[Loris-dev] A question re MRI tables

[Dave MacFarlane]

Hi Najmeh,
That might be possible to do for some projects, but there's a few small problems in a general case for LORIS:
1. The mri_protocol table that you're referring to is meant to enforce the acceptable protocol range for a study, not describe the existing data. This is a form of QC to ensure that scans which are far out of range don't get inserted.2. The mri_protocol table is used to identify the scan type for scans as they come in based on the header ranges. There would need to be a better way to identify what type of scan and link it to the scan_types table (you can already use the series description instead of the ranges in the mri_protocol table, but there's no standard for series descriptions so you still need to manually link the series description to the protocol type in LORIS) and3. New projects don't have scans to extract the header information from, because the scans haven't been acquired yet.
Having a script to automatically populate the mri_protocol table based on an existing DICOM data set would certainly be a useful for some projects, though, for people who aren't concerned about point 1.
- Dave
From: najmeh.khalilimahani at mcgill.ca
Date: Tue, 10 Nov 2015 09:49:50 -0500
To: loris-dev at bic.mni.mcgill.ca
Subject: [Loris-dev] A question re MRI tables

Hi,
If I understand correctly, before starting to load the MRI data via Image Uploader, one must manually populate tables with information about the acquisition times of different sequences (T1, T2, TR, etc.)
This is perhaps a naive question, but I wonder, might it be feasible for LORIS to have a PERL script that extracts those information from the DICOM or MINC headers and stores them without human intervention? Much thanksNaj
==================================Najmeh Khalili-Mahani, PhDResearch AssociateMcGill Centre for Integrative NeuroscienceMontreal Neurological InstituteMcGill University
NW-143, 3801 University St.Montreal, QC, H3A 2B4Office: 514-398-1799email: najma at bic.mni.mcgill.ca

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