[Neurodebian-users] Problem with dcm2nii

[Kirsch, Peter]

Hi again,

 

I now found the reason for my problem.  (it always takes a long time until I find time to revisit such problems). I just post my finding for the case that anyone else experiences the same problem and searches for a solution. The crude behavior (wrong number of dicom files found) is only observable when the dicom files are stored on a samba share. When converting locals files, everything works on Ubuntu as fine as on other distributions. It’s independent of the dcm2nii version (true for NeuroDebian and Centos Version) . Seems that it’s neither a direct dcm2nii problem nor a NeurDebian version problem but an interaction between dcm2nii and Ubuntu. Both, dinifti and mriconvert find the correct number of files (and dinifti works with IMA).

 

Best, Peter

 

 

Von: Michael Hanke [mailto:michael.hanke at gmail.com] 
Gesendet: Donnerstag, 28. März 2013 11:56
An: Kirsch, Peter
Cc: neurodebian-users at lists.alioth.debian.org
Betreff: Re: [Neurodebian-users] Problem with dcm2nii

 

Hi,

 

On Thu, Mar 28, 2013 at 11:39 AM, Kirsch, Peter <Peter.Kirsch at zi-mannheim.de> wrote:

Sorry for not answering, I did not receive your replies (Anyway, thanks for the fast response). I now subscribed to the list…

It might indeed be the case that I replaced the May 5 version with the December 12 version from my CentOS machine (I thought I did it the other way around) but in any case: the behavior did not differ at all.

 

Does that mean you are seeing the problematic behavior with the NeuroDebian version from May _and_

with a Centos version from December on the same Ubuntu machine, but it works on Centos?

 

This would be surprising, as dcm2nii is self-contained and doesn't use any system libs:

 

% ldd /usr/bin/dcm2nii

            not a dynamic executable

 

If you can confirm this, we might need to look for reasons beyond the scope of dcm2nii.

 

As a sidenote: what happens if you run 'dinifti' from the 'dicomnifiti' package on the files?

Not sure if it handles IMA files, but it should work fine for DICOMs

 

 

Michael

 

-- 

Michael Hanke

http://mih.voxindeserto.de

 

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