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I finally updated the collaboration server to 1.1. In the past, we deployed the collaboration server as a folder: http://server:8080/lca-collaboration. After the update and signing into the server, it appeared that tomcat was trying to serve all of the images/js, etc. out of root (e.g., the url for an image be "images/image.gif" instead of "lca-collaboration/images/image.gif").

Admittedly, it's been a long time since I went through the initial installation, so I might have missed a step while deploying this. Were there any changes to the war that would force the server to treat the root as the base for all files?

My workaround right now is to just have the server deployed as root - so the collaboration server is at http://server:8080.
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You are right, you need to update the <base href="/"/> tag in the head of each of the html files (index, login, imprint and I think maintenance - not sure if the last one was already included in v 1.1).

In your case replace it with <base href="/lca-collaboration/"/>