Data retrieval and preparation
From the UNF web interface
The easiest and most practical way to retrieve data acquired at the Unité de Neuroimagerie Fonctionnelle (UNF) is to use the platform available at the UNF website. This platform takes care of all that is necessary to prepare and reconstruct the images from the scanner into a downloadable Dicom format. All UNF scans are archived in two copies, one copy on the web server where you can retrieve your images, and a copy on our archiving system. The scans are archived and accessible ad vitam æternam. It is therefore not necessary for you to make extra copies of your scans.
. You can access the site either from the website of the Neuroimaging unit (Menu
MRI Data Download), or directly from the download platform of the unit
- Before you can download the data, you need to reconstruct them into Dicom format. To do so, go to the UNF data download website https://unf-montreal.ca
- Enter your UNF user ID and password
- Select the data you want to download and click on
Build images(keep the default option
tar.gzfor image compression type. TOAD will only work with this type)
- Give a name to the dataset to be downloaded (in our example,
unf-data), and click on
Data will be ready for download after a few moments. Do not close your browser window; we will come back to it later.
In the meantime, open a terminal window and connect to one of the UNF servers (Magma or Stark) via ssh.
# Replace 'username' by your user ID at the UNF ssh -Y email@example.com
The server will ask for your login information
Once connected, navigate to your data directory:
# Replace `labname` by the name of the lab/group you belong to # Replace `username` by your user ID at the UNF cd /data/labname/username/
If necessary, create a new folder for your project and go to this directory:
# Replace 'project_name' by the name of the folder your are naming mkdir project_name # To go to the new folder cd project_name
Download the data prepared by the UNF platform:
- Go back to the browser window where you are downloading your data.
- If your data is ready for download (after clicking the
build imagesbutton), you will see a link (in blue) with the name you had specified earlier (
unf-data.tar.gzin our example) under the section
Ready to download, located on the left corner of the window. The link will be available for 7 days. Copy the link address by right-clicking on the link->
Copy link location, in our example, it would be
- Go back to the previous terminal with the ssh session, and type the command
wget, followed by pasting the link address:
# Type wget, followed by space, then right-click, choose `Paste`, or control-shift-v wget http://downloads.criugm.qc.ca/username/unf-data.tar.gz