Slicer3:XND
Contents
- 1 Example: Uploading data (non-dicom) to central.xnat.org using XNAT Desktop
- 1.1 Manage files to upload
- 1.2 Select tags for local data
- 1.3 Tag files to upload
- 1.4 Switch to tag view and check data description
- 1.5 Create a project on the hosted repository
- 1.6 New project on hosted repository should correspond to local data description
- 1.7 Create a subject for each subject in the data to be uploaded
- 1.8 New subjects should correspond to local data description
- 1.9 Upload files to the hosted repository
- 1.10 Check progress in the XND console
- 1.11 Check hosted repository for upload results
- 1.12 Removing tags from data managed by XND
- 1.13 More Questions
Example: Uploading data (non-dicom) to central.xnat.org using XNAT Desktop
Manage files to upload
Select the Add managed directory icon, or choose Repository->Add dir
Select tags for local data
Tag files to upload
Select datasets to be described, and quickly add tags that apply to all selected datasets through the Set Default tags option.
Or select individual datasets to be described, and add appropriate tags to each through the Set tag option. Note, in this example, the Experiment tag for each subject 01030 and 01053 are unique: Normal_Subjects_01030 and Normal_Subjects_01053, respectively.
Switch to tag view and check data description
Create a project on the hosted repository
In this example, the hosted respository is http://central.xnat.org
New project on hosted repository should correspond to local data description
Create a subject for each subject in the data to be uploaded
New subjects should correspond to local data description
Adding subject 01030.
Project display after adding two subjects.
Upload files to the hosted repository
The current release version of XNAT Desktop actually can only upload one experiment at a time. Using this version, to upload each experiment, select it in the tag view hierarchy and use the upload tool as shown below.
A new version of XNAT Desktop to be released soon supports uploading multiple experiments, and has also a number of important upload bug fixes.
Check progress in the XND console
Check hosted repository for upload results
Removing tags from data managed by XND
More Questions
Friday I tried to add more data to the existing project. The upload failed with a StoreXAR complaint about the user session. The DTI and DWI data files I was trying to add to the project were quite large (~250MB). Monday AM I resumed the attempt, trying to add just one DTI file. I received an "Invalid Subject" from StoreXAR. Double-checked my tags, found no bug, and tried again. Got the same error.
Next I tried to just re-upload the same files (T1 and T2) that I successfully uploaded friday, using the same description. I again received an "Invalid Subject" error.
Next I deleted the whole project on central.xnat.org, created a new one, and tried to upload new data with new subject and project tags. I am still receiving an "invalid subject" error from StoreXAR. hmmm. So, I'm back to square zero :) Below are screenshots of:
- My project on central.xnat.org showing Subject IDs.
- The project details (Showing the "Project Abbreviation"
- The tag view of the experiment I'm trying to upload
- And the console report.