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All data is now stored on the CCBB file server, files.ccbb.utexas.edu. This should make it easier for us manage user accounts, and data. Also, it will be easier to keep that data backed up. From the user perspective, you can continue to just use phylocluster to access your files. However, the file server provides "drag and drop" access to your files. For more information, see the file server web page. If you didn't already have access to files.ccbb.utexas.edu , you will need to come to PAT 141 for an account. People who used phylofiles.ccbb.utexas.edu for this "drag and drop" access to the cluster will likewise need to come get a new account.
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Also, more and more applications are being ported to the modules infrastructure. Modules make the use of applications more transparent, and allows us to keep several versions of a given package active. For more information about using software modules, please refer to the module home page.