Hi

Someone told me that using mri_convert -it siemens_dicom <first IMA file> <destination directory> had worked, and I tried that. The files were then converted, but even though I don't get any error messages, there is serious conversion error. In the coronal view, I see black stripes and a quarter of the head is cut off and placed at the other side of the image. When I go through the slices sagitally, I see that it jumps from slice 13 to 56, and there also appears to be some slices of very different (darker) intensities in between.

The scans looked excellent when I looked at them at the hospital work station, so this must be a conversion, not quality problem.

These are GRAPPA series, could that have anything to do with the problems?

Thanks,

Kristine

-----Original Message----- From: Doug Greve [mailto:greve@nmr.mgh.harvard.edu] Sent: Tue 4/19/2005 2:42 AM To: Kristine Beate Walhovd Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Problem converting IMA files

What was your exact command-line? Did you try adding "-it siemens"? Also, I could not read the attachment. Is it in text/ascii format?

doug

Kristine Beate Walhovd wrote:

Hi

I've tried converting IMA files (taken directly from the Siemens scanner) in Freesurfer with the command

mri_convert -ot cor <one filename in the sequence> <output file>

but it doesn't work. Gives an error message "cannot parse..." (see attached error message).

I'd be grateful for any suggestions.

Thanks,

Kristine

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                   Name: IMA_error.sxw

IMA_error.sxw Type: unspecified type (application/octet-stream) Encoding: base64 Description: IMA_error.sxw

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