Project setup - what's best for source code versioning?

We're about to start developing a new portal and are wondering what would be the best directory structure. It's important to decide at the beginning because we're using CVS version management for our source code (we are currently using it for our ADF development).
Are there any issues related to directory/package structure? With ADF, we had problems when we wanted jsps from one application to call those in another application. To get around that, we had to put all of our applications within the same jdeveloper "project".
I'm keen to hear any suggestions - especially if you work in a multi-application environment with concurrent development etc.
thanks,
M

Since I don't have a Canon, I don't know the specifics of how to ingest media for that camera. But FCE does have the ability to log & transfer AVCHD, as I have done this with a Sony HandiCam and my Lumix GH-1.
The codec that FCE transcoded to, was AIC, Apple Intermediate Codec. FCE is 'fine' if you are not using 24p frame rates, as there are no 24p sequence options. (You can use 24p in a 25p timeline... but broadcast engineers will gnash their teeth on such botchery.)
This may or may not be an issue.
On the 'problem' of 'wyrd things happen when I whip pan my camera'... well, yeah... There are some industry standards about how fast objects should move across the field of view to avoid artifacts.
The "whip pan", namely quickly pivoting the camera, will produce strange imaging. While the technology and image formation is different, so the artifacts are different, but even for 'film film' there are limits.
One rule thumb I've run across is an object should take at least 5 seconds from one side of the screen to the other. Faster will result in artifacts, strobing, or in the case of digital cameras, 'rolling shutter' issues.
The motto of the day is... "Know thy camera"...
There may be filters to minimize or save the day if needed, but it is just better to shoot correctly in the first place...

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