Attention: : Confluence is not suitable for the storage of highly confidential data. Please ensure that any data classified as Highly Protected is stored using a more secure platform.
If you have any questions, please refer to the University's data classification guide or contact ict.askcyber@sydney.edu.au
General Neuroimaging Process
After understanding the general function of each system, you will need to understand how to use these systems for a neuroimaging project.
1. Download files from XNAT to RDS/Artemis
Raw image files (DICOM and NIfTI) of FRONTIER scans are currently indexed on XNAT. You will need to search and select the relevant scans and download them. You should not download them onto your local computer, please instead follow the instructions found in the XNAT guide for downloading.
2. Transferring data between RDS and Artemis (/scratch)
Scans need to be copied into /scratch for processing/analysis but Artemis is NOT to be used for long term storage (as it is not secure/backed up). For long term storage, files should be saved to RDS.
Transferring data between HPC and RDS using dtq.
This method can also be used to transfer files between 2 RDS projects.
3. Run processes on Artemis via job submission
You can submit jobs on Artemis (via terminal) for computing, processing and analysis. Data can also be visualised on Artemis using the graphical login node.
Visualising analysis using graphical login node.
4. Save data on RDS & delete files off Artemis.
After the project is completed, copy your files onto the RDS for long term storage and delete all files in Artemis to clear up space. You can delete files as you usually do on a computer (e.g. right-click the file and click delete/remove), or you can use the rm command on the command line.