when you run mris_ca_train use -t <color table name> and it will embed it in the .gcs file
On Tue, 11 Apr 2017, Das S. wrote: > Hi, > I have created a color table, an annot file and a .gcs file( attached with > the mail). > But when I am trying to execute mris_ca_label with my own .gcs file I am > getting the error : > > mris_ca_label -l 100307/label/lh.cortex.label -aseg > 100307/mri/aseg.presurf.mgz 100307 lh lh.sphere.reg > 100307/label/lh.eq40aparc.gcs lh.aparc.annot > using 100307/mri/aseg.presurf.mgz aseg volume to correct midline > $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ > $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ > reading atlas from 100307/label/lh.eq40aparc.gcs... > average std = 0.2 using min determinant for regularization = 0.001 > 0 singular and 185 ill-conditioned covariance matrices regularized > input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature > labeling surface... > CTABfindAnnotation: ct was NULL > No such file or directory > CTABfindAnnotation: ct was NULL > No such file or directory > CTABfindAnnotation: ct was NULL > No such file or directory > > ..... > > Before this I have used the below commands, to sucessfully create the .annot > and .gcs file: > 1. To create .annot file from label files and CTAB file-- > mris_label2annot --s 100307 --h lh --no-unknown --ctab > 100307/label/eq_parcellation_label/MyColorLUT.txt --a eq40aparc --ldir > 100307/label/eq_parcellation_label > > 2. To crate .gcs file from annot file. > mris_ca_train rh 100307/surf/rh.sphere 100307/label/rh.eq40aparc.annot 100307 > 100307/label/rh.eq40aparc.gcs > > I am not be able to understand where is the problem. > Any help will be appreciated. > Thanks > Sarbani > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
