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Exceptions and Errors #27
Comments
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Well, there is a bit of work to be done unfortunately.
If you don’t need any advanced features of Apollo you could use the apollo-only branch, which is probably more of what you were looking for.
Conversely, you could use that and update this: https://github.com/GMOD/docker-apollo/blob/apollo-only/Dockerfile#L22 <https://github.com/GMOD/docker-apollo/blob/apollo-only/Dockerfile#L22>
To 6189ff9
A few questions that would help me help you:
1 - why do you need to use docker compose?
2 - ultimately what are you trying to accomplish?
You might want to take a look at this: https://github.com/galaxy-genome-annotation/docker-galaxy-genome-annotation <https://github.com/galaxy-genome-annotation/docker-galaxy-genome-annotation>. (They integrate multiple things within galaxy, including Apollo).
Natban
… On Jul 3, 2018, at 6:06 PM, Michał T. Lorenc ***@***.***> wrote:
Hi,
I set up docker-apollo inside a docker-compose.yml file:
apollo:
image: quay.io/gmod/docker-apollo:latest
restart: always
ports:
- "8888:8080"
volumes:
- ./data//jbrowse:/data
- ./data/postgres-data:/var/lib/postgresql
While starting up I got the following Errors and Exceptions:
...
apollo_1 | WARNING: enabling "trust" authentication for local connections
apollo_1 | You can change this by editing pg_hba.conf or using the option -A, or
apollo_1 | --auth-local and --auth-host, the next time you run initdb.
apollo_1 | Starting PostgreSQL 9.6 database server: main.
apollo_1 | WEBAPOLLO_HOST_FLAG:
apollo_1 | CHADO_HOST_FLAG:
apollo_1 | Waiting for DB
apollo_1 | /var/run/postgresql:5432 - accepting connections
apollo_1 | Postgres is up, configuring database
apollo_1 | psql: FATAL: Peer authentication failed for user "apollo-lqt"
apollo_1 | Apollo database not found, creating...
apollo_1 | CREATE ROLE
apollo_1 | GRANT
apollo_1 | Configuring Chado
apollo_1 | psql: FATAL: Peer authentication failed for user "apollo"
apollo_1 | Chado database not found, creating...
apollo_1 | ERROR: role "apollo" already exists
apollo_1 | GRANT
apollo_1 | Loading Chado
...
apollo_1 | CREATE EXTENSION
apollo_1 | psql:/chado.sql:49: ERROR: must be owner of extension plpgsql
apollo_1 | SET
...
apollo_1 | ALTER TABLE
apollo_1 | SET
apollo_1 | psql:/chado.sql:2637928: ERROR: function create_point(integer, bigint) does not exist
apollo_1 | LINE 1: SELECT box (create_point(0, $1), create_point($2,500000000))
apollo_1 | ^
apollo_1 | HINT: No function matches the given name and argument types. You might need to add explicit type casts.
apollo_1 | QUERY: SELECT box (create_point(0, $1), create_point($2,500000000))
apollo_1 | CONTEXT: SQL function "boxrange" during inlining
apollo_1 | CREATE INDEX
...
apollo_1 | Loaded Chado
apollo_1 | Restarting tomcat with /usr/local/tomcat/
apollo_1 | Jul 04, 2018 10:25:47 AM org.apache.catalina.startup.Catalina stopServer
apollo_1 | SEVERE: Could not contact [localhost:[8005]]. Tomcat may not be running.
apollo_1 | Jul 04, 2018 10:25:47 AM org.apache.catalina.startup.Catalina stopServer
apollo_1 | SEVERE: Catalina.stop:
apollo_1 | java.net.ConnectException: Connection refused (Connection refused)
apollo_1 | at java.net.PlainSocketImpl.socketConnect(Native Method)
apollo_1 | at java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:350)
apollo_1 | at java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:206)
apollo_1 | at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:188)
apollo_1 | at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392)
apollo_1 | at java.net.Socket.connect(Socket.java:589)
apollo_1 | at java.net.Socket.connect(Socket.java:538)
apollo_1 | at java.net.Socket.<init>(Socket.java:434)
apollo_1 | at java.net.Socket.<init>(Socket.java:211)
apollo_1 | at org.apache.catalina.startup.Catalina.stopServer(Catalina.java:497)
apollo_1 | at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
apollo_1 | at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
apollo_1 | at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
apollo_1 | at java.lang.reflect.Method.invoke(Method.java:498)
apollo_1 | at org.apache.catalina.startup.Bootstrap.stopServer(Bootstrap.java:406)
apollo_1 | at org.apache.catalina.startup.Bootstrap.main(Bootstrap.java:495)
apollo_1 |
apollo_1 | Tomcat started.
...
apollo_1 | Shiro Configured
apollo_1 | 2018-07-04 10:26:36,175 [localhost-startStop-1] ERROR hbm2ddl.SchemaUpdate - HHH000388: Unsuccessful: alter table allele add constraint FK_ssx0gv6xbtu3tbwt6ekkmn4iw foreign key (variant_id) references feature
apollo_1 | 2018-07-04 10:26:36,179 [localhost-startStop-1] ERROR hbm2ddl.SchemaUpdate - ERROR: constraint "fk_ssx0gv6xbtu3tbwt6ekkmn4iw" for relation "allele" already exists
apollo_1 | 2018-07-04 10:26:43,169 [localhost-startStop-1] ERROR hbm2ddl.SchemaUpdate - HHH000388: Unsuccessful: alter table chadoprop add column cvterm_id int8 not null
apollo_1 | 2018-07-04 10:26:43,169 [localhost-startStop-1] ERROR hbm2ddl.SchemaUpdate - ERROR: column "cvterm_id" contains null values
apollo_1 | 2018-07-04 10:26:49,561 [localhost-startStop-1] ERROR hbm2ddl.SchemaUpdate - HHH000388: Unsuccessful: alter table chadoprop add constraint FK_8twb5n8vjmldyy3eeyq7sppc3 foreign key (cvterm_id) references cvterm
apollo_1 | 2018-07-04 10:26:49,561 [localhost-startStop-1] ERROR hbm2ddl.SchemaUpdate - ERROR: column "cvterm_id" referenced in foreign key constraint does not exist
apollo_1 | Starting Quartz Scheduler in QuartzFactoryBean
apollo_1
...
apollo_1 | 2018-07-04 10:27:47,437 [http-nio-8080-exec-6] WARN apollo.PreferenceService - No user present, so using the client token
apollo_1 | 2018-07-04 10:27:47,486 [http-nio-8080-exec-3] ERROR apollo.PermissionService - Username not supplied so can not authenticate.
apollo_1 | 2018-07-04 10:27:47,495 [http-nio-8080-exec-3] ERROR apollo.PermissionService - User null does not exist in the database.
apollo_1 | 2018-07-04 10:27:47,549 [http-nio-8080-exec-10] ERROR authenticator.UsernamePasswordAuthenticatorService - Problem authenticating: java.lang.IllegalArgumentException: Method argumet (authentication token) cannot be null.
apollo_1 | 2018-07-04 10:27:47,550 [http-nio-8080-exec-10] WARN apollo.PermissionService - Failed to authenticate user
apollo_1 | 2018-07-04 10:27:47,550 [http-nio-8080-exec-10] ERROR apollo.UserController - Failed to authenticate
What did I miss?
Thank you in advance.
Michal
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Hi, We try to set up a portal which contains blast server (sequenceserver), our own webpage, Apollo for annotation and jbrowse for displaying the data. Furthermore, we thinking to include more web tools. Our current I assume Thank you in advance, Michal |
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By "advanced-features" I think I meant Chado export, but that's not really an advanced feature. Sorry for the red herring. For doing what you are doing, I what look more closely at https://github.com/galaxy-genome-annotation/docker-galaxy-genome-annotation and use the |
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I changed it to What did I miss? The docker-galaxy-genome-annotation looks nice. Thank you in advance. Michal |
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I updated the apollo-only target. If you can provide me with a repo to debug that would be great. So, you should (in a few minutes from this post), be able to use: However, I would also explore, though they may be less up-to-date (though possibly sufficient for what you need):
If you're interested in joining that group, it might be a great forum to ask questions, as well. |
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I used this one. |
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@mictadlo That should be fine, but where did you use it? Where is it pulling the build from? |
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I clone it and modified locally. |
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I see. So, that is a different then the docker-compose file above? If you could provide me with that either off-line or here, that would be ideal so that we are on the same page for building. The difference is that the apollo-only branch builds only apollo whereas the master branch builds that plus postgresql, etc. Though, that being said, maybe you want the master branch anyway looking at your compose script. Either way, its hard for me to test without having your system. However, if you are able to get on your running system and provide logs for both tomcat and postgresql, that would be helpful. |
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I think this looks the best because it has all built in. However, I do not understand why it is required to have two of the same images: apollo-only casused the following problems some of them are related that I did not have postgresql in my docker-compose file: What did I miss? Thank you in advance. Michal |
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The error is because its trying to connect to a postgresql server and its either not there, or the connection credentials are misconfigured. These are typically passed is as variables in the example you gave. My advice would be to fork their project and get it running and then add your pieces. I think it would be easier to have both postgresql and mysql running, at least for now, so you don't have to reconfigure it. If you have trouble, those guys are docker / configuration experts and very willing to help. |
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Thank you for your help. I did what you suggested galaxy-genome-annotation/dockerized-gmod-deployment#8 |
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Hi Nathan, However, I have got the following Errors and Exceptions: What did I miss? Thank you in advance. Michal |
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Is there any reason to use docker-compose instead of just the original docker image?
Shouldn’t matter if chado loads or not.
Nathan
… On Jul 25, 2018, at 2:45 PM, Michał T. Lorenc ***@***.***> wrote:
Hi Nathan,
I decided that I only need apollo and postgresql without chado. This is the new docker-compose.yml file:
apollo:
image: quay.io/gmod/docker-apollo:apollo-only
restart: always
links:
- apollo_db
ports:
- "8888:8080"
environment:
- WEBAPOLLO_DB_USERNAME=postgres
- WEBAPOLLO_DB_PASSWORD=password
- WEBAPOLLO_DB_DRIVER="org.postgresql.Driver"
- WEBAPOLLO_DB_DIALECT="org.hibernate.dialect.PostgresPlusDialect"
- WEBAPOLLO_DB_URI="jdbc:postgresql://db/postgres"
volumes:
- ./data/jbrowse:/data
- ./data/postgres-data:/var/lib/postgresql
apollo_db:
image: postgres:latest
environment:
- POSTGRES_PASSWORD=postgres
However, I have got the following Errors and Exceptions:
Attaching to docker-apollo-only_apollo_db_1, docker-apollo-only_apollo_1
apollo_db_1 | The files belonging to this database system will be owned by user "postgres".
apollo_db_1 | This user must also own the server process.
apollo_db_1 |
apollo_db_1 | The database cluster will be initialized with locale "en_US.utf8".
apollo_db_1 | The default database encoding has accordingly been set to "UTF8".
apollo_db_1 | The default text search configuration will be set to "english".
apollo_db_1 |
apollo_db_1 | Data page checksums are disabled.
apollo_db_1 |
apollo_db_1 | fixing permissions on existing directory /var/lib/postgresql/data ... ok
apollo_db_1 | creating subdirectories ... ok
apollo_db_1 | selecting default max_connections ... 100
apollo_db_1 | selecting default shared_buffers ... 128MB
apollo_db_1 | selecting dynamic shared memory implementation ... posix
apollo_1 | Stopping tomcat with /usr/local/tomcat/
apollo_db_1 | creating configuration files ... ok
apollo_db_1 | running bootstrap script ... ok
apollo_1 | Jul 25, 2018 9:29:29 PM org.apache.catalina.startup.Catalina stopServer
apollo_1 | SEVERE: Could not contact [localhost:[8005]]. Tomcat may not be running.
apollo_1 | Jul 25, 2018 9:29:29 PM org.apache.catalina.startup.Catalina stopServer
apollo_1 | SEVERE: Catalina.stop:
apollo_1 | java.net.ConnectException: Connection refused (Connection refused)
apollo_1 | at java.net.PlainSocketImpl.socketConnect(Native Method)
apollo_1 | at java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:350)
apollo_1 | at java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:206)
apollo_1 | at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:188)
apollo_1 | at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392)
apollo_1 | at java.net.Socket.connect(Socket.java:589)
apollo_1 | at java.net.Socket.connect(Socket.java:538)
apollo_1 | at java.net.Socket.<init>(Socket.java:434)
apollo_1 | at java.net.Socket.<init>(Socket.java:211)
apollo_1 | at org.apache.catalina.startup.Catalina.stopServer(Catalina.java:497)
apollo_1 | at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
apollo_1 | at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
apollo_1 | at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
apollo_1 | at java.lang.reflect.Method.invoke(Method.java:498)
apollo_1 | at org.apache.catalina.startup.Bootstrap.stopServer(Bootstrap.java:406)
apollo_1 | at org.apache.catalina.startup.Bootstrap.main(Bootstrap.java:495)
apollo_1 |
apollo_1 | Starting tomcat with /usr/local/tomcat/
apollo_1 | Tomcat started.
apollo_db_1 | performing post-bootstrap initialization ... ok
apollo_db_1 | syncing data to disk ... ok
apollo_db_1 |
apollo_db_1 | WARNING: enabling "trust" authentication for local connections
apollo_db_1 | You can change this by editing pg_hba.conf or using the option -A, or
apollo_db_1 | --auth-local and --auth-host, the next time you run initdb.
apollo_db_1 |
apollo_db_1 | Success. You can now start the database server using:
apollo_db_1 |
apollo_db_1 | pg_ctl -D /var/lib/postgresql/data -l logfile start
apollo_db_1 |
apollo_db_1 | waiting for server to start....2018-07-25 21:29:31.478 UTC [38] LOG: listening on Unix socket "/var/run/postgresql/.s.PGSQL.5432"
apollo_db_1 | 2018-07-25 21:29:31.574 UTC [39] LOG: database system was shut down at 2018-07-25 21:29:30 UTC
apollo_db_1 | 2018-07-25 21:29:31.647 UTC [38] LOG: database system is ready to accept connections
apollo_db_1 | done
apollo_db_1 | server started
apollo_db_1 | ALTER ROLE
apollo_db_1 |
apollo_db_1 |
apollo_db_1 | /usr/local/bin/docker-entrypoint.sh: ignoring /docker-entrypoint-initdb.d/*
apollo_db_1 |
apollo_db_1 | waiting for server to shut down....2018-07-25 21:29:32.400 UTC [38] LOG: received fast shutdown request
apollo_db_1 | 2018-07-25 21:29:32.409 UTC [38] LOG: aborting any active transactions
apollo_db_1 | 2018-07-25 21:29:32.418 UTC [38] LOG: worker process: logical replication launcher (PID 45) exited with exit code 1
apollo_db_1 | 2018-07-25 21:29:32.420 UTC [40] LOG: shutting down
apollo_db_1 | 2018-07-25 21:29:32.535 UTC [38] LOG: database system is shut down
apollo_db_1 | done
apollo_db_1 | server stopped
apollo_db_1 |
apollo_db_1 | PostgreSQL init process complete; ready for start up.
apollo_db_1 |
apollo_db_1 | 2018-07-25 21:29:32.653 UTC [1] LOG: listening on IPv4 address "0.0.0.0", port 5432
apollo_db_1 | 2018-07-25 21:29:32.653 UTC [1] LOG: listening on IPv6 address "::", port 5432
apollo_db_1 | 2018-07-25 21:29:32.690 UTC [1] LOG: listening on Unix socket "/var/run/postgresql/.s.PGSQL.5432"
apollo_db_1 | 2018-07-25 21:29:32.757 UTC [56] LOG: database system was shut down at 2018-07-25 21:29:32 UTC
apollo_db_1 | 2018-07-25 21:29:32.784 UTC [1] LOG: database system is ready to accept connections
apollo_1 | 25-Jul-2018 21:29:33.501 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Server version: Apache Tomcat/8.5.32
apollo_1 | 25-Jul-2018 21:29:33.505 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Server built: Jun 20 2018 19:50:35 UTC
apollo_1 | 25-Jul-2018 21:29:33.505 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Server number: 8.5.32.0
apollo_1 | 25-Jul-2018 21:29:33.505 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log OS Name: Linux
apollo_1 | 25-Jul-2018 21:29:33.506 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log OS Version: 4.9.87-linuxkit-aufs
apollo_1 | 25-Jul-2018 21:29:33.507 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Architecture: amd64
apollo_1 | 25-Jul-2018 21:29:33.507 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Java Home: /usr/lib/jvm/java-8-openjdk-amd64/jre
apollo_1 | 25-Jul-2018 21:29:33.508 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log JVM Version: 1.8.0_171-8u171-b11-1~deb9u1-b11
apollo_1 | 25-Jul-2018 21:29:33.508 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log JVM Vendor: Oracle Corporation
apollo_1 | 25-Jul-2018 21:29:33.509 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log CATALINA_BASE: /usr/local/tomcat
apollo_1 | 25-Jul-2018 21:29:33.509 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log CATALINA_HOME: /usr/local/tomcat
apollo_1 | 25-Jul-2018 21:29:33.510 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Djava.util.logging.config.file=/usr/local/tomcat//conf/logging.properties
apollo_1 | 25-Jul-2018 21:29:33.511 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Djava.util.logging.manager=org.apache.juli.ClassLoaderLogManager
apollo_1 | 25-Jul-2018 21:29:33.511 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Djdk.tls.ephemeralDHKeySize=2048
apollo_1 | 25-Jul-2018 21:29:33.512 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Djava.protocol.handler.pkgs=org.apache.catalina.webresources
apollo_1 | 25-Jul-2018 21:29:33.512 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Dorg.apache.catalina.security.SecurityListener.UMASK=0027
apollo_1 | 25-Jul-2018 21:29:33.513 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Dignore.endorsed.dirs=
apollo_1 | 25-Jul-2018 21:29:33.513 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Dcatalina.base=/usr/local/tomcat/
apollo_1 | 25-Jul-2018 21:29:33.514 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Dcatalina.home=/usr/local/tomcat/
apollo_1 | 25-Jul-2018 21:29:33.515 INFO [main] org.apache.catalina.startup.VersionLoggerListener.log Command line argument: -Djava.io.tmpdir=/usr/local/tomcat//temp
apollo_1 | 25-Jul-2018 21:29:33.515 INFO [main] org.apache.catalina.core.AprLifecycleListener.lifecycleEvent Loaded APR based Apache Tomcat Native library [1.2.17] using APR version [1.5.2].
apollo_1 | 25-Jul-2018 21:29:33.516 INFO [main] org.apache.catalina.core.AprLifecycleListener.lifecycleEvent APR capabilities: IPv6 [true], sendfile [true], accept filters [false], random [true].
apollo_1 | 25-Jul-2018 21:29:33.516 INFO [main] org.apache.catalina.core.AprLifecycleListener.lifecycleEvent APR/OpenSSL configuration: useAprConnector [false], useOpenSSL [true]
apollo_1 | 25-Jul-2018 21:29:33.561 INFO [main] org.apache.catalina.core.AprLifecycleListener.initializeSSL OpenSSL successfully initialized [OpenSSL 1.1.0f 25 May 2017]
apollo_1 | 25-Jul-2018 21:29:34.115 INFO [main] org.apache.coyote.AbstractProtocol.init Initializing ProtocolHandler ["http-nio-8080"]
apollo_1 | 25-Jul-2018 21:29:34.243 INFO [main] org.apache.tomcat.util.net.NioSelectorPool.getSharedSelector Using a shared selector for servlet write/read
apollo_1 | 25-Jul-2018 21:29:34.281 INFO [main] org.apache.coyote.AbstractProtocol.init Initializing ProtocolHandler ["ajp-nio-8009"]
apollo_1 | 25-Jul-2018 21:29:34.283 INFO [main] org.apache.tomcat.util.net.NioSelectorPool.getSharedSelector Using a shared selector for servlet write/read
apollo_1 | 25-Jul-2018 21:29:34.286 INFO [main] org.apache.catalina.startup.Catalina.load Initialization processed in 3085 ms
apollo_1 | 25-Jul-2018 21:29:34.440 INFO [main] org.apache.catalina.core.StandardService.startInternal Starting service [Catalina]
apollo_1 | 25-Jul-2018 21:29:34.440 INFO [main] org.apache.catalina.core.StandardEngine.startInternal Starting Servlet Engine: Apache Tomcat/8.5.32
apollo_1 | 25-Jul-2018 21:29:34.566 INFO [localhost-startStop-1] org.apache.catalina.startup.HostConfig.deployWAR Deploying web application archive [/usr/local/tomcat/webapps/ROOT.war]
apollo_1 | 25-Jul-2018 21:30:02.932 INFO [localhost-startStop-1] org.apache.jasper.servlet.TldScanner.scanJars 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.
apollo_1 | log4j:WARN No appenders could be found for logger (org.codehaus.groovy.grails.commons.cfg.ConfigurationHelper).
apollo_1 | log4j:WARN Please initialize the log4j system properly.
apollo_1 | log4j:WARN See http://logging.apache.org/log4j/1.2/faq.html#noconfig for more info.
apollo_1 |
apollo_1 | Configuring Shiro ...
apollo_1 |
apollo_1 | Shiro Configured
apollo_1 | 25-Jul-2018 21:30:46.187 SEVERE [localhost-startStop-1] org.apache.tomcat.jdbc.pool.ConnectionPool.init Unable to create initial connections of pool.
apollo_1 | org.postgresql.util.PSQLException: Connection to 127.0.0.1:5432 refused. Check that the hostname and port are correct and that the postmaster is accepting TCP/IP connections.
apollo_1 | at org.postgresql.core.v3.ConnectionFactoryImpl.openConnectionImpl(ConnectionFactoryImpl.java:262)
apollo_1 | at org.postgresql.core.ConnectionFactory.openConnection(ConnectionFactory.java:52)
apollo_1 | at org.postgresql.jdbc.PgConnection.<init>(PgConnection.java:216)
apollo_1 | at org.postgresql.Driver.makeConnection(Driver.java:404)
apollo_1 | at org.postgresql.Driver.connect(Driver.java:272)
apollo_1 | at org.apache.tomcat.jdbc.pool.PooledConnection.connectUsingDriver(PooledConnection.java:278)
apollo_1 | at org.apache.tomcat.jdbc.pool.PooledConnection.connect(PooledConnection.java:182)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.createConnection(ConnectionPool.java:712)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.borrowConnection(ConnectionPool.java:646)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.init(ConnectionPool.java:468)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.<init>(ConnectionPool.java:145)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.pCreatePool(DataSourceProxy.java:116)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.createPool(DataSourceProxy.java:103)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.getConnection(DataSourceProxy.java:127)
apollo_1 | at org.springframework.jdbc.datasource.LazyConnectionDataSourceProxy.afterPropertiesSet(LazyConnectionDataSourceProxy.java:162)
apollo_1 | at org.springframework.jdbc.datasource.LazyConnectionDataSourceProxy.<init>(LazyConnectionDataSourceProxy.java:106)
apollo_1 | at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
apollo_1 | at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
apollo_1 | at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
apollo_1 | at java.lang.reflect.Constructor.newInstance(Constructor.java:423)
apollo_1 | at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:147)
apollo_1 | at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:122)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:267)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1137)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1040)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:504)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.resolveConstructorArguments(ConstructorResolver.java:648)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:140)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1137)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1040)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:504)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1475)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1220)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:537)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1475)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1220)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:537)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveManagedList(BeanDefinitionValueResolver.java:382)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:157)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.resolveConstructorArguments(ConstructorResolver.java:634)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:140)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1137)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1040)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:504)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:199)
apollo_1 | at org.codehaus.groovy.grails.orm.support.TransactionManagerPostProcessor.initialize(TransactionManagerPostProcessor.java:74)
apollo_1 | at org.codehaus.groovy.grails.orm.support.TransactionManagerPostProcessor.setBeanFactory(TransactionManagerPostProcessor.java:52)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.invokeAwareMethods(AbstractAutowireCapableBeanFactory.java:1591)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1559)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:539)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:199)
apollo_1 | at org.springframework.context.support.PostProcessorRegistrationDelegate.registerBeanPostProcessors(PostProcessorRegistrationDelegate.java:199)
apollo_1 | at org.springframework.context.support.AbstractApplicationContext.registerBeanPostProcessors(AbstractApplicationContext.java:616)
apollo_1 | at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:465)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.DefaultRuntimeSpringConfiguration.getApplicationContext(DefaultRuntimeSpringConfiguration.java:156)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.initializeContext(GrailsRuntimeConfigurator.java:188)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.configure(GrailsRuntimeConfigurator.java:168)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.configure(GrailsRuntimeConfigurator.java:127)
apollo_1 | at org.codehaus.groovy.grails.web.context.GrailsConfigUtils.configureWebApplicationContext(GrailsConfigUtils.java:126)
apollo_1 | at org.codehaus.groovy.grails.web.context.GrailsContextLoaderListener.initWebApplicationContext(GrailsContextLoaderListener.java:109)
apollo_1 | at org.springframework.web.context.ContextLoaderListener.contextInitialized(ContextLoaderListener.java:106)
apollo_1 | at org.apache.catalina.core.StandardContext.listenerStart(StandardContext.java:4792)
apollo_1 | at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5256)
apollo_1 | at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:150)
apollo_1 | at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:754)
apollo_1 | at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:730)
apollo_1 | at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:734)
apollo_1 | at org.apache.catalina.startup.HostConfig.deployWAR(HostConfig.java:985)
apollo_1 | at org.apache.catalina.startup.HostConfig$DeployWar.run(HostConfig.java:1857)
apollo_1 | at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
apollo_1 | at java.util.concurrent.FutureTask.run(FutureTask.java:266)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
apollo_1 | at java.lang.Thread.run(Thread.java:748)
apollo_1 | Caused by: java.net.ConnectException: Connection refused (Connection refused)
apollo_1 | at java.net.PlainSocketImpl.socketConnect(Native Method)
apollo_1 | at java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:350)
apollo_1 | at java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:206)
apollo_1 | at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:188)
apollo_1 | at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392)
apollo_1 | at java.net.Socket.connect(Socket.java:589)
apollo_1 | at org.postgresql.core.PGStream.<init>(PGStream.java:61)
apollo_1 | at org.postgresql.core.v3.ConnectionFactoryImpl.openConnectionImpl(ConnectionFactoryImpl.java:144)
apollo_1 | ... 109 more
apollo_1 |
apollo_1 | 25-Jul-2018 21:30:46.223 SEVERE [localhost-startStop-1] org.apache.tomcat.jdbc.pool.ConnectionPool.init Unable to create initial connections of pool.
apollo_1 | org.postgresql.util.PSQLException: Connection to 127.0.0.1:5432 refused. Check that the hostname and port are correct and that the postmaster is accepting TCP/IP connections.
apollo_1 | at org.postgresql.core.v3.ConnectionFactoryImpl.openConnectionImpl(ConnectionFactoryImpl.java:262)
apollo_1 | at org.postgresql.core.ConnectionFactory.openConnection(ConnectionFactory.java:52)
apollo_1 | at org.postgresql.jdbc.PgConnection.<init>(PgConnection.java:216)
apollo_1 | at org.postgresql.Driver.makeConnection(Driver.java:404)
apollo_1 | at org.postgresql.Driver.connect(Driver.java:272)
apollo_1 | at org.apache.tomcat.jdbc.pool.PooledConnection.connectUsingDriver(PooledConnection.java:278)
apollo_1 | at org.apache.tomcat.jdbc.pool.PooledConnection.connect(PooledConnection.java:182)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.createConnection(ConnectionPool.java:712)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.borrowConnection(ConnectionPool.java:646)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.init(ConnectionPool.java:468)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.<init>(ConnectionPool.java:145)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.pCreatePool(DataSourceProxy.java:116)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.createPool(DataSourceProxy.java:103)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.getConnection(DataSourceProxy.java:127)
apollo_1 | at org.springframework.jdbc.datasource.LazyConnectionDataSourceProxy.afterPropertiesSet(LazyConnectionDataSourceProxy.java:162)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.invokeInitMethods(AbstractAutowireCapableBeanFactory.java:1631)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1568)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:539)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.resolveConstructorArguments(ConstructorResolver.java:648)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:140)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1137)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1040)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:504)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1475)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1220)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:537)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1475)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1220)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:537)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveManagedList(BeanDefinitionValueResolver.java:382)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:157)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.resolveConstructorArguments(ConstructorResolver.java:634)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:140)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1137)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1040)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:504)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:199)
apollo_1 | at org.codehaus.groovy.grails.orm.support.TransactionManagerPostProcessor.initialize(TransactionManagerPostProcessor.java:74)
apollo_1 | at org.codehaus.groovy.grails.orm.support.TransactionManagerPostProcessor.setBeanFactory(TransactionManagerPostProcessor.java:52)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.invokeAwareMethods(AbstractAutowireCapableBeanFactory.java:1591)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1559)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:539)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:199)
apollo_1 | at org.springframework.context.support.PostProcessorRegistrationDelegate.registerBeanPostProcessors(PostProcessorRegistrationDelegate.java:199)
apollo_1 | at org.springframework.context.support.AbstractApplicationContext.registerBeanPostProcessors(AbstractApplicationContext.java:616)
apollo_1 | at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:465)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.DefaultRuntimeSpringConfiguration.getApplicationContext(DefaultRuntimeSpringConfiguration.java:156)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.initializeContext(GrailsRuntimeConfigurator.java:188)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.configure(GrailsRuntimeConfigurator.java:168)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.configure(GrailsRuntimeConfigurator.java:127)
apollo_1 | at org.codehaus.groovy.grails.web.context.GrailsConfigUtils.configureWebApplicationContext(GrailsConfigUtils.java:126)
apollo_1 | at org.codehaus.groovy.grails.web.context.GrailsContextLoaderListener.initWebApplicationContext(GrailsContextLoaderListener.java:109)
apollo_1 | at org.springframework.web.context.ContextLoaderListener.contextInitialized(ContextLoaderListener.java:106)
apollo_1 | at org.apache.catalina.core.StandardContext.listenerStart(StandardContext.java:4792)
apollo_1 | at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5256)
apollo_1 | at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:150)
apollo_1 | at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:754)
apollo_1 | at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:730)
apollo_1 | at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:734)
apollo_1 | at org.apache.catalina.startup.HostConfig.deployWAR(HostConfig.java:985)
apollo_1 | at org.apache.catalina.startup.HostConfig$DeployWar.run(HostConfig.java:1857)
apollo_1 | at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
apollo_1 | at java.util.concurrent.FutureTask.run(FutureTask.java:266)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
apollo_1 | at java.lang.Thread.run(Thread.java:748)
apollo_1 | Caused by: java.net.ConnectException: Connection refused (Connection refused)
apollo_1 | at java.net.PlainSocketImpl.socketConnect(Native Method)
apollo_1 | at java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:350)
apollo_1 | at java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:206)
apollo_1 | at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:188)
apollo_1 | at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392)
apollo_1 | at java.net.Socket.connect(Socket.java:589)
apollo_1 | at org.postgresql.core.PGStream.<init>(PGStream.java:61)
apollo_1 | at org.postgresql.core.v3.ConnectionFactoryImpl.openConnectionImpl(ConnectionFactoryImpl.java:144)
apollo_1 | ... 101 more
apollo_1 |
apollo_1 | 25-Jul-2018 21:30:47.890 SEVERE [localhost-startStop-1] org.apache.tomcat.jdbc.pool.ConnectionPool.init Unable to create initial connections of pool.
apollo_1 | org.postgresql.util.PSQLException: Connection to 127.0.0.1:5432 refused. Check that the hostname and port are correct and that the postmaster is accepting TCP/IP connections.
apollo_1 | at org.postgresql.core.v3.ConnectionFactoryImpl.openConnectionImpl(ConnectionFactoryImpl.java:262)
apollo_1 | at org.postgresql.core.ConnectionFactory.openConnection(ConnectionFactory.java:52)
apollo_1 | at org.postgresql.jdbc.PgConnection.<init>(PgConnection.java:216)
apollo_1 | at org.postgresql.Driver.makeConnection(Driver.java:404)
apollo_1 | at org.postgresql.Driver.connect(Driver.java:272)
apollo_1 | at org.apache.tomcat.jdbc.pool.PooledConnection.connectUsingDriver(PooledConnection.java:278)
apollo_1 | at org.apache.tomcat.jdbc.pool.PooledConnection.connect(PooledConnection.java:182)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.createConnection(ConnectionPool.java:712)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.borrowConnection(ConnectionPool.java:646)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.init(ConnectionPool.java:468)
apollo_1 | at org.apache.tomcat.jdbc.pool.ConnectionPool.<init>(ConnectionPool.java:145)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.pCreatePool(DataSourceProxy.java:116)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.createPool(DataSourceProxy.java:103)
apollo_1 | at org.apache.tomcat.jdbc.pool.DataSourceProxy.getConnection(DataSourceProxy.java:127)
apollo_1 | at org.springframework.jdbc.datasource.LazyConnectionDataSourceProxy$LazyConnectionInvocationHandler.getTargetConnection(LazyConnectionDataSourceProxy.java:403)
apollo_1 | at org.springframework.jdbc.datasource.LazyConnectionDataSourceProxy$LazyConnectionInvocationHandler.invoke(LazyConnectionDataSourceProxy.java:376)
apollo_1 | at com.sun.proxy.$Proxy44.getMetaData(Unknown Source)
apollo_1 | at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
apollo_1 | at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
apollo_1 | at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
apollo_1 | at java.lang.reflect.Method.invoke(Method.java:498)
apollo_1 | at org.springframework.jdbc.datasource.TransactionAwareDataSourceProxy$TransactionAwareInvocationHandler.invoke(TransactionAwareDataSourceProxy.java:240)
apollo_1 | at com.sun.proxy.$Proxy44.getMetaData(Unknown Source)
apollo_1 | at org.hibernate.engine.jdbc.internal.JdbcServicesImpl.configure(JdbcServicesImpl.java:126)
apollo_1 | at org.hibernate.boot.registry.internal.StandardServiceRegistryImpl.configureService(StandardServiceRegistryImpl.java:111)
apollo_1 | at org.hibernate.service.internal.AbstractServiceRegistryImpl.initializeService(AbstractServiceRegistryImpl.java:234)
apollo_1 | at org.hibernate.service.internal.AbstractServiceRegistryImpl.getService(AbstractServiceRegistryImpl.java:206)
apollo_1 | at org.hibernate.cfg.Configuration.buildTypeRegistrations(Configuration.java:1887)
apollo_1 | at org.hibernate.cfg.Configuration.buildSessionFactory(Configuration.java:1845)
apollo_1 | at org.codehaus.groovy.grails.orm.hibernate.cfg.GrailsAnnotationConfiguration.buildSessionFactory(GrailsAnnotationConfiguration.java:372)
apollo_1 | at org.codehaus.groovy.grails.orm.hibernate.ConfigurableLocalSessionFactoryBean.doBuildSessionFactory(ConfigurableLocalSessionFactoryBean.java:479)
apollo_1 | at org.codehaus.groovy.grails.orm.hibernate.ConfigurableLocalSessionFactoryBean.buildSessionFactory(ConfigurableLocalSessionFactoryBean.java:473)
apollo_1 | at org.codehaus.groovy.grails.orm.hibernate.ConfigurableLocalSessionFactoryBean.afterPropertiesSet(ConfigurableLocalSessionFactoryBean.java:387)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.invokeInitMethods(AbstractAutowireCapableBeanFactory.java:1631)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1568)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:539)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1475)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1220)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:537)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:194)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:351)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:108)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveManagedList(BeanDefinitionValueResolver.java:382)
apollo_1 | at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:157)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.resolveConstructorArguments(ConstructorResolver.java:634)
apollo_1 | at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:140)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1137)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1040)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:504)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:199)
apollo_1 | at org.codehaus.groovy.grails.orm.support.TransactionManagerPostProcessor.initialize(TransactionManagerPostProcessor.java:74)
apollo_1 | at org.codehaus.groovy.grails.orm.support.TransactionManagerPostProcessor.setBeanFactory(TransactionManagerPostProcessor.java:52)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.invokeAwareMethods(AbstractAutowireCapableBeanFactory.java:1591)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1559)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:539)
apollo_1 | at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:476)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:303)
apollo_1 | at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:230)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:299)
apollo_1 | at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:199)
apollo_1 | at org.springframework.context.support.PostProcessorRegistrationDelegate.registerBeanPostProcessors(PostProcessorRegistrationDelegate.java:199)
apollo_1 | at org.springframework.context.support.AbstractApplicationContext.registerBeanPostProcessors(AbstractApplicationContext.java:616)
apollo_1 | at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:465)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.DefaultRuntimeSpringConfiguration.getApplicationContext(DefaultRuntimeSpringConfiguration.java:156)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.initializeContext(GrailsRuntimeConfigurator.java:188)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.configure(GrailsRuntimeConfigurator.java:168)
apollo_1 | at org.codehaus.groovy.grails.commons.spring.GrailsRuntimeConfigurator.configure(GrailsRuntimeConfigurator.java:127)
apollo_1 | at org.codehaus.groovy.grails.web.context.GrailsConfigUtils.configureWebApplicationContext(GrailsConfigUtils.java:126)
apollo_1 | at org.codehaus.groovy.grails.web.context.GrailsContextLoaderListener.initWebApplicationContext(GrailsContextLoaderListener.java:109)
apollo_1 | at org.springframework.web.context.ContextLoaderListener.contextInitialized(ContextLoaderListener.java:106)
apollo_1 | at org.apache.catalina.core.StandardContext.listenerStart(StandardContext.java:4792)
apollo_1 | at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5256)
apollo_1 | at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:150)
apollo_1 | at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:754)
apollo_1 | at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:730)
apollo_1 | at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:734)
apollo_1 | at org.apache.catalina.startup.HostConfig.deployWAR(HostConfig.java:985)
apollo_1 | at org.apache.catalina.startup.HostConfig$DeployWar.run(HostConfig.java:1857)
apollo_1 | at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
apollo_1 | at java.util.concurrent.FutureTask.run(FutureTask.java:266)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
apollo_1 | at java.lang.Thread.run(Thread.java:748)
apollo_1 | Caused by: java.net.ConnectException: Connection refused (Connection refused)
apollo_1 | at java.net.PlainSocketImpl.socketConnect(Native Method)
apollo_1 | at java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:350)
apollo_1 | at java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:206)
apollo_1 | at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:188)
apollo_1 | at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392)
apollo_1 | at java.net.Socket.connect(Socket.java:589)
apollo_1 | at org.postgresql.core.PGStream.<init>(PGStream.java:61)
apollo_1 | at org.postgresql.core.v3.ConnectionFactoryImpl.openConnectionImpl(ConnectionFactoryImpl.java:144)
apollo_1 | ... 97 more
apollo_1 |
apollo_1 | 2018-07-25 21:30:47,946 [localhost-startStop-1] ERROR context.GrailsContextLoaderListener - Error initializing the application: Error creating bean with name 'transactionManagerPostProcessor': Initialization of bean failed; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManager': Cannot resolve reference to bean '$primaryTransactionManager' while setting constructor argument with key [0]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name '$primaryTransactionManager': Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManagerPostProcessor': Initialization of bean failed; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManager': Cannot resolve reference to bean '$primaryTransactionManager' while setting constructor argument with key [0]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name '$primaryTransactionManager': Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
apollo_1 | at java.util.concurrent.FutureTask.run(FutureTask.java:266)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
apollo_1 | at java.lang.Thread.run(Thread.java:748)
apollo_1 | Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManager': Cannot resolve reference to bean '$primaryTransactionManager' while setting constructor argument with key [0]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name '$primaryTransactionManager': Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | ... 5 more
apollo_1 | Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name '$primaryTransactionManager': Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | ... 5 more
apollo_1 | Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | ... 5 more
apollo_1 | Caused by: java.lang.NullPointerException
apollo_1 | ... 5 more
apollo_1 | 2018-07-25 21:30:47,950 [localhost-startStop-1] ERROR context.GrailsContextLoaderListener - Error initializing Grails: Error creating bean with name 'transactionManagerPostProcessor': Initialization of bean failed; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManager': Cannot resolve reference to bean '$primaryTransactionManager' while setting constructor argument with key [0]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name '$primaryTransactionManager': Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManagerPostProcessor': Initialization of bean failed; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManager': Cannot resolve reference to bean '$primaryTransactionManager' while setting constructor argument with key [0]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name '$primaryTransactionManager': Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
apollo_1 | at java.util.concurrent.FutureTask.run(FutureTask.java:266)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
apollo_1 | at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
apollo_1 | at java.lang.Thread.run(Thread.java:748)
apollo_1 | Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'transactionManager': Cannot resolve reference to bean '$primaryTransactionManager' while setting constructor argument with key [0]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name '$primaryTransactionManager': Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | ... 5 more
apollo_1 | Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name '$primaryTransactionManager': Cannot resolve reference to bean 'sessionFactory' while setting bean property 'sessionFactory'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | ... 5 more
apollo_1 | Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'sessionFactory': Invocation of init method failed; nested exception is java.lang.NullPointerException
apollo_1 | ... 5 more
apollo_1 | Caused by: java.lang.NullPointerException
apollo_1 | ... 5 more
apollo_1 | 25-Jul-2018 21:30:47.965 SEVERE [localhost-startStop-1] org.apache.catalina.core.StandardContext.startInternal One or more listeners failed to start. Full details will be found in the appropriate container log file
apollo_1 | 25-Jul-2018 21:30:48.040 SEVERE [localhost-startStop-1] org.apache.catalina.core.StandardContext.startInternal Context [] startup failed due to previous errors
apollo_1 | 25-Jul-2018 21:30:48.155 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesJdbc The web application [ROOT] registered the JDBC driver [org.postgresql.Driver] but failed to unregister it when the web application was stopped. To prevent a memory leak, the JDBC Driver has been forcibly unregistered.
apollo_1 | 25-Jul-2018 21:30:48.226 INFO [localhost-startStop-1] org.apache.catalina.startup.HostConfig.deployWAR Deployment of web application archive [/usr/local/tomcat/webapps/ROOT.war] has finished in [73,658] ms
apollo_1 | 25-Jul-2018 21:30:48.238 INFO [main] org.apache.coyote.AbstractProtocol.start Starting ProtocolHandler ["http-nio-8080"]
apollo_1 | 25-Jul-2018 21:30:48.349 INFO [main] org.apache.coyote.AbstractProtocol.start Starting ProtocolHandler ["ajp-nio-8009"]
apollo_1 | 25-Jul-2018 21:30:48.354 INFO [main] org.apache.catalina.startup.Catalina.start Server startup in 74067 ms
What did I miss?
Thank you in advance.
Michal
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Do you mean |
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Yes. It has everything baked in, and I've tested it already. |
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I still got some errors and I just wonder whether this is correct. Thank you in advance, Michal |
If those steps don't work, I can create a container without Chado, but this has worked in the past for me. My guess is that the older containers might be causing problems. |
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I clean up the volumes and started again docker with apollo but I got the same error. I do not know how can I remove from your docker image the database mount. |
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and then run:
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I am running this on a mac: |
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I followed your instructions and I get the same errors with docker -v What did I miss? |
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You ran all 4 of those instructions as typed and you still got: ? |
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Yes, I still get the same errors. Do you get them, too? |
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Nope. Are you running on a Mac?
Can you build and run locally or try it on another system?
Nathan
… On Jul 26, 2018, at 4:16 PM, Michał T. Lorenc ***@***.***> wrote:
Yes, I still get the same errors. Do you get them, too?
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Yes, I am using a Mac and I tried in on Centos 7. Both provide me with same error. |
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Okay. I’ll try running it on a few different machines. I may have defined something locally that I forgot about.
… On Jul 26, 2018, at 4:52 PM, Michał T. Lorenc ***@***.***> wrote:
Yes, I am using a Mac and I tried in on Centos 7. Both provide me with same error.
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Okay @mictadlo seeing the same error. Will try to get a fix. |
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@mictadlo If you do use apollo-only, you have to set the environmental variables accordingly, which means setting up an external postgresql server via docker-compose. https://github.com/GMOD/docker-apollo/blob/apollo-only/apollo-config.groovy I haven't tested it yet, but am still working on bringing up the default image. |
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Re-open if it doesn't fix it, though. |
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I'll retest the build as well |
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Hi Nathan, Did I miss anything? Thank you in advance, Michal |
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docker pull gmod/apollo
Or
docker pull gmod/apollo:latest
It should *hopefully* bring back the newest image.
Nathan
… On Jul 29, 2018, at 5:09 PM, Michał T. Lorenc ***@***.***> wrote:
Hi Nathan,
I ran the following commands and I still got the errors.
docker kill $(docker ps -q)
docker rm $(docker ps -a -q)
docker rmi $(docker images -q)
docker run -it -p 8888:8080 gmod/apollo:latest
Did I miss anything?
Thank you in advance,
Michal
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though, if you remove the local images, it should try to fetch the newest, so not sure what's up. I haven't tested with the remotely built images. |
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I tried those commands and still, I have the same errors: |
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Just ran this on a a new machine that didn't have docker installed on it before. Is that something you could try (or run it within virtualbox, etc.?). Here is my output (feel free to post all of yours here as well): ... |
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I'm confused your output has |
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@mictadlo Tomcat should be fixed (which was the prior problem). Its possible that chado is still not functioning properly, but I want to make sure this works for you, first. If, after running |
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Apollo starts at http://localhost:8888/, but what it is about the above errors. |
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I can fix the above errors later (I’ll issue another ticket) as I have other things to work on.
Just to confirm, this allows you to start moving forward with Docker and Apollo, or do you need Chado, as well?
Nathan
… On Jul 30, 2018, at 2:38 PM, Michał T. Lorenc ***@***.***> wrote:
Apollo starts at http://localhost:8888/ <http://localhost:8888/>, but what it is about the above errors.
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No, at the moment I do no need Chado. Will the above error effect Apollo? |
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It shouldn’t affect Apollo, but let me know if it does.
If you can add an organism and annotate it is working.
Nathan
… On Jul 30, 2018, at 3:18 PM, Michał T. Lorenc ***@***.***> wrote:
No, at the moment I do no need Chado. Will the above error effect Apollo?
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OK, When do you think you would have time to fix chado? |
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Oh, you do need Chado then?
Sure, I will take a look at it by the end of this week.
Nathan
… On Jul 30, 2018, at 4:29 PM, Michał T. Lorenc ***@***.***> wrote:
OK, When do you think you would have time to fix chado?
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@mictadlo I think that chado should be working now that I look at it more closely. The error that you are seeing is generated on the COMMENT line, but it still continues with the load:
And when I run this docker image it comes up indicating that it has a working chado database connected:
Let me know if a chado export doesn't work for you. Also, if you have could provide me some additional context of what you are trying to do either here or off-line, I might be better able to provide you with advice as there are a lot of folks that've done this integration. |
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Re-open if you need to. |
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Hi,
I set up docker-apollo inside a
docker-compose.ymlfile:While starting up I got the following Errors and Exceptions:
What did I miss?
Thank you in advance.
Michal
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