To more fully explain the road block, this is the output of 'mri_info analyzefile --slicedirection'

MatlabRead: readHeader returned NULL

WARNING: analyzeRead(): matfile
analyzefile.mat exists but could not read ...
  may not be matlab4 mat file ... proceeding without it.
-----------------------------------------------------------------
INFO: could not find
analyzefile.mat file for direction cosine info.
INFO: use Analyze 7.5 hdr->hist.orient value: 0, transverse unflipped (default).
INFO: if not valid, please provide the information in
analyzefile.mat file


I am running on a Mac. Does this have anything to do with it? I don't have matlab on the mac, but on a windows virtual machine.

thanks
~julia

On 4/16/07, Julia Hamstra <jhamstra@gmail.com> wrote:

Hi,
Can mri_convert work with slice orientation other than axial? My input is sagittal (slices collected from right to left), but when I create files from mri_convert the header reads axial. This is particularly problematic when converting to analyze format from dicoms or another file type because the dimensions of the sagittal slices are applied the transverse plane.

Using in_orientation and out_orientation options, the images will display correctly, but the header still reads axial.

Can mri_convert subsample an image by retaining every other voxel without interpolating between voxels?

Thank you,
~julia

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