Yea, some siemens scanners/dicom servers produce dicom files with IMA extensions, which fools our software into thinking it is the old ima format.

doug

On Fri, 2 Feb 2007, Binyam Nardos wrote:

thanks Jenni .. I had to change my input file format to siemens_dicom although they were IMAs. It seems to be working now. Binyam

Binyam Nardos Cognitive Rehabilitation Research Group Washington University School of Medicine Box # 8505 4444 Forest Park Blvd St. Louis, MO 63108 Office: (314) 454-7795 Fax: (314) 286-1601

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-----Original Message----- From: Jenni Pacheco [mailto:jpacheco@nmr.mgh.harvard.edu] Sent: Fri 2/2/2007 10:40 AM To: Binyam Nardos Cc: Freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] converting from siemens IMA to mgz

Hi Binyam,

I think you need to give it the IMA file name, so something like: mri_convert -it siemens -ot mgz 001/file.IMA 001.mgz

If that doesn't work there are other options we can try. Jenni

On Fri, 2 Feb 2007, Binyam Nardos wrote:

...

Hi all, I just loaded raw structural scans into one of my subject directories. They are of siemens IMA format and I used the following command: mri_convert -it siemens -ot mgz 001/ 001.mgz

I then got the following error: reading from 001/... ERROR: could not parse 001/ ERROR: siemensRead(): 001/

I tried finding similar problems in the threads but nothing yet.

Appreciate any help, Binyam

Binyam Nardos Cognitive Rehabilitation Research Group Washington University School of Medicine Box # 8505 4444 Forest Park Blvd St. Louis, MO 63108 Office: (314) 454-7795 Fax: (314) 286-1601

The contents of this e-mail message and any attachments are intended solely for the addressee(s) named in this message. This communication is intended to be and to remain confidential and may be subject to applicable physician/patient and/or work product privileges. If you are not the intended recipient of this message, or if this message has been addressed to you in error, please immediately alert the sender by reply e-mail and then delete this message and its attachments.