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Bug 726 - issue with addressing default for smoothing in ft_volumesegment
| Status | CLOSED DUPLICATE |
| Reported | 2011-06-02 13:26:00 +0200 |
| Modified | 2011-06-08 14:47:21 +0200 |
| Product: | FieldTrip |
| Component: | core |
| Version: | unspecified |
| Hardware: | PC |
| Operating System: | Mac OS |
| Importance: | P1 normal |
| Assigned to: | Jan-Mathijs Schoffelen |
| URL: | |
| Tags: | |
| Depends on: | |
| Blocks: | |
| See also: |
Jan-Mathijs Schoffelen - 2011-06-02 13:26:22 +0200
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 cfg.smooth option. 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. Michael %%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@donders.ru.nl http://mailman.science.ru.nl/mailman/listinfo/fieldtrip