what slice order was the data created with? Find out and then use that
slice order in the command
On 8/26/15 4:14 AM, std...@virgilio.it wrote:
Hi list,
I'm performing slice time correction on preproc-sess -s Sess201 -fwhm
5 -surface fsaverage lhrh -mni305-1mm -fsd rest -per-run.
I have acquired data using a Philipps scanner (interleaved). Thefore,
shuold I use "-sliceorder siemens"?
The command line:
preproc-sess -s Sess201 -fwhm 5 -surface fsaverage lhrh -mni305-1mm
-fsd rest -per-run -sliceorder siemens
produces the files reported below.
fmcstc files are lacking. Please, give me an help.
Thanks,
Stefano
file:///Applications/freesurfer/subjects/Sess201/rest/001/f.nii
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.mat.aff12.1D
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.mcdat
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.nii.gz.mclog
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.siemens.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.siemens.nii.gz.log
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.siemens.sm5.fsaverage.lh.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.siemens.sm5.fsaverage.rh.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.siemens.sm5.mni305.1mm.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.sm5.fsaverage.lh.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.sm5.fsaverage.rh.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/fmcpr.sm5.mni305.1mm.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/global.meanval.dat
file:///Applications/freesurfer/subjects/Sess201/rest/001/global.waveform.dat
file:///Applications/freesurfer/subjects/Sess201/rest/001/init.register.dof6.dat
file:///Applications/freesurfer/subjects/Sess201/rest/001/masks/
file:///Applications/freesurfer/subjects/Sess201/rest/001/mcdat2extreg.log
file:///Applications/freesurfer/subjects/Sess201/rest/001/mcprextreg
file:///Applications/freesurfer/subjects/Sess201/rest/001/register.dof6.dat
file:///Applications/freesurfer/subjects/Sess201/rest/001/register.dof6.dat.log
file:///Applications/freesurfer/subjects/Sess201/rest/001/register.dof6.dat.mincost
file:///Applications/freesurfer/subjects/Sess201/rest/001/register.dof6.dat.param
file:///Applications/freesurfer/subjects/Sess201/rest/001/register.dof6.dat.sum
file:///Applications/freesurfer/subjects/Sess201/rest/001/template.log
file:///Applications/freesurfer/subjects/Sess201/rest/001/template.nii.gz
file:///Applications/freesurfer/subjects/Sess201/rest/001/tmp.mc-afni2.6432/
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