hi Qingyang,
you can simply copy and paste the command line into the shell.
cheers,
satra
On Mon, Mar 26, 2012 at 3:12 PM, Douglas N Greve greve@nmr.mgh.harvard.eduwrote:
Can you run it outside of the pipeline to assure that it is not a pipeline issue? doug
On 03/18/2012 08:54 AM, Qingyang Li wrote:
Hi all, I am new to the freesurfer world. I was running a pipeline where I met an error. Here is the command I run and the error message:
Command: mri_vol2surf --hemi lh --noreshape --o/working_dir/SurfaceRegistration/_subject_id_sub/func_sampler_lh/mapflow/_func_sampler_lh4/lh.rest_mc.mgz
--reg/working_dir/SurfaceRegistration/_subject_id_sub/func_bbreg/mapflow/_func_bbreg4/rest_mc_bbreg_sub.dat
--projfrac 0.500 --mov/working_dir/SurfaceRegistration/_subject_id_sub/func_volreg/mapflow/_func_volreg4/rest_mc.nii.gz
Standard output: srcvol =/working_dir/SurfaceRegistration/_subject_id_sub/func_volreg/mapflow/_func_volreg4/rest_mc.nii.gz
srcreg =/working_dir/SurfaceRegistration/_subject_id_sub/func_bbreg/mapflow/_func_bbreg4/rest_mc_bbreg_sub.dat
srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.5 thickness = thickness reshape = 0 interp = nearest float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Reading surface /NKI_recon_subjects/sub/surf/lh.white Done reading source surface Reading thickness /NKI_recon_subjects/sub/surf/lh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.5 0.5 0.5 using old Done mapping volume to surface Standard error: Segmentation fault Return code: 139 Interface SampleToSurface failed to run.Thank you all in advance!
Yang
Qingyang Li
Balance and focus.
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