Base URL Differences between eclipse and tomcat

Hello friends. I'm sure that I am missing something basic, so please forgive my ignorance.
I have several classes that work fine when run through main calls / test scripts in Eclipse. However, when I deploy the application to Tomcat, I see strange behavior in regards to interactions with files on the operating system.
My logging component (log4j) wants to spit log files out to Tomcat 5.5/bin instead of to the base project directory in Eclipse. I guess I would have expected the logger to write out to webapps/myApplcationName.
When loading other files from the OS (castor mapping files) I get a FileNotFoundException when I run the process in Tomcat. In this case, it would seem that it wants to load directly from c:\, again instead of from webapps/myApplicationName/whateverFolder.
Is there any chance this is a classloader based issue?
Can anyone help? Thanks
-cm

It is probably a 'working directory' issue. If you don't specify a directory to work with, most of the time Java will start from the directory that the app was launched from.
Since Tomcat would be launched via a batch or exe in the Tomcat/bin directory, then that is where you start from there. But Eclipse sets the project directory as the working directory for input/output....
Anyway, to get around it you should make sure you are getting files from/in the servlet context:
For example, using:
getServletContext().getRealPath(...);
I would presume that Log4J has its own mechanism for defining paths for the log files. I am not particularly sure how, but you could here for more details:
<http://jakarta.apache.org/tomcat/tomcat-5.5-doc/logging.html>

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