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Error stack when executing admin.pl
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Ruth  
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 More options Jul 2, 1:11 pm
From: Ruth <ruth.isser...@utoronto.ca>
Date: Thu, 2 Jul 2009 10:11:38 -0700 (PDT)
Local: Thurs, Jul 2 2009 1:11 pm
Subject: Error stack when executing admin.pl
Hi,
When I run admin.pl I get the following stack, it executes fine but I
would like to fix the issue if possible.  Is there a setting that I
need to change to set the pathway commons log file or an environment
variable that I am missing?

Thanks,
Ruth

log4j:ERROR setFile(null,true) call failed.
java.io.FileNotFoundException: /srv/www/tomcat5/base/logs/pc_log.txt
(No such file or directory)
        at java.io.FileOutputStream.openAppend(Native Method)
        at java.io.FileOutputStream.<init>(FileOutputStream.java:177)
        at java.io.FileOutputStream.<init>(FileOutputStream.java:102)
        at org.apache.log4j.FileAppender.setFile(FileAppender.java:
272)
        at org.apache.log4j.FileAppender.activateOptions
(FileAppender.java:151)
        at org.apache.log4j.DailyRollingFileAppender.activateOptions
(DailyRollingFileAppender.java:206)
        at org.apache.log4j.config.PropertySetter.activate
(PropertySetter.java:247)
        at org.apache.log4j.config.PropertySetter.setProperties
(PropertySetter.java:123)
        at org.apache.log4j.config.PropertySetter.setProperties
(PropertySetter.java:87)
        at org.apache.log4j.PropertyConfigurator.parseAppender
(PropertyConfigurator.java:645)
        at org.apache.log4j.PropertyConfigurator.parseCategory
(PropertyConfigurator.java:603)
        at org.apache.log4j.PropertyConfigurator.configureRootCategory
(PropertyConfigurator.java:500)
        at org.apache.log4j.PropertyConfigurator.doConfigure
(PropertyConfigurator.java:406)
        at org.apache.log4j.PropertyConfigurator.doConfigure
(PropertyConfigurator.java:432)
        at org.apache.log4j.helpers.OptionConverter.selectAndConfigure
(OptionConverter.java:460)
        at org.apache.log4j.LogManager.<clinit>(LogManager.java:113)
        at org.apache.log4j.Logger.getLogger(Logger.java:85)
        at org.apache.commons.logging.impl.Log4JLogger.getLogger
(Log4JLogger.java:229)
        at org.apache.commons.logging.impl.Log4JLogger.<init>
(Log4JLogger.java:65)
        at sun.reflect.NativeConstructorAccessorImpl.newInstance0
(Native Method)
        at sun.reflect.NativeConstructorAccessorImpl.newInstance
(NativeConstructorAccessorImpl.java:39)
        at sun.reflect.DelegatingConstructorAccessorImpl.newInstance
(DelegatingConstructorAccessorImpl.java:27)
        at java.lang.reflect.Constructor.newInstance(Constructor.java:
513)
        at org.apache.commons.logging.impl.LogFactoryImpl.newInstance
(LogFactoryImpl.java:529)
        at org.apache.commons.logging.impl.LogFactoryImpl.getInstance
(LogFactoryImpl.java:235)
        at org.apache.commons.logging.LogFactory.getLog
(LogFactory.java:370)
        at net.sf.ehcache.CacheManager.<clinit>(CacheManager.java:93)
        at org.mskcc.pathdb.util.cache.EhCache.initCache(EhCache.java:
80)
        at org.mskcc.pathdb.tool.Admin.main(Admin.java:97)
log4j:ERROR Either File or DatePattern options are not set for
appender [A1].


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Ethan Cerami  
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 More options Jul 2, 3:10 pm
From: Ethan Cerami <cer...@cbio.mskcc.org>
Date: Thu, 02 Jul 2009 15:10:55 -0400
Local: Thurs, Jul 2 2009 3:10 pm
Subject: Re: Error stack when executing admin.pl
Ruth:

To fix this, you need to update build.properties:

log4j.file= XXX

Ethan

--
Ethan Cerami
Computational Biology Center
Memorial Sloan-Kettering Cancer Center
http://cbio.mskcc.org

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