[Loris-dev] Inquiry regarding conversion of DTI in MINC to NIfTI

[Cecile Madjar]

Hi Sam,

So sorry for the delay in the reply. For some reason I never received your
email.

Are you trying to create the .bval and .bvec files of already registered
MINC files into LORIS? If so, there is a tool that was created in that PR (
https://github.com/aces/Loris-MRI/pull/335) called create_nifti_bval_bvec.pl
that can be found in the tools directory of LORIS-MRI. This script would
create all the required bval and bvec files for the DWI files present in
your LORIS instance.

Run "create_nifti_bval_bvec.pl -h" to print out the help of that script
that lists the options you can use to run the script.

Hope this helps. Let me know how this goes or if you have any questions.

Cécile



On Sat, Feb 2, 2019 at 6:58 PM Payabvash, Sam <sam.payabvash at yale.edu>
wrote:

> Hi,
>
> I was wondering if you can kindly help me with conversion of DTI files in
> MINC format to NIfTI  format and extraction of bval and bvec files.
>
> I found your LORIS MRI Release v20.1.0 on git hub (
> https://github.com/aces/Loris-MRI/pull/335); and I followed the
> instruction on "https://github.com/aces/Loris-MRI" to instal the package
> on our Ubuntu platform.
>
> But can not figure out how to run the "make_niff" function from the MRI.pm
> in a shell script.
> The MRI.pm is in the uploadNeuroDB/NeuroDB directory, and I tried :
>
> $ perl -MMRI -e 'MRI::make_nii" dti.mnc
>
> But it didn't work.
>
> I sincerely appreciate your help.
>
> Best regards,
> Sam
>
> _____________________________
> Sam (Seyedmehdi) Payabvash, MD
> Assistant Professor of Radiology
> Yale School of Medicine
> Email :  sam.payabvash at yale.edu <sam.payabvash at yale.edu>
>
>
>
>
>
>
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