dhis2-users team mailing list archive

[Lars Helge Øverland <larshelge@xxxxxxxxx>]

Hi David,

INFO: Pausing ProtocolHandler ["http-bio-8080"]

you are running on port 8080, this might be related to firewalls on aws.
Try running on port 80 (conf/server.xml).

Alternatively check if firewalls are active and blocks 8080.

regards,

Lars





On Wed, Sep 2, 2015 at 3:47 PM, Dan Cocos <dcocos@xxxxxxxxxxxxxx> wrote:

> At BAO we've found we could only reliably support DHIS 2 with a minimum of
> 2GB.
>
>
> *Dan Cocos*
> BAO Systems
> www.baosystems.com
> T: +1 202-569-8751 | gchat: dcocos@xxxxxxxxxxxxxx
>
> On Sep 2, 2015, at 7:33 AM, Jason Pickering <jason.p.pickering@xxxxxxxxx>
> wrote:
>
>
> Are you sure that Tomcat actually shut down ?
>
> Be sure Tomcat is dead by invoking ps -ef | grep tomcat and killing any
> processes(es) which may be running, and then start it again. If you get
> that memory leak error again, then something else is not right.
>
> Having said that, I agree with Knut. 1GB will really be pushing it, but
> you might be able to get it to work.
>
> Regards,
> Jason
>
>
>
>
> On Wed, Sep 2, 2015 at 12:56 PM, Knut Staring <knutst@xxxxxxxxx> wrote:
>
>> Hi David,
>>
>> 1 GB is probably pushing it a bit, AFAIK. Possible, but not too easy....2
>> GB should be fine.
>>
>> Knut
>>
>> On Wed, Sep 2, 2015 at 12:11 PM, David Huser <david.huser@xxxxxxxxxxxx>
>> wrote:
>>
>>> Hi
>>>
>>> I registered for a free tier EC2 instance (t2.micro) on Amazon with
>>> Ubuntu 14.04 AMD64 http://aws.amazon.com/ec2/instance-types/
>>> I have set it up according to the DHIS2 implementation manual.
>>> I'm aware that this low hardware specifications are not ready for
>>> national use, I'd like to use it as prototyping resource. However, the
>>> server responds to pings but is not accessible through the browser. I
>>> suspect the memory configuration. Please find the relevant configurations /
>>> error messages in red below.
>>>
>>> *Hardware:*
>>> RAM: 1GB memory
>>> CPU: 1 CPU, spike balancing (t2.micro tier from amazon)
>>> Disk: 20GB
>>>
>>> Basically, I just divided the RAM specs from the implementation manual
>>> (2x 8GB) for each attribute by 16 (I have 1GB).
>>>
>>>
>>> *$ cat /etc/postgresql/9.3/main/postgresql.conf*
>>> shared_buffers = 128MB
>>> work_mem = 1MB
>>> maintenance_work_mem = 32MB
>>> effective_cache_size = 128MB
>>> *$ java -version*
>>> java version "1.7.0_79"
>>> OpenJDK Runtime Environment (IcedTea 2.5.6) (7u79-2.5.6-0ubuntu1.14.04.1)
>>> OpenJDK 64-Bit Server VM (build 24.79-b02, mixed mode)
>>>
>>>
>>>  *$ cat /tomcat-dhis/bin/setenv.sh*
>>> #!/bin/sh
>>> #
>>>
>>> CATALINA_HOME=/usr/share/tomcat7
>>>
>>> # The first existing directory is used for JAVA_HOME (if JAVA_HOME is not
>>> # defined in $DEFAULT)
>>> JDK_DIRS="/usr/lib/jvm/java-6-openjdk /usr/lib/jvm/java-6-sun
>>> /usr/lib/jvm/java-1.5.0-sun /usr/lib/j2sdk1.5-sun /usr/lib/j2sdk1.5-ibm"
>>>
>>> # Look for the right JVM to use
>>> for jdir in $JDK_DIRS; do
>>>     if [ -r "$jdir/bin/java" -a -z "${JAVA_HOME}" ]; then
>>>         JAVA_HOME_TMP="$jdir"
>>>         # checks for a real JDK like environment, needed to check if
>>>         # really the java-gcj-compat-dev package is installed
>>>         if [ -r "$jdir/bin/jdb" ]; then
>>>             JAVA_HOME="$JAVA_HOME_TMP"
>>>         fi
>>>     fi
>>> done
>>>
>>> # Default Java options
>>> if [ -z "$JAVA_OPTS" ]; then
>>>         JAVA_OPTS="-Djava.awt.headless=true -Xmx128M"
>>> fi
>>>
>>> export JAVA_HOME='/usr/lib/jvm/java-7-openjdk-amd64'
>>> export JAVA_OPTS='-Xmx768m -Xms256m -XX:MaxPermSize=128m
>>> -XX:PermSize=32m'
>>> export DHIS2_HOME='/home/dhis/config'
>>>
>>>
>>>
>>>
>>> after restarting tomcat:
>>> *$ cat catalina.out *
>>>
>>> Sep 02, 2015 11:59:08 AM org.apache.catalina.startup.ClassLoaderFactory
>>> validateFile
>>> WARNING: Problem with directory [/usr/share/tomcat7/common/classes],
>>> exists: [false], isDirectory: [false], canRead: [false]
>>> Sep 02, 2015 11:59:08 AM org.apache.catalina.startup.ClassLoaderFactory
>>> validateFile
>>> WARNING: Problem with directory [/usr/share/tomcat7/common], exists:
>>> [false], isDirectory: [false], canRead: [false]
>>> Sep 02, 2015 11:59:08 AM org.apache.catalina.startup.ClassLoaderFactory
>>> validateFile
>>> WARNING: Problem with directory [/usr/share/tomcat7/server/classes],
>>> exists: [false], isDirectory: [false], canRead: [false]
>>> Sep 02, 2015 11:59:08 AM org.apache.catalina.startup.ClassLoaderFactory
>>> validateFile
>>> WARNING: Problem with directory [/usr/share/tomcat7/server], exists:
>>> [false], isDirectory: [false], canRead: [false]
>>> Sep 02, 2015 11:59:08 AM org.apache.catalina.startup.ClassLoaderFactory
>>> validateFile
>>> WARNING: Problem with directory [/usr/share/tomcat7/shared/classes],
>>> exists: [false], isDirectory: [false], canRead: [false]
>>> Sep 02, 2015 11:59:08 AM org.apache.catalina.startup.ClassLoaderFactory
>>> validateFile
>>> WARNING: Problem with directory [/usr/share/tomcat7/shared], exists:
>>> [false], isDirectory: [false], canRead: [false]
>>> Sep 02, 2015 11:59:09 AM org.apache.coyote.AbstractProtocol init
>>> INFO: Initializing ProtocolHandler ["http-bio-8080"]
>>> Sep 02, 2015 11:59:09 AM org.apache.catalina.startup.Catalina load
>>> INFO: Initialization processed in 1007 ms
>>> Sep 02, 2015 11:59:09 AM org.apache.catalina.core.StandardService
>>> startInternal
>>> INFO: Starting service Catalina
>>> Sep 02, 2015 11:59:09 AM org.apache.catalina.core.StandardEngine
>>> startInternal
>>> INFO: Starting Servlet Engine: Apache Tomcat/7.0.52 (Ubuntu)
>>> Sep 02, 2015 11:59:09 AM org.apache.catalina.startup.HostConfig deployWAR
>>> INFO: Deploying web application archive
>>> /home/dhis/tomcat-dhis/webapps/ROOT.war
>>> * INFO  2015-09-02 11:59:35,400 System property dhis2.home not set
>>> (DefaultLocationManager.java [localhost-startStop-1])
>>> * INFO  2015-09-02 11:59:35,402 Environment variable DHIS2_HOME points
>>> to /home/dhis/config (DefaultLocationManager.java [localhost-startStop-1])
>>> * INFO  2015-09-02 11:59:37,945 Hibernate configuration loaded, using
>>> dialect: org.hibernate.dialect.PostgreSQLDialect
>>> (DefaultHibernateConfigurationProvider.java [localhost-startStop-1])
>>> * INFO  2015-09-02 11:59:57,732 Found the following message senders:
>>> [org.hisp.dhis.message.EmailMessageSender@68b059dc,
>>> org.hisp.dhis.sms.SmsMessageSender@5e5f2c88]
>>> (DefaultMessageService.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:09,471 Detected apps: []
>>> (DefaultAppManager.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:13,236 Added logger:
>>> org.hisp.dhis.resourcetable using file:
>>> /home/dhis/config/logs/dhis-analytics-table.log
>>> (Log4JLogConfigInitializer.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:13,236 Added logger:
>>> org.hisp.dhis.analytics.table using file:
>>> /home/dhis/config/logs/dhis-analytics-table.log
>>> (Log4JLogConfigInitializer.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:13,237 Added logger: org.hisp.dhis.dxf2 using
>>> file: /home/dhis/config/logs/dhis-data-exchange.log
>>> (Log4JLogConfigInitializer.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:13,237 Added logger: org.hisp.dhis.dxf2.synch
>>> using file: /home/dhis/config/logs/dhis-data-sync.log
>>> (Log4JLogConfigInitializer.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:13,237 Added root logger using file:
>>> /home/dhis/config/logs/dhis.log (Log4JLogConfigInitializer.java
>>> [localhost-startStop-1])
>>> * WARN  2015-09-02 12:00:14,817 RP discovery / realm validation
>>> disabled;  (RealmVerifier.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:15,654 Executing startup routine [1 of 15,
>>> runlevel 1]: InitTableAlteror (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:15,774 Executing startup routine [2 of 15,
>>> runlevel 2]: PeriodTypePopulator (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:15,811 Executing startup routine [3 of 15,
>>> runlevel 2]: DataElementDefaultDimensionPopulator
>>> (DefaultStartupRoutineExecutor.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:15,860 Linked default category with default
>>> concept (DataElementDefaultDimensionPopulator.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:16,005 Executing startup routine [4 of 15,
>>> runlevel 3]: ReportingIdentityPopulator (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:16,180 Executing startup routine [5 of 15,
>>> runlevel 3]: TableAlteror (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:20,284 Tables updated (TableAlteror.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:20,285 Executing startup routine [6 of 15,
>>> runlevel 3]: TrackerIdentityPopulator (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:20,294 1 last updated set on trackedentity
>>> (IdentityPopulator.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:20,296 1 created timestamps set on
>>> trackedentity (IdentityPopulator.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:20,424 Executing startup routine [7 of 15,
>>> runlevel 4]: TrackedEntityTableAlteror (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,370 Executing startup routine [8 of 15,
>>> runlevel 4]: IdentityPopulator (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,488 Executing startup routine [9 of 15,
>>> runlevel 5]: TableCreator (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,582 Executing startup routine [10 of 15,
>>> runlevel 7]: MapViewUpgrader (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,690 Executing startup routine [11 of 15,
>>> runlevel 7]: FavoriteDataItemUpgrader (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,698 Executing startup routine [12 of 15,
>>> runlevel 7]: FavoriteDataItemUpgrader (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,707 Upgraded custom case entry form
>>> identifiers (DataEntryFormUpgrader.java [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,708 Executing startup routine [13 of 15,
>>> runlevel 8]: ExpressionUpgrader (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,725 Executing startup routine [14 of 15,
>>> runlevel 9]: ConfigurationPopulator (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,729 Executing startup routine [15 of 15,
>>> runlevel 9]: I18nLocalePopulator (DefaultStartupRoutineExecutor.java
>>> [localhost-startStop-1])
>>> * INFO  2015-09-02 12:00:21,743 All startup routines done
>>> (DefaultStartupRoutineExecutor.java [localhost-startStop-1])
>>> Sep 02, 2015 12:00:31 PM org.apache.coyote.AbstractProtocol start
>>> INFO: Starting ProtocolHandler ["http-bio-8080"]
>>> Sep 02, 2015 12:00:31 PM org.apache.catalina.startup.Catalina start
>>> INFO: Server startup in 82000 ms
>>> Sep 02, 2015 12:01:37 PM org.apache.coyote.AbstractProtocol pause
>>> INFO: Pausing ProtocolHandler ["http-bio-8080"]
>>> Sep 02, 2015 12:01:37 PM org.apache.catalina.core.StandardService
>>> stopInternal
>>> INFO: Stopping service Catalina
>>> * INFO  2015-09-02 12:01:37,676 De-registering jdbc driver:
>>> org.postgresql.Driver@7e306ed7 (StartupListener.java
>>> [localhost-startStop-2])
>>> Sep 02, 2015 12:01:37 PM org.apache.catalina.loader.WebappClassLoader
>>> clearReferencesThreads
>>> SEVERE: The web application [] appears to have started a thread named
>>> [GT authority factory disposer] but has failed to stop it. This is very
>>> likely to create a memory leak.
>>> Sep 02, 2015 12:01:37 PM org.apache.catalina.loader.WebappClassLoader
>>> clearReferencesThreads
>>> SEVERE: The web application [] appears to have started a thread named
>>> [WeakCollectionCleaner] but has failed to stop it. This is very likely to
>>> create a memory leak.
>>> Sep 02, 2015 12:01:37 PM org.apache.coyote.AbstractProtocol stop
>>> INFO: Stopping ProtocolHandler ["http-bio-8080"]
>>> Sep 02, 2015 12:01:37 PM org.apache.coyote.AbstractProtocol destroy
>>> INFO: Destroying ProtocolHandler ["http-bio-8080"]
>>>
>>> _______________________________________________
>>> Mailing list: https://launchpad.net/~dhis2-users
>>> Post to     : dhis2-users@xxxxxxxxxxxxxxxxxxx
>>> Unsubscribe : https://launchpad.net/~dhis2-users
>>> More help   : https://help.launchpad.net/ListHelp
>>>
>>>
>>
>>
>> --
>> Knut Staring
>> Dept. of Informatics, University of Oslo
>> Norway: +4791880522
>> Skype: knutstar
>> http://dhis2.org
>>
>> _______________________________________________
>> Mailing list: https://launchpad.net/~dhis2-devs
>> Post to     : dhis2-devs@xxxxxxxxxxxxxxxxxxx
>> Unsubscribe : https://launchpad.net/~dhis2-devs
>> More help   : https://help.launchpad.net/ListHelp
>>
>>
>
>
> --
> Jason P. Pickering
> email: jason.p.pickering@xxxxxxxxx
> tel:+46764147049
> _______________________________________________
> Mailing list: https://launchpad.net/~dhis2-devs
> Post to     : dhis2-devs@xxxxxxxxxxxxxxxxxxx
> Unsubscribe : https://launchpad.net/~dhis2-devs
> More help   : https://help.launchpad.net/ListHelp
>
>
>
> _______________________________________________
> Mailing list: https://launchpad.net/~dhis2-users
> Post to     : dhis2-users@xxxxxxxxxxxxxxxxxxx
> Unsubscribe : https://launchpad.net/~dhis2-users
> More help   : https://help.launchpad.net/ListHelp
>
>


-- 
Lars Helge Øverland
Lead developer, DHIS 2
University of Oslo
Skype: larshelgeoverland
http://www.dhis2.org <https://www.dhis2.org>