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Bug 62 - spm_brainwarp is missing from fieldtrip/external/spm2
| Status |
CLOSED FIXED |
| Reported |
2010-04-08 12:00:00 +0200 |
| Modified |
2012-10-02 18:39:46 +0200 |
| Product: |
FieldTrip |
| Component: |
core |
| Version: |
unspecified |
| Hardware: |
PC |
| Operating System: |
Mac OS |
| Importance: |
P5 normal |
| Assigned to: |
Joint development user |
| URL: |
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| Tags: |
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| Depends on: |
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| Blocks: |
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| See also: |
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Jan-Mathijs Schoffelen - 2010-04-08 12:00:29 +0200
The functions spm_brainwarp.* are missing from fieldtrip/external/spm2. This causes a crash when ft_volumenormalise wants to apply nonlinear normalisation. The functions have to be added.
Robert Oostenveld - 2012-10-02 18:39:46 +0200
I noticed on the dashboard that this test script failed. Initially I was not able to reproduce the error, but then with this I was:
>> restoredefaultpath
>> addpath ~/matlab/fieldtrip
>> ft_defaults
mrifile = '/home/common/matlab/fieldtrip/data/Subject01.mri';
mri = ft_read_mri(mrifile);
cfg = [];
cfg.nonlinear = 'yes';
mri2 = ft_volumenormalise(cfg, mri);
the input is volume data with dimensions [256 256 256]
Converting the coordinate system from ctf to spm
??? Undefined function or method 'spm' for input arguments of type 'char'.
Error in ==> align_ctf2spm at 50
switch spm('ver')
Error in ==> ft_convert_coordsys at 63
obj = align_ctf2spm(obj);
Error in ==> ft_volumenormalise at 114
interp = ft_convert_coordsys(interp, 'spm');
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The low level function expects spm to be on the path, whereas it is only added later.
I fixed the regression issue, moved the spm path check to earlier in the code
manzana> svn commit ft_volumenormalise.m
Sending ft_volumenormalise.m
Transmitting file data .
Committed revision 6639.