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CfN XNAT
XNAT is an open-source imaging informatics software platform dedicated to helping with imaging-based research. XNAT’s core functions manage importing, archiving, processing and securely distributing imaging and related study data.
CfN manages an XNAT server that is connected to the CfN cluster. The server URL:
http://picsl-xnat.uphs.upenn.edu/
Browser JAVA Requirements
Your browser must have JAVA enabled to work with the xnat service.
Documentation
Data Access outside of XNAT
The XNAT data archive is stored on the /data/tesla-data volume, and is directly accessible with read-only permissions on the cluster at /data/XNAT. This allows direct processing from the cluster of data stored within XNAT.
Individual project directories readable only by members of the project's owning research group.
Pipelines
XNAT can also be setup to run 'pipelines', which are collections of scripts and processing steps that can be launched and monitored from the XNAT web interface.
Accounts
User logins are separate from CfN cluster logins. Please connect the admins for more information.
Uploading Data
To manually upload data, use the XNAT Upload Assistant. This program runs on your local machine.
For the Upload Assistant setup:
server: http://picsl-xnat.uphs.upenn.edu
username: your XNAT username (probably the same as you cluster username, but may not be)
password: you XNAT password
