tpef question - Freesurfer

27 Jan 2011


      Hi Doug,
I have a number of runs with some bad k-space arcing artifacts that I still would like to analyse. Now spikedet-sess makes childs play to turn the detected spikes into a timepoint exclusion file. But when I try to use this file with fs-fast (from freesurfer v4.5 x86_64) I get errors from fast_selxavg3.m (see below). Do you have any idea how I can use tpefs for fs-fast analysis again (it worked in 3.0.5). Also will this work in V5 (a very compelling reason to upgrade :))?
Thanks in advance
    Sebastian
Here is the output when I tried to exclude 87 of 272 timepoints  (when trying to exclude 11 timepoints I get the same result)
outanadir = /home/helios/data/moeller/cooked/2011/110105Bert/bold/a1
Found 162817/497664 (32.7) voxels in mask
Creating Design Matrix
Excluding 87 points
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
Warning: Matrix is close to singular or badly scaled.
         Results may be inaccurate. RCOND = 1.665831e-43.
...
In fast_selxavg3 at 212
-- 
Sebastian Moeller

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moeller@caltech.edu

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