Hi Ahearn,
the base needs a few files from all cross time points for processing. An
individual -long run needs files from the base and from *all* cross
time points. What is needed and how the stream works is described on the
wiki although that may not be complete, especially in situations with
edits. Usually though, files are passed on the command line and not
opened implicitly (at least not from a different subject/timepoint).
Your list below is not complete, I am certain transforms (talairach and
transforms across the base and time points) are needed. Also it is
unclear if below you talk about the first case (to run a base with data
from all cross) or the second case (to run a long with data from base
and all cross).
Why not run a bunch of subjects all the way through, then move them off
the computer and run a bunch of other subjects rather than having
partial data (which also makes things very hard to replicate if anything
goes wrong)?
Best, Martin
On 03/04/2016 07:09 AM, Ahearn, T wrote:
Hello,
I need to process a good few thousand T1 images on a machine that I
can’t store all the data on. I’d like to transfer as few files as
possible to the processing machine so that I can perform longitudinal
processing. I have successfully longitudinally processed some patients
with a sub set of their data but others seem to hang (the template
looks ok) during mri_ca_label. Is there a list of the minimum files
that I’d need to perform longitudinal processing? The files I’ve had
some success with are below:
/mri/orig/001.mgz
/mri/norm.mgz
/mri/wm.mgz
/mri/aseg.auto_noCCseg.mgz
/mri/rawavg.mgz
/mri/orig.mgz
/mri/brainmask.mgz
/mri/aseg.mgz
Thanks
Trev
Dr. Trevor Ahearn
Principal Physicist (MRI)
NHS Grampian
The University of Aberdeen is a charity registered in Scotland, No
SC013683.
Tha Oilthigh Obar Dheathain na charthannas clàraichte ann an Alba,
Àir. SC013683.
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Martin Reuter, PhD
Assistant Professor of Radiology, Harvard Medical School
Assistant Professor of Neurology, Harvard Medical School
A.A.Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Research Affiliate, CSAIL, MIT
Phone: +1-617-724-5652
Web : http://reuter.mit.edu
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