[pymvpa] writing a NIfTI file from PyMVPA

[Jo Etzel]

Thanks!!

That works perfectly. I'd found .map2Nifti but not the .save part.

Jo



Yaroslav Halchenko wrote:
> o o -- that example had no magic function exposed...
> 
> use
> 
> dataset.map2Nifti(sl_map).save('bugi.nii.gz')
> 
> or
> 
> dataset.map2Nifti(sl_map).save('bugi.img', filetype='ANALYZE')
> 
> for analyze iirc
> 
> On Thu, 12 Mar 2009, Jo Etzel wrote:
> 
>> I would like to write a NifTI (or even better, Analyze img/hdr format; 
>> but I can convert a NifTI file of course) from within PyMVPA. Is there 
>> an easy way to do this?
> 
>> Specifically, I've been trying some variations of the searchlight_2d.py 
>> example with my own (3D) images, and would like to view the output 
>> (sl_map in the example) as a 3D image. I think that the
> 
>> orig_sl_map = dataset.mapReverse(N.array(sl_map))
>> masked_orig_sl_map = N.ma.masked_array(orig_sl_map, mask=orig_sl_map == 0)
> 
>> lines from the example put the sl_map into the right space, but I'm not 
>> sure what to do next.
> 
>> Thanks in advance for your help,
>> Jo
> 
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> 
>