dhis2-users team mailing list archive

[Daniel Bridges <dbridges@xxxxxxxxxxxxxxxxx>]

Thanks for the explanations Lars. Will check data integrity when I get 
the server up and running. If the 404 error isn't related then guess my 
tomcat server isn't running properly?

Guess I am doing something stupid, but can't see what it is. When I run 
the startup script and look at the logs in catalina.out I get the following:

Mar 27, 2013 1:12:23 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 601 ms
Mar 27, 2013 1:12:23 PM org.apache.catalina.core.StandardService 
startInternal
INFO: Starting service Catalina
Mar 27, 2013 1:12:23 PM org.apache.catalina.core.StandardEngine 
startInternal
INFO: Starting Servlet Engine: Apache Tomcat/7.0.26
Mar 27, 2013 1:12:23 PM org.apache.catalina.startup.HostConfig deployWAR
INFO: Deploying web application archive /home/dhis/tomcat/webapps/ROOT.war
Mar 27, 2013 1:12:24 PM org.apache.catalina.loader.WebappClassLoader 
validateJarFile
INFO: 
validateJarFile(/home/dhis/tomcat/webapps/ROOT/WEB-INF/lib/geronimo-servlet_2.5_spec-1.1.2.jar) 
- jar not loaded. See Servlet Spec 2.3, section 9.7.2. Offending class: 
javax/servlet/Servlet.class
* INFO  2013-03-27 13:12:30,869 System property dhis2.home not set 
(DefaultLocationManager.java [pool-2-thread-1])
* INFO  2013-03-27 13:12:30,873 Environment variable DHIS2_HOME points 
to /home/dhis/dhis_home (DefaultLocationManager.java [pool-2-thread-1])
* INFO  2013-03-27 13:12:49,219 Found the following message senders: 
[org.hisp.dhis.message.EmailMessageSender@cccda4] 
(DefaultMessageService.java [pool-2-thread-1])
* INFO  2013-03-27 13:12:54,797 Scheduled task with key: 0 0 0 ? * 1-6 
and cron: 0 0 0 ? * 1-6 (SpringScheduler.java [pool-2-thread-1])
* INFO  2013-03-27 13:12:54,801 Scheduled task with key: 0 0 0 ? * 0 and 
cron: 0 0 0 ? * 0 (SpringScheduler.java [pool-2-thread-1])
* INFO  2013-03-27 13:12:57,979 Camel context started 
(DHIS2LifecycleStrategy.java [pool-2-thread-1])
* INFO  2013-03-27 13:12:57,980 Searching for routes in directory: 
/home/dhis/dhis_home/routes (DHIS2LifecycleStrategy.java [pool-2-thread-1])
* INFO  2013-03-27 13:12:58,499 Executing startup routine [1 of 10, 
runlevel 1]: TableAlteror (DefaultStartupRoutineExecutor.java 
[pool-2-thread-1])
* INFO  2013-03-27 13:13:00,944 Tables updated (TableAlteror.java 
[pool-2-thread-1])
* INFO  2013-03-27 13:13:00,945 Executing startup routine [2 of 10, 
runlevel 1]: MapViewUpgrader (DefaultStartupRoutineExecutor.java 
[pool-2-thread-1])
* INFO  2013-03-27 13:13:01,038 Executing startup routine [3 of 10, 
runlevel 2]: IdentityPopulator (DefaultStartupRoutineExecutor.java 
[pool-2-thread-1])
* INFO  2013-03-27 13:13:01,297 Executing startup routine [4 of 10, 
runlevel 2]: PeriodTypePopulator (DefaultStartupRoutineExecutor.java 
[pool-2-thread-1])
* INFO  2013-03-27 13:13:01,306 Executing startup routine [5 of 10, 
runlevel 3]: TableCreator (DefaultStartupRoutineExecutor.java 
[pool-2-thread-1])
* INFO  2013-03-27 13:13:01,392 Executing startup routine [6 of 10, 
runlevel 3]: DataElementDefaultDimensionPopulator 
(DefaultStartupRoutineExecutor.java [pool-2-thread-1])
* INFO  2013-03-27 13:13:01,557 Linked default category with default 
concept (DataElementDefaultDimensionPopulator.java [pool-2-thread-1])
* INFO  2013-03-27 13:13:01,965 Executing startup routine [7 of 10, 
runlevel 4]: PatientTableAlteror (DefaultStartupRoutineExecutor.java 
[pool-2-thread-1])
* INFO  2013-03-27 13:13:02,352 Executing startup routine [8 of 10, 
runlevel 5]: OrganisationUnitGroupSetPopulator 
(DefaultStartupRoutineExecutor.java [pool-2-thread-1])
* INFO  2013-03-27 13:13:02,361 Executing startup routine [9 of 10, 
runlevel 5]: DataEntryFormUpgrader (DefaultStartupRoutineExecutor.java 
[pool-2-thread-1])
* INFO  2013-03-27 13:13:02,408 Upgraded custom case entry form 
identifiers: 6 (DataEntryFormUpgrader.java [pool-2-thread-1])
* INFO  2013-03-27 13:13:02,420 Executing startup routine [10 of 10, 
runlevel 6]: ExpressionUpgrader (DefaultStartupRoutineExecutor.java 
[pool-2-thread-1])
* ERROR 2013-03-27 13:13:02,510 Failed to upgrade expression: ([66.4] * 
1.0) + ([191.4] * 1.0) (ExpressionUpgrader.java [pool-2-thread-1])
* ERROR 2013-03-27 13:13:02,510 java.lang.NullPointerException 
(ExpressionUpgrader.java [pool-2-thread-1])
* INFO  2013-03-27 13:13:02,514 All startup routines done 
(DefaultStartupRoutineExecutor.java [pool-2-thread-1])
Mar 27, 2013 1:13:09 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["http-bio-8080"]
Mar 27, 2013 1:13:09 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 45441 ms

When I run the shutdown script I get:
Using CATALINA_BASE:   /home/dhis/tomcat
Using CATALINA_HOME:   /usr/share/tomcat7
Using CATALINA_TMPDIR: /home/dhis/tomcat/temp
Using JRE_HOME:        /usr
Using CLASSPATH: 
/usr/share/tomcat7/bin/bootstrap.jar:/usr/share/tomcat7/bin/tomcat-juli.jar
Using CATALINA_PID:    /home/dhis/tomcat/work/test-tomcat.pid
Mar 27, 2013 1:14:39 PM org.apache.catalina.startup.ClassLoaderFactory 
validateFile
WARNING: Problem with directory [/var/lib/tomcat7/common/classes], 
exists: [false], isDirectory: [false], canRead: [false]
Mar 27, 2013 1:14:39 PM org.apache.catalina.startup.ClassLoaderFactory 
validateFile
WARNING: Problem with directory [/var/lib/tomcat7/common], exists: 
[false], isDirectory: [false], canRead: [false]
Mar 27, 2013 1:14:39 PM org.apache.catalina.startup.ClassLoaderFactory 
validateFile
WARNING: Problem with directory [/var/lib/tomcat7/server/classes], 
exists: [false], isDirectory: [false], canRead: [false]
Mar 27, 2013 1:14:39 PM org.apache.catalina.startup.ClassLoaderFactory 
validateFile
WARNING: Problem with directory [/var/lib/tomcat7/server], exists: 
[false], isDirectory: [false], canRead: [false]
Mar 27, 2013 1:14:39 PM org.apache.catalina.startup.ClassLoaderFactory 
validateFile
WARNING: Problem with directory [/var/lib/tomcat7/shared/classes], 
exists: [false], isDirectory: [false], canRead: [false]
Mar 27, 2013 1:14:39 PM org.apache.catalina.startup.ClassLoaderFactory 
validateFile
WARNING: Problem with directory [/var/lib/tomcat7/shared], exists: 
[false], isDirectory: [false], canRead: [false]

Hope this is something obvious....

Cheers
Dan

On 27/03/13 11:57, Lars Helge Øverland wrote:
> Hi Dan
>
> On Wed, Mar 27, 2013 at 7:41 AM, Daniel Bridges 
> <dbridges@xxxxxxxxxxxxxxxxx <mailto:dbridges@xxxxxxxxxxxxxxxxx>> wrote:
>
>     Congrats to the team for releasing version 2.11 - it looks great.
>
>
> Thanks..
>
>
>     I am trying to upgrade my local server (Ubuntu 12.04 LTS*) *to
>     2.11, but am struggling to get it working. First I upgraded the
>     server to postgres 9.2. I then created a new database and restored
>     the 2.11 demo data into the new database. Everything seemed to run
>     fine, although when I start up tomcat I get these two errors in
>     catalina.out:
>
>     * ERROR 2013-03-27 08:24:39,596 Failed to upgrade expression:
>     ([66.4] * 1.0) + ([191.4] * 1.0) (ExpressionUpgrader.java
>     [pool-2-thread-1])
>     * ERROR 2013-03-27 08:24:39,597 java.lang.NullPointerException
>     (ExpressionUpgrader.java [pool-2-thread-1])
>
>
> In 2.11 we are using UIDs for indicator and validation rules 
> expressions. This means that the upgrade routine failed for one of the 
> expressions because the formula was invalid. This is mostly often 
> caused by an identifier in the formula pointing to a non-existing data 
> element or category option combination. You can identify this by 
> running "Data integrity checks" in data admin module and look for 
> invalid indicator / validation rule formulas.
>
> I can see we could have given a more descriptive error message her. 
> But the system will ignore it and continue starting up.
>
>
>     When I try to login to the server I get a 404 error from nginx.
>     Happy to give more info, but does anyone know what these errors
>     could relate to and how to solve them.
>
>
> Would be good with some more info. The above issue should not be related.
>
>     I also noticed that the dhis2-demo.zip file is listed on the
>     dhis2.org <http://dhis2.org> download page as 74Mb, but the file I
>     downloaded is actually 103Mb in size. Which should it be? Are
>     there any md5 / SHA1 checksums that I can check my download against?
>
>
> I have corrected it now, the size should be 103 Mb. Will add checksums 
> later.
>
> Thanks for reporting.
>
>
> Lars