Hi Pia,
I'm not sure on what is happening, but here are three guesses:
1) If you are trying to load only the con_*.img and spmT*.img into the
BrainSight, it won't work, because SPM5 uses the NIfTI pair format, where
any image is saved into 2 files (hdr+img). These 2 files must be always kept
together. No application will load any image correctly if only the *.img is
present, without its corresponding *.hdr. Check back in the directory where
SPM saved all its files. You will find both the con*.hdr and spmT*.hdr there.
Observe that spm_read_hdr will return an empty cell even if the file does
not exist (i.e. empty cell here does not mean that the *.hdr exist and is
empty; it may not exist, or may have not been copied along with the *.img).
If you are using Windows: By default Windows hides the extensions of certain
files. To ensure that you are getting the correct ones, disable this feature.
2) If for some reason your *.hdr were corrupted, it may not work as well. If
in the SPM you can see your results (i.e., the projections of your
"activations" in the glass brain), then the con*.{hdr+img} and
spmT*.{hdr+img} should have been saved correctly. But you can still check
that by:
- Looking at the size of the header (*.hdr): it should have 348 bytes.
- Opening the images using an image viewer (like Mango or MRIcron) or the
function Display of SPM.
3) The version of BrainSight you are using may not support NIfTI files. My
advice is that you check the documentation of the version that you are using
to see if it does support it. Any recent version of virtually all
neuro-software should handle NIfTI files. But this might not be the case of
old versions (BrainSight didn't support NIfTI until v1.7).
The default format for SPM2 and older was the ANALYZE format, which uses the
same .{hdr+img} pairs, with the same 348 bytes in the *.hdr. If your version
of BrainSight supports only ANALYZE, then you can convert the SPM5 NIfTI
pairs to ANALYZE pairs using MRIcron or Mango or other tool of your preference.
Hope one of these three suggestions helps you!
Best regards,
Anderson
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