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mks-d/gist:a7b522c8ceaf493912e9041aff0c5465

Created December 16, 2016 12:33
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SDK & docker: Full log
Raw
gistfile1.txt
mymac:demoserver mksd$ docker-compose kill
Killing openmrs-lfhcdistro-mysql ... done
mymac:demoserver mksd$ docker-compose rm -f
Going to remove openmrs-lfhcdistro, openmrs-lfhcdistro-mysql
Removing openmrs-lfhcdistro ... done
Removing openmrs-lfhcdistro-mysql ... done
mymac:demoserver mksd$ docker-compose build
openmrs-lfhcdistro-mysql uses an image, skipping
Building openmrs-lfhcdistro
Step 1 : FROM tomcat:7
---> a5218daacd8e
Step 2 : COPY openmrs.war /usr/local/tomcat/webapps/openmrs.war
---> Using cache
---> 8c6671112cc9
Step 3 : COPY modules /usr/local/tomcat/.OpenMRS/modules
---> Using cache
---> ae416e49ef5b
Step 4 : COPY openmrs-server.properties /usr/local/tomcat/openmrs-server.properties
---> Using cache
---> a0376f2e7064
Step 5 : COPY setenv.sh /usr/local/tomcat/bin/setenv.sh
---> Using cache
---> a05f5e180718
Step 6 : COPY wait-for-it.sh /usr/local/tomcat/wait-for-it.sh
---> Using cache
---> 4a8f513f3199
Step 7 : COPY startup.sh /usr/local/tomcat/startup.sh
---> Using cache
---> 009571a813d2
Step 8 : RUN sed -i '/Connector port="8080"/a URIEncoding="UTF-8"' /usr/local/tomcat/conf/server.xml
---> Using cache
---> 0bdf8e3332eb
Step 9 : RUN chmod +x /usr/local/tomcat/wait-for-it.sh
---> Using cache
---> 12d4d119d2d8
Step 10 : RUN chmod +x /usr/local/tomcat/startup.sh
---> Using cache
---> 4251cc3cca9f
Successfully built 4251cc3cca9f
mymac:demoserver mksd$ docker-compose up
Creating openmrs-lfhcdistro-mysql
Creating openmrs-lfhcdistro
Attaching to openmrs-lfhcdistro-mysql, openmrs-lfhcdistro
openmrs-lfhcdistro | wait-for-it.sh: waiting 180 seconds for mysql:3306
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 0 [Note] mysqld (mysqld 5.6.35) starting as process 1 ...
openmrs-lfhcdistro | wait-for-it.sh: mysql:3306 is available after 0 seconds
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] Plugin 'FEDERATED' is disabled.
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Using atomics to ref count buffer pool pages
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: The InnoDB memory heap is disabled
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Mutexes and rw_locks use GCC atomic builtins
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Memory barrier is not used
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Compressed tables use zlib 1.2.8
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Using Linux native AIO
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Using CPU crc32 instructions
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Initializing buffer pool, size = 128.0M
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Completed initialization of buffer pool
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Highest supported file format is Barracuda.
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: The log sequence numbers 1625987 and 1625987 in ibdata files do not match the log sequence number 89421539 in the ib_logfiles!
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Database was not shutdown normally!
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Starting crash recovery.
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Reading tablespace information from the .ibd files...
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: Restoring possible half-written data pages
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:25 1 [Note] InnoDB: from the doublewrite buffer...
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] InnoDB: 128 rollback segment(s) are active.
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] InnoDB: Waiting for purge to start
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] InnoDB: 5.6.35 started; log sequence number 89421539
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] Server hostname (bind-address): '*'; port: 3306
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] IPv6 is available.
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] - '::' resolves to '::';
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] Server socket created on IP: '::'.
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Warning] 'proxies_priv' entry '@ root@a4e60d6ef34f' ignored in --skip-name-resolve mode.
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] Event Scheduler: Loaded 0 events
openmrs-lfhcdistro-mysql | 2016-12-16 12:27:26 1 [Note] mysqld: ready for connections.
openmrs-lfhcdistro-mysql | Version: '5.6.35' socket: '/var/run/mysqld/mysqld.sock' port: 3306 MySQL Community Server (GPL)
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Server version: Apache Tomcat/7.0.73
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Server built: Nov 7 2016 21:27:23 UTC
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Server number: 7.0.73.0
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: OS Name: Linux
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: OS Version: 4.4.27-moby
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Architecture: amd64
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Java Home: /usr/lib/jvm/java-7-openjdk-amd64/jre
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: JVM Version: 1.7.0_111-b01
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: JVM Vendor: Oracle Corporation
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: CATALINA_BASE: /usr/local/tomcat
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: CATALINA_HOME: /usr/local/tomcat
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Djava.util.logging.config.file=/usr/local/tomcat/conf/logging.properties
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Djava.util.logging.manager=org.apache.juli.ClassLoaderLogManager
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Dfile.encoding=UTF-8
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Xms256m
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Xmx768m
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -XX:PermSize=256m
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -XX:MaxPermSize=512m
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Djdk.tls.ephemeralDHKeySize=2048
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -DOPENMRS_INSTALLATION_SCRIPT=/usr/local/tomcat/openmrs-server.properties
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -DOPENMRS_APPLICATION_DATA_DIRECTORY=/usr/local/tomcat/.OpenMRS
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Djava.endorsed.dirs=/usr/local/tomcat/endorsed
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Dcatalina.base=/usr/local/tomcat
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Dcatalina.home=/usr/local/tomcat
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.VersionLoggerListener log
openmrs-lfhcdistro | INFO: Command line argument: -Djava.io.tmpdir=/usr/local/tomcat/temp
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.core.AprLifecycleListener lifecycleEvent
openmrs-lfhcdistro | INFO: Loaded APR based Apache Tomcat Native library 1.2.10 using APR version 1.5.1.
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.core.AprLifecycleListener lifecycleEvent
openmrs-lfhcdistro | INFO: APR capabilities: IPv6 [true], sendfile [true], accept filters [false], random [true].
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.core.AprLifecycleListener initializeSSL
openmrs-lfhcdistro | INFO: OpenSSL successfully initialized (OpenSSL 1.1.0c 10 Nov 2016)
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.coyote.AbstractProtocol init
openmrs-lfhcdistro | INFO: Initializing ProtocolHandler ["http-apr-8080"]
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.coyote.AbstractProtocol init
openmrs-lfhcdistro | INFO: Initializing ProtocolHandler ["ajp-apr-8009"]
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.Catalina load
openmrs-lfhcdistro | INFO: Initialization processed in 607 ms
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.core.StandardService startInternal
openmrs-lfhcdistro | INFO: Starting service Catalina
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.core.StandardEngine startInternal
openmrs-lfhcdistro | INFO: Starting Servlet Engine: Apache Tomcat/7.0.73
openmrs-lfhcdistro | Dec 16, 2016 12:27:31 PM org.apache.catalina.startup.HostConfig deployWAR
openmrs-lfhcdistro | INFO: Deploying web application archive /usr/local/tomcat/webapps/openmrs.war
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://java.sun.com/jstl/core_rt is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://jakarta.apache.org/taglibs/request-1.0 is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://www.springframework.org/tags is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://jakarta.apache.org/taglibs/page-1.0 is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://jakarta.apache.org/taglibs/response-1.0 is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://www.springframework.org/tags/form is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://www.springframework.org/tags/form is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://java.sun.com/jstl/core_rt is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:37 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://java.sun.com/jsp/jstl/functions is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:38 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://www.springframework.org/tags is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:38 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://www.springframework.org/tags/form is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:38 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://jakarta.apache.org/taglibs/response-1.0 is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:38 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://jakarta.apache.org/taglibs/page-1.0 is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:38 PM org.apache.catalina.startup.TaglibUriRule body
openmrs-lfhcdistro | INFO: TLD skipped. URI: http://jakarta.apache.org/taglibs/request-1.0 is already defined
openmrs-lfhcdistro | Dec 16, 2016 12:27:38 PM org.apache.catalina.startup.TldConfig execute
openmrs-lfhcdistro | INFO: At least one JAR was scanned for TLDs yet contained no TLDs. Enable debug logging for this logger for a complete list of JARs that were scanned but no TLDs were found in them. Skipping unneeded JARs during scanning can improve startup time and JSP compilation time.
openmrs-lfhcdistro | WARN - OpenmrsUtil.getRuntimePropertiesFilePathName(2669) |2016-12-16 12:27:39,062| Unable to find a runtime properties file at /usr/local/tomcat/openmrs-runtime.properties
openmrs-lfhcdistro | WARN - OpenmrsUtil.getRuntimePropertiesFilePathName(2697) |2016-12-16 12:27:39,073| Unable to find properties file: /usr/local/tomcat/.OpenMRS/openmrs-runtime.properties
openmrs-lfhcdistro | WARN - OpenmrsUtil.getRuntimeProperties(2630) |2016-12-16 12:27:39,073| Unable to find a runtime properties file. Initial setup is needed. View the webapp to run the setup wizard.
openmrs-lfhcdistro | WARN - OpenmrsUtil.getRuntimePropertiesFilePathName(2669) |2016-12-16 12:27:39,256| Unable to find a runtime properties file at /usr/local/tomcat/openmrs-runtime.properties
openmrs-lfhcdistro | WARN - OpenmrsUtil.getRuntimePropertiesFilePathName(2697) |2016-12-16 12:27:39,257| Unable to find properties file: /usr/local/tomcat/.OpenMRS/openmrs-runtime.properties
openmrs-lfhcdistro | WARN - OpenmrsUtil.getRuntimeProperties(2630) |2016-12-16 12:27:39,257| Unable to find a runtime properties file. Initial setup is needed. View the webapp to run the setup wizard.
openmrs-lfhcdistro | ERROR - UpdateFilterModel.updateChanges(77) |2016-12-16 12:27:43,542| Unable to get the database changes
openmrs-lfhcdistro | java.lang.RuntimeException: Error occurred while trying to get the updates needed for the database. Unable to get a connection to the database. Please check your openmrs runtime properties file and make sure you have the correct connection.username and connection.password set
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.getUnrunDatabaseChanges(DatabaseUpdater.java:637)
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.getUnrunDatabaseChanges(DatabaseUpdater.java:594)
openmrs-lfhcdistro | at org.openmrs.web.filter.update.UpdateFilterModel.updateChanges(UpdateFilterModel.java:69)
openmrs-lfhcdistro | at org.openmrs.web.filter.update.UpdateFilterModel.<init>(UpdateFilterModel.java:47)
openmrs-lfhcdistro | at org.openmrs.web.filter.update.UpdateFilter.init(UpdateFilter.java:457)
openmrs-lfhcdistro | at org.apache.catalina.core.ApplicationFilterConfig.initFilter(ApplicationFilterConfig.java:279)
openmrs-lfhcdistro | at org.apache.catalina.core.ApplicationFilterConfig.getFilter(ApplicationFilterConfig.java:260)
openmrs-lfhcdistro | at org.apache.catalina.core.ApplicationFilterConfig.<init>(ApplicationFilterConfig.java:105)
openmrs-lfhcdistro | at org.apache.catalina.core.StandardContext.filterStart(StandardContext.java:4958)
openmrs-lfhcdistro | at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5652)
openmrs-lfhcdistro | at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:145)
openmrs-lfhcdistro | at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:899)
openmrs-lfhcdistro | at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:875)
openmrs-lfhcdistro | at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:652)
openmrs-lfhcdistro | at org.apache.catalina.startup.HostConfig.deployWAR(HostConfig.java:1092)
openmrs-lfhcdistro | at org.apache.catalina.startup.HostConfig$DeployWar.run(HostConfig.java:1984)
openmrs-lfhcdistro | at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:471)
openmrs-lfhcdistro | at java.util.concurrent.FutureTask.run(FutureTask.java:262)
openmrs-lfhcdistro | at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
openmrs-lfhcdistro | at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
openmrs-lfhcdistro | at java.lang.Thread.run(Thread.java:745)
openmrs-lfhcdistro | Caused by: java.lang.Exception: Unable to get a connection to the database. Please check your openmrs runtime properties file and make sure you have the correct connection.username and connection.password set
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.getLiquibase(DatabaseUpdater.java:369)
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.getUnrunDatabaseChanges(DatabaseUpdater.java:623)
openmrs-lfhcdistro | ... 20 more
openmrs-lfhcdistro | Caused by: com.mysql.jdbc.exceptions.jdbc4.MySQLNonTransientConnectionException: Could not create connection to database server. Attempted reconnect 3 times. Giving up.
openmrs-lfhcdistro | at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
openmrs-lfhcdistro | at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57)
openmrs-lfhcdistro | at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
openmrs-lfhcdistro | at java.lang.reflect.Constructor.newInstance(Constructor.java:526)
openmrs-lfhcdistro | at com.mysql.jdbc.Util.handleNewInstance(Util.java:411)
openmrs-lfhcdistro | at com.mysql.jdbc.Util.getInstance(Util.java:386)
openmrs-lfhcdistro | at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:1015)
openmrs-lfhcdistro | at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:989)
openmrs-lfhcdistro | at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:975)
openmrs-lfhcdistro | at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:920)
openmrs-lfhcdistro | at com.mysql.jdbc.ConnectionImpl.connectWithRetries(ConnectionImpl.java:2395)
openmrs-lfhcdistro | at com.mysql.jdbc.ConnectionImpl.createNewIO(ConnectionImpl.java:2316)
openmrs-lfhcdistro | at com.mysql.jdbc.ConnectionImpl.<init>(ConnectionImpl.java:834)
openmrs-lfhcdistro | at com.mysql.jdbc.JDBC4Connection.<init>(JDBC4Connection.java:47)
openmrs-lfhcdistro | at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
openmrs-lfhcdistro | at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57)
openmrs-lfhcdistro | at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
openmrs-lfhcdistro | at java.lang.reflect.Constructor.newInstance(Constructor.java:526)
openmrs-lfhcdistro | at com.mysql.jdbc.Util.handleNewInstance(Util.java:411)
openmrs-lfhcdistro | at com.mysql.jdbc.ConnectionImpl.getInstance(ConnectionImpl.java:416)
openmrs-lfhcdistro | at com.mysql.jdbc.NonRegisteringDriver.connect(NonRegisteringDriver.java:347)
openmrs-lfhcdistro | at java.sql.DriverManager.getConnection(DriverManager.java:571)
openmrs-lfhcdistro | at java.sql.DriverManager.getConnection(DriverManager.java:215)
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.getConnection(DatabaseUpdater.java:431)
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.getLiquibase(DatabaseUpdater.java:366)
openmrs-lfhcdistro | ... 21 more
openmrs-lfhcdistro | Caused by: com.mysql.jdbc.exceptions.jdbc4.CommunicationsException: Communications link failure
openmrs-lfhcdistro |
openmrs-lfhcdistro | The last packet sent successfully to the server was 0 milliseconds ago. The driver has not received any packets from the server.
openmrs-lfhcdistro | at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
openmrs-lfhcdistro | at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57)
openmrs-lfhcdistro | at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
openmrs-lfhcdistro | at java.lang.reflect.Constructor.newInstance(Constructor.java:526)
openmrs-lfhcdistro | at com.mysql.jdbc.Util.handleNewInstance(Util.java:411)
openmrs-lfhcdistro | at com.mysql.jdbc.SQLError.createCommunicationsException(SQLError.java:1129)
openmrs-lfhcdistro | at com.mysql.jdbc.MysqlIO.<init>(MysqlIO.java:358)
openmrs-lfhcdistro | at com.mysql.jdbc.ConnectionImpl.coreConnect(ConnectionImpl.java:2489)
openmrs-lfhcdistro | at com.mysql.jdbc.ConnectionImpl.connectWithRetries(ConnectionImpl.java:2334)
openmrs-lfhcdistro | ... 35 more
openmrs-lfhcdistro | Caused by: java.net.ConnectException: Connection refused (Connection refused)
openmrs-lfhcdistro | at java.net.PlainSocketImpl.socketConnect(Native Method)
openmrs-lfhcdistro | at java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:339)
openmrs-lfhcdistro | at java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:200)
openmrs-lfhcdistro | at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:182)
openmrs-lfhcdistro | at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392)
openmrs-lfhcdistro | at java.net.Socket.connect(Socket.java:579)
openmrs-lfhcdistro | at java.net.Socket.connect(Socket.java:528)
openmrs-lfhcdistro | at java.net.Socket.<init>(Socket.java:425)
openmrs-lfhcdistro | at java.net.Socket.<init>(Socket.java:241)
openmrs-lfhcdistro | at com.mysql.jdbc.StandardSocketFactory.connect(StandardSocketFactory.java:256)
openmrs-lfhcdistro | at com.mysql.jdbc.MysqlIO.<init>(MysqlIO.java:308)
openmrs-lfhcdistro | ... 37 more
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployWAR
openmrs-lfhcdistro | INFO: Deployment of web application archive /usr/local/tomcat/webapps/openmrs.war has finished in 15,904 ms
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deploying web application directory /usr/local/tomcat/webapps/ROOT
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deployment of web application directory /usr/local/tomcat/webapps/ROOT has finished in 34 ms
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deploying web application directory /usr/local/tomcat/webapps/examples
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deployment of web application directory /usr/local/tomcat/webapps/examples has finished in 170 ms
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deploying web application directory /usr/local/tomcat/webapps/docs
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deployment of web application directory /usr/local/tomcat/webapps/docs has finished in 31 ms
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deploying web application directory /usr/local/tomcat/webapps/manager
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deployment of web application directory /usr/local/tomcat/webapps/manager has finished in 39 ms
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deploying web application directory /usr/local/tomcat/webapps/host-manager
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.HostConfig deployDirectory
openmrs-lfhcdistro | INFO: Deployment of web application directory /usr/local/tomcat/webapps/host-manager has finished in 34 ms
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.coyote.AbstractProtocol start
openmrs-lfhcdistro | INFO: Starting ProtocolHandler ["http-apr-8080"]
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.coyote.AbstractProtocol start
openmrs-lfhcdistro | INFO: Starting ProtocolHandler ["ajp-apr-8009"]
openmrs-lfhcdistro | Dec 16, 2016 12:27:47 PM org.apache.catalina.startup.Catalina start
openmrs-lfhcdistro | INFO: Server startup in 16292 ms
openmrs-lfhcdistro | WARN - OpenmrsUtil.getRuntimePropertiesFilePathName(2669) |2016-12-16 12:27:54,988| Unable to find a runtime properties file at /usr/local/tomcat/openmrs-runtime.properties
openmrs-lfhcdistro | WARN - OpenmrsUtil.getRuntimePropertiesFilePathName(2697) |2016-12-16 12:27:54,990| Unable to find properties file: /usr/local/tomcat/.OpenMRS/openmrs-runtime.properties
openmrs-lfhcdistro | INFO 12/16/16 12:27 PM:liquibase: Reading from `liquibasechangelog`
openmrs-lfhcdistro | WARNING 12/16/16 12:27 PM:liquibase: modifyDataType will lose primary key/autoincrement/not null settings for mysql. Use <sql> and re-specify all configuration if this is the case
openmrs-lfhcdistro | WARNING 12/16/16 12:27 PM:liquibase: modifyDataType will lose primary key/autoincrement/not null settings for mysql. Use <sql> and re-specify all configuration if this is the case
openmrs-lfhcdistro | WARNING 12/16/16 12:27 PM:liquibase: modifyDataType will lose primary key/autoincrement/not null settings for mysql. Use <sql> and re-specify all configuration if this is the case
openmrs-lfhcdistro | INFO 12/16/16 12:27 PM:liquibase: Successfully acquired change log lock
openmrs-lfhcdistro | WARNING 12/16/16 12:27 PM:liquibase: modifyDataType will lose primary key/autoincrement/not null settings for mysql. Use <sql> and re-specify all configuration if this is the case
openmrs-lfhcdistro | WARNING 12/16/16 12:27 PM:liquibase: modifyDataType will lose primary key/autoincrement/not null settings for mysql. Use <sql> and re-specify all configuration if this is the case
openmrs-lfhcdistro | WARNING 12/16/16 12:27 PM:liquibase: modifyDataType will lose primary key/autoincrement/not null settings for mysql. Use <sql> and re-specify all configuration if this is the case
openmrs-lfhcdistro | INFO 12/16/16 12:27 PM:liquibase: Reading from `liquibasechangelog`
openmrs-lfhcdistro | SEVERE 12/16/16 12:27 PM:liquibase: Change Set liquibase-update-to-latest.xml::1::upul failed. Error: Error executing SQL ALTER TABLE `person_attribute_type` ADD `edit_privilege` VARCHAR(255): Table 'openmrs.person_attribute_type' doesn't exist
openmrs-lfhcdistro | liquibase.exception.DatabaseException: Error executing SQL ALTER TABLE `person_attribute_type` ADD `edit_privilege` VARCHAR(255): Table 'openmrs.person_attribute_type' doesn't exist
openmrs-lfhcdistro | at liquibase.executor.jvm.JdbcExecutor.execute(JdbcExecutor.java:62)
openmrs-lfhcdistro | at liquibase.executor.jvm.JdbcExecutor.execute(JdbcExecutor.java:104)
openmrs-lfhcdistro | at liquibase.database.AbstractDatabase.execute(AbstractDatabase.java:1091)
openmrs-lfhcdistro | at liquibase.database.AbstractDatabase.executeStatements(AbstractDatabase.java:1075)
openmrs-lfhcdistro | at liquibase.changelog.ChangeSet.execute(ChangeSet.java:317)
openmrs-lfhcdistro | at liquibase.changelog.visitor.UpdateVisitor.visit(UpdateVisitor.java:27)
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater$1OpenmrsUpdateVisitor.visit(DatabaseUpdater.java:200)
openmrs-lfhcdistro | at liquibase.changelog.ChangeLogIterator.run(ChangeLogIterator.java:58)
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.executeChangelog(DatabaseUpdater.java:229)
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.executeChangelog(DatabaseUpdater.java:164)
openmrs-lfhcdistro | at org.openmrs.util.DatabaseUpdater.executeChangelog(DatabaseUpdater.java:149)
openmrs-lfhcdistro | at org.openmrs.web.filter.initialization.InitializationFilter$InitializationCompletion$1.run(InitializationFilter.java:1599)
openmrs-lfhcdistro | at java.lang.Thread.run(Thread.java:745)
openmrs-lfhcdistro | Caused by: com.mysql.jdbc.exceptions.jdbc4.MySQLSyntaxErrorException: Table 'openmrs.person_attribute_type' doesn't exist
openmrs-lfhcdistro | at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
openmrs-lfhcdistro | at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57)
openmrs-lfhcdistro | at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
openmrs-lfhcdistro | at java.lang.reflect.Constructor.newInstance(Constructor.java:526)
openmrs-lfhcdistro | at com.mysql.jdbc.Util.handleNewInstance(Util.java:411)
openmrs-lfhcdistro | at com.mysql.jdbc.Util.getInstance(Util.java:386)
openmrs-lfhcdistro | at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:1054)
openmrs-lfhcdistro | at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:4237)
openmrs-lfhcdistro | at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:4169)
openmrs-lfhcdistro | at com.mysql.jdbc.MysqlIO.sendCommand(MysqlIO.java:2617)
openmrs-lfhcdistro | at com.mysql.jdbc.MysqlIO.sqlQueryDirect(MysqlIO.java:2778)
openmrs-lfhcdistro | at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2819)
openmrs-lfhcdistro | at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2768)
openmrs-lfhcdistro | at com.mysql.jdbc.StatementImpl.execute(StatementImpl.java:949)
openmrs-lfhcdistro | at com.mysql.jdbc.StatementImpl.execute(StatementImpl.java:795)
openmrs-lfhcdistro | at liquibase.executor.jvm.JdbcExecutor$1ExecuteStatementCallback.doInStatement(JdbcExecutor.java:92)
openmrs-lfhcdistro | at liquibase.executor.jvm.JdbcExecutor.execute(JdbcExecutor.java:55)
openmrs-lfhcdistro | ... 12 more
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