updated war file "C:\Program Files\Tomcat 7054/webapps/jts.war".
2015-08-25 23:17:37,950 
2015-08-25 23:17:37,950 Copying properties file "C:\Program Files\IBM\JazzTeamServer\server\conf\jts\log4j.properties" to "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\log4j.properties.old".
2015-08-25 23:17:37,950 Finished copying properties file "C:\Program Files\IBM\JazzTeamServer\server\conf\jts\log4j.properties" to "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\log4j.properties.old".
2015-08-25 23:17:37,950 CRJAZ2637I The old log4j.properties file is located at "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\log4j.properties.old" and was not merged into the new log4j.properties file located at "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\log4j.properties". If your old log4j.properties contains any customized properties or values, manually merge them into your new log4j.properties file.
2015-08-25 23:17:37,966 
2015-08-25 23:17:37,966 The configuration files are merged successfully.

repotools-jts_upgradeWarehouse.log:
2015-08-25 23:19:11,277 Repo Tools
2015-08-25 23:19:11,293 java.version=1.6.0
2015-08-25 23:19:11,293 java.runtime.version=pwa6460sr16fp1-20140706_01 (SR16 FP1)
2015-08-25 23:19:11,293 Provisioning using "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\provision_profiles".
2015-08-25 23:19:11,308 repotools-jts -upgradeWarehouse noPrompt teamserver.properties=C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\teamserver.properties
2015-08-25 23:19:11,308   Jazz Foundation - Core Libraries, Version 5.0.2 (RJF-I20141028-1603)

2015-08-25 23:19:11,339 
 To submit questions about issues, go to the Jazz.net forum at https://jazz.net/forum. 
 To find more information about a message, see the online product documentation.
2015-08-25 23:19:11,339 CRJAZ1363I Loading the configuration from "file:C:/Program Files/IBM/JazzTeamServer_5/server/conf/jts/teamserver.properties".
2015-08-25 23:19:11,480 CRJAZ1779I This server is configured as a JTS.
2015-08-25 23:19:12,119 CRJAZ2558I Setting the local server rename state to false and the openServerDescriptionServiceTemporarily state to false.
2015-08-25 23:19:14,194 CRJAZ1365I The server is attempting to connect to the following database: "conf/jts/derby/repositoryDB"
2015-08-25 23:19:14,615 CRJAZ1364I The connection to the following database was successful:
 Db Product Name: Apache Derby
  Db Product Version: 10.10.2.0 - (1582446)
  Jdbc Driver Name: Apache Derby Embedded JDBC Driver
  Jdbc Driver Version: 10.10.2.0 - (1582446)
2015-08-25 23:19:14,803 CRJAZ1971I The server is configured with: 
  Public URI: "https://<privacy>:9443/jts"
2015-08-25 23:19:17,470 CRJAZ2523I Setting the global server rename state to false and the validation state to false.
2015-08-25 23:19:19,826 CRJAZ2105I Checking for a running server...
2015-08-25 23:19:20,871 CRJAZ1365I The server is attempting to connect to the following database: "conf/jts/derby/warehouseDB"
2015-08-25 23:19:21,776 CRJAZ1364I The connection to the following database was successful:
 Db Product Name: Apache Derby
  Db Product Version: 10.10.2.0 - (1582446)
  Jdbc Driver Name: Apache Derby Embedded JDBC Driver
  Jdbc Driver Version: 10.10.2.0 - (1582446)
2015-08-25 23:19:21,791 CRRTC8039I The connection to the following data warehouse database was successful:
 DB Product Name: Apache Derby
  DB Product Version: 10.10.2.0 - (1582446)
  DB URL: conf/jts/derby/warehouseDB
  JDBC Driver Name: Apache Derby Embedded JDBC Driver
  JDBC Driver Version: 10.10.2.0 - (1582446)
2015-08-25 23:19:21,807 The data warehouse was upgraded successfully.

repotools-jts_version.log:
2015-08-25 23:38:38,707 Repo Tools
2015-08-25 23:38:38,707 java.version=1.6.0
2015-08-25 23:38:38,707 java.runtime.version=pwa6460sr16fp1-20140706_01 (SR16 FP1)
2015-08-25 23:38:38,707 Provisioning using "C:\Program Files\IBM\JazzTeamServer_5\server\conf\jts\provision_profiles".
2015-08-25 23:38:38,739 repotools-jts -version 
2015-08-25 23:38:38,739   Jazz Foundation - Core Libraries, Version 5.0.2 (RJF-I20141028-1603)

2015-08-25 23:38:38,754 
 To submit questions about issues, go to the Jazz.net forum at https://jazz.net/forum. 
 To find more information about a message, see the online product documentation.
2015-08-25 23:38:38,754 CRJAZ1363I Loading the configuration from "file:conf/jts/teamserver.properties".
2015-08-25 23:38:38,754 5.0.2

Accepted answer


permanent link
Donald Nong (14.5k614) | answered Aug 26 '15, 11:57 p.m.
According to jts.log and rm.log, both JTS and RM started up OK. The problem is that you can't access to either of them, and probably JTS and RM cannot communicate with each other either.
I guess the problem is that you installed a copy of Tomcat _prior_ to the upgrade. Usually you should upgrade with the bundled copy of Tomcat, verify the installation and then upgrade Tomcat.
http://www-01.ibm.com/support/docview.wss?uid=swg21687641
Bob 3 selected this answer as the correct answer

Comments
Bob 3 commented Aug 27 '15, 4:39 a.m.

Thank you Donald! I assumed I could run an independently installed and configured Tomcat instance and then integrate the JTS into it. Instead, it works quite smoothly if the admin uses the bundled instance of Tomcat that gets installed with CLM. 

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