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BenaroyaResearch / gxbrowser

BRI Gene Browser for integrating Microarray, RNA-seq data, expression data with demographic and clinical information
Apache License 2.0
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Troubleshooting startup #6

Closed AngermannBR closed 7 years ago

AngermannBR commented 7 years ago

Hi,

could you provide some pointers troubleshooting the installation process? I've been able to build the application, but upon startup tomcat produces the error message SEVERE: Error listenerStart (full log attached).

I've tried adding the following logging.properties to dm3-1.70.war/WEB-INF/classes org.apache.catalina.core.ContainerBase.[Catalina].level = INFO org.apache.catalina.core.ContainerBase.[Catalina].handlers = java.util.logging.ConsoleHandler but that does not produce any additional output.

What might cause this issue, is there any way to produce more verbose output? Can I expect failures to connect with MongoDB or MySQL to be logged as such, or would these result in the error I am experiencing?

Thanks a lot, Bastian error.txt

AngermannBR commented 7 years ago

To answer my own question:

More detailed logging can be enabled by adding a file named logging.properties to dm3-1.70.war/WEB-INF/classes the content of the file should be:

handlers = org.apache.juli.FileHandler, java.util.logging.ConsoleHandler

org.apache.juli.FileHandler.level = FINE
org.apache.juli.FileHandler.directory = /var/log
org.apache.juli.FileHandler.prefix = myapp-tomcat.

java.util.logging.ConsoleHandler.level = FINE
java.util.logging.ConsoleHandler.formatter = java.util.logging.SimpleFormatter

If the application cannot connect to MySQL or MongoDB an uncaught exception will lead to the behavior I described earlier.

Best regards, Bastian