External Email - Use Caution
Yes, the file ($SUBJECTS_DIR/fsaverage/surf/rh.white) exists and I can open it with freeview. The mri_surfcluster worked well in the past. However, I recently downloaded the fspalm and the mri_surfcluster attached for the fspalm. I do not know if it could interfere...??
I'm using Ubuntu 18.04 x86_64
El mié., 24 abr. 2019 a las 19:13, Greve, Douglas N.,Ph.D. (< DGREVE@mgh.harvard.edu>) escribió:
The "locale" error is probably not a problem. Does */media/Data/PEH/NEW_FS_analysis/fsaverage/surf/rh.white exist? What operating system are you using?*
On 4/24/2019 6:41 AM, Javier Navas wrote:
External Email - Use CautionDear freesurfer experts,
I want to create an annot from the output of PALM, the vertexwise file corrected by TFCE-FWEp. The values of this files are in 'p-values'.
However, the mri_surfcluster has some problems: it could not recognize the fsaverage and it shows a problem with the 'locale' also. I have permissions of 'write' and 'read' in the fsaverage folder. I use the last dev version,but also it occurs with the stable version of FS 6.0.
I send you the command, with the outputs and the errors.
*>$ mri_surfcluster --in ./PALM_results/rh_thickness_n34_10000_PALM_tfce_tstat_fwep.mgz --thmin 0.99 --hemi rh --subject fsaverage --sign pos --surf white --oannot /media/Data/PEH/NEW_FS_analysis/PALM_results/rh_thickness_n34_10000_PALM_tfce_tstat_fwep.annot* *Could not set locale* *No such file or directory* *Could not set locale* *thsign = pos, id = 1* *version $Id: mri_surfcluster.c,v 1.60 2016/11/01 19:49:22 greve Exp $* *hemi = rh* *srcid = ./PALM_results/rh_thickness_n34_10000_PALM_tfce_tstat_fwep.mgz* *srcsubjid = fsaverage* *srcsurf = white* *srcframe = 0* *thsign = pos* *thmin = 0.99* *thmax = -1* *fdr = -1* *minarea = 0* *xfmfile = talairach.xfm* *nth = -1* *subjectsdir = /media/Data/PEH/NEW_FS_analysis* *FixMNI = 1* *------------- XFM matrix (RAS2RAS) ---------------* */media/Data/PEH/NEW_FS_analysis/fsaverage/mri/transforms/talairach.xfm*
- 1.00000 0.00000 0.00000 0.00000;*
- 0.00000 1.00000 0.00000 0.00000;*
- 0.00000 0.00000 1.00000 0.00000;*
- 0.00000 0.00000 0.00000 1.00000;*
*----------------------------------------------------* *Reading source surface /media/Data/PEH/NEW_FS_analysis/fsaverage/surf/rh.white* *MRISread(): could not open file* *No such file or directory* *mri_surfcluster: could not read surface /media/Data/PEH/NEW_FS_analysis/fsaverage/surf/rh.white* *No such file or directory*
*>$ more error.log* *Could not set locale* *MRISread(): could not open file*
Thank you in advance
/**********************************************************\ Francisco Javier Navas Sánchez Laboratorio de Imagen Médica U.M.C.E. Hospital General Universitario Gregorio Marañón Dr Esquerdo 46, 28007 Madrid, Spain Phone : (+34) 91 426 50 67 Fax: (+34) 91 426 5108 e-mail:jnavas@hggm.es http://image.hggm.es
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