[FieldTrip] How to read .dicom format using FT_READ_MRI

[Pelt, S. van (Stan)]

Dear Ying,

As far as I understand, Fieldtrip can read in the entire series of dicom-files by just specifying the first file name of the series, just like you did. However, for this it is required that the series number is clear in each file name, e.g. MRI_S01_MEG.0001.0001.IMA,  MRI_S01_MEG.0001.0002.IMA, etc. I suppose that is not clear in your dicom file names.

Best,
Stan

--
Stan van Pelt, PhD
Donders Institute for Brain, Cognition and Behaviour
Radboud University
Montessorilaan 3, B.01.34
6525 HR Nijmegen, the Netherlands
tel: +31 24 3616288


From: fieldtrip-bounces at science.ru.nl [mailto:fieldtrip-bounces at science.ru.nl] On Behalf Of Ying Li
Sent: woensdag 14 januari 2015 20:05
To: FieldTrip discussion list
Subject: [FieldTrip] How to read .dicom format using FT_READ_MRI

Dear all,

I'm trying to load MRI into matlab. The MRI data I have is a series of .dicom files (~250 frames, "IMG1"~"IMG250").  I'm wondering how to specify the input parameter for the function "ft_read_mri". Since I have 250 files, which file should I use for the input?

If I only use the first file "IMG1", for example mri = ft_read_mri('IMG1');  Then I will get the following error:

Warning: Not enough data imported.  Attempted to read 3053459760 bytes at position 2953.  Only read 534544.
ERROR: IMG1 does not have a series number
Error in load_dicom_series (line 42)
if(nargin < 1 | nargin > 3)

Output argument "vol" (and maybe others) not assigned during call to
"XX\fieldtrip_20140518\external\freesurfer\load_dicom_series.m>load_dicom_series".

Error in ft_read_mri (line 287)
  [img,transform,hdr,mr_params] = load_dicom_series(dcmdir,dcmdir,filename);

I'll appreciate your reply a lot!

Best,

Ying
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