[FieldTrip] Poblem with options for ft_volumesegment
jan.schoffelen at donders.ru.nl
Thu Jun 2 13:26:45 CEST 2011
Thanks for reporting this; we'll look into it.
On Jun 2, 2011, at 1:18 PM, michael.wibral at web.de wrote:
> Dear FT'ers,
> Davide Rivolta posted a problem with ft_volumesegment a while ago.
> We have meanwhile solved this problem.
> There is (FT from may 31st) a problem with the handling of the
> It's default is 'no', according to the function HELP.
> However in line 434 of ft_volumesegment, this option is put into a
> numerical array - this makes sense for a smoothing value. Also if no
> specification is given at all, then a NaN is inserted into the
> array. However if "no" is set explicitely then ft_getopt tries to
> insert the string 'no' into the array which leads to an error. Below
> is a script that is running and the error is once again detailed in
> the commets.
> In my opinion this could be fixed by simply updating te function HELP.
> %%Brain segmentation – MRI
> mri = ft_read_mri('NPD18_V2.mri');
> cfg = ;
> cfg.spmversion = 'spm8';
> cfg.output = 'tpm';
> cfg.template = 'T1.nii';
> cfg.units = 'mm';
> cfg.write = 'no';
> cfg.coordsys = 'ctf';
> cfg.downsample = 2;
> cfg.smooth = NaN; % works. option 'no' as recommended (!) in
> the function HELP throws an
> % error because ft_getopt
> on line 434 of ft_volumesegment
> % tries to put a string of
> length two into an array that is for numbers
> % leaving out this option
> also worked, but some
> % people might try to use
> this option
> segmentedmri = ft_volumesegment(cfg, mri);
> save ('segmentedmri');
> fieldtrip mailing list
> fieldtrip at donders.ru.nl
Dr. J.M. (Jan-Mathijs) Schoffelen
Donders Institute for Brain, Cognition and Behaviour,
Centre for Cognitive Neuroimaging,
Radboud University Nijmegen, The Netherlands
J.Schoffelen at donders.ru.nl
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