why is there a \ in your command line? On Fri, 17 Jul 2009, Rosa Steimke wrote:
Hi freesurfer experts, I have a problem using the mris_anatomical_stats command to generate stats for a region of interest that i drew in qdec. It gives me the following error:
[admins-imac:~/Rosa_MRTs] steimke% mris_anatomical_stats -l rh.FUSIFORM.label \ -t rh.thickness -b -f 1/stats/rh.FUSIFORM.label 1 rh limiting computations to label rh.FUSIFORM.label.
Flagged-options must go first in argument list.
usage: mris_anatomical_stats [options] <subject name> <hemi> [<surface name>]
This program measures a variety of anatomical properties.
Valid options are:
-i <low thresh> <hi thresh> - only consider thicknesses in the specified range -l <.label file> - limit calculations to specified label -t <thickness file> - use specified file for computing thickness statistics -a <.annot file> - compute properties for each label in the annotation file separately -b - tabular output -f <tablefile> - table output to a file named tablefile (different format than -b) must specify an annotation file with -a or label file with -l -log <log> - will write the stats into a file named <log> -nsmooth <#> - will smooth the thicknessmap # of iterations before using it -c <.ctab file> - output the colortable for this annotation [admins-imac:~/Rosa_MRTs] steimke% mris_anatomical_stats -l rh.FUSIFORM.label \ -t rh.thickness -b -f 1/stats/rh.FUSIFORM.label 1 rh
do you know what i did wrong? thanks in advance! rosa