can you cc the list on these emails? Your command line should be:
recon-all -i <name of one slice in the right dicom series> -s <subject id> -all
cheers
Bruce
On Thu, 27 Sep 2012, pietro de rossi wrote:
the command line was
recon-all -autorecon1 -autorecon2 -subjid name_of_folder_with_dcm_files
then
recon-all -autorecon2 -autorecon3 -subjid name_of_folder_with_dcm_files
2012/9/27 Bruce Fischl <fischl@nmr.mgh.harvard.edu>
Hi Pietro
what was your recon-all command line? You need to specify
different subject identifiers (-s <subject identifier>) for the
different datasets
Bruce
On Thu, 27 Sep 2012, pietro de rossi wrote:
Hi Freesurfers,
I have another quintessentially beginner's problem....
I ran 5 scans through the entire pipeline (-autorecon1
-autorecon2 and
-autorecon2 -autorecon-3)
when I check the output going
tksurfer [name_of_folder_with_dcm_files] rh (or lh)
inflated
and then
tkmedit [name_of_folder_with_dcm_files] norm.mgz
-segmentation aseg.mgz
$FREESURFER_HOME/FreeSurferColorLUT.txt
the scans look all the same....it is like the last scan I
processed was
overwritten on the previous ones....does it make sense?
thank you very much,
Pietro
--
Pietro De Rossi, MD
-------------------------------------
Sapienza Universitą di Roma, Facoltą di Medicina e
Psicologia, Dipartimento
NESMOS (Neuroscienze, Salute Mentale, Organi di Senso),
Ospedale
Sant'Andrea, Via di Grottarossa 1035-1039, 00189 Roma
NESMOS Department (Neurosciences, Mental Health and
Sensory Functions),
School of Medicine and Psychology, Sapienza University,
Sant?Andrea Hospital,
Via di Grottarossa 1035-1039, 00189 Rome, Italy
Neurobehavioral Clinical Research Section, Social and Behavioral
Research
Branch, National Human Genome Research Institute (NHGRI),
National
Institutes of Health (NIH), Bethesda, Maryland 20892, USA
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Pietro De Rossi, MD
-------------------------------------
Sapienza Universitą di Roma, Facoltą di Medicina e Psicologia, Dipartimento
NESMOS (Neuroscienze, Salute Mentale, Organi di Senso), Ospedale
Sant'Andrea, Via di Grottarossa 1035-1039, 00189 Roma
NESMOS Department (Neurosciences, Mental Health and Sensory Functions),
School of Medicine and Psychology, Sapienza University, Sant?Andrea Hospital,
Via di Grottarossa 1035-1039, 00189 Rome, Italy
Neurobehavioral Clinical Research Section, Social and Behavioral Research
Branch, National Human Genome Research Institute (NHGRI), National
Institutes of Health (NIH), Bethesda, Maryland 20892, USA