Hi Corinna,
the 001.mgz is the first file created in the cross sectional stream
(when you import your dicom) it is the input image to the stream and
just the dicom converted into mgz format. If it is corrupted, you should
rerun this cross sectional time point (just to be safe), the base and
the all the long runs.
Best, Martin
On 04/28/2014 09:31 AM, Corinna Bauer wrote:
Hi Martin,
Neither freeview nor tkmedit could open the 001.mgz file. It could not
read 262144 bytes at slice 4. At this point is my best option to
re-run this time point from the beginning?
Corinna
On Mon, Apr 28, 2014 at 9:18 AM, Martin Reuter
<mreu...@nmr.mgh.harvard.edu <mailto:mreu...@nmr.mgh.harvard.edu>> wrote:
Hi Corinna,
try to open
/home/Documents/longitudinal_morph/meta/test_subject_2ndpostop/mri/orig/001.mgz
in freeview to see if maybe the file is corrupted.
Best, Martin
On 04/25/2014 03:46 PM, Corinna Bauer wrote:
Hello,
I am on the recon-all -long step of the longitudinal processing
stream and the final time point exits with errors at the
mri_convert stage.
mri_convert -at
/home/Documents/longitudinal_morph/meta/test_subject_template/mri/transforms/test_subject_2ndpostop_to_test_subject_template.lta
-odt uchar -rt cubic
/home/Documents/longitudinal_morph/meta/test_subject_2ndpostop/mri/orig/001.mgz
/home/Documents/longitudinal_morph/meta/test_subject_2ndpostop.long.test_subject_template/mri/orig.mgz
mghRead(/home/Documents/longitudinal_morph/meta/test_subject_2ndpostop/mri/orig/001.mgz):
could not read 262144 bytes at slice 4
I still have plenty of space left on the drive
total used free shared buffers cached
Mem: 16348132 14856524 1491608 0 534916
6193928
-/+ buffers/cache: 8127680 8220452
Swap: 16690172 573232 16116940
Any suggestions? The two previous timepoints finished without error.
Corinna
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Martin Reuter, Ph.D.
Instructor in Neurology
Harvard Medical School
Assistant in Neuroscience
Dept. of Radiology, Massachusetts General Hospital
Dept. of Neurology, Massachusetts General Hospital
Research Affiliate
Computer Science and Artificial Intelligence Lab,
Dept. of Electrical Engineering and Computer Science,
Massachusetts Institute of Technology
A.A.Martinos Center for Biomedical Imaging
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--
Martin Reuter, Ph.D.
Instructor in Neurology
Harvard Medical School
Assistant in Neuroscience
Dept. of Radiology, Massachusetts General Hospital
Dept. of Neurology, Massachusetts General Hospital
Research Affiliate
Computer Science and Artificial Intelligence Lab,
Dept. of Electrical Engineering and Computer Science,
Massachusetts Institute of Technology
A.A.Martinos Center for Biomedical Imaging
149 Thirteenth Street, Suite 2301
Charlestown, MA 02129
Phone: +1-617-724-5652
Email:
mreu...@nmr.mgh.harvard.edu
reu...@mit.edu
Web : http://reuter.mit.edu
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