Hi Freesurfer experts,
I hope you’re all enjoying your day!
Working in Launchpad, I want to extract the bvals/bvecs from DTI dicoms obtained at Martinos Center. The dicoms have the following format:
MR1.3.12.2.1107.5.2.32.35006.2010052613553219211129919 MR1.3.12.2.1107.5.2.32.35006.2010052613553736471330196 MR1.3.12.2.1107.5.2.32.35006.201005261355429098330464 ...
I receive error when I run dcm2niix (to extract the b values and b vectors):
Command: dcm2niix -f dti <folder of dicoms>
The error I receive:
Warning: output folder invalid MR1.3.12.2.1107.5.2.32.35006.2010052614044051320551992 will try Error: unable to find any DICOM images in Conversion required 0.000000 seconds.
When I do the following steps to generate “treatable” dicoms, dcm2niix recognizes these dicoms:
1. copy Martinos Center dicoms to my local Mac 2. import dicoms into OsiriX 3. Export them as dicoms 4. copy the OsiriX-exported dicoms back to Launchpad 5. Run dcm2niix on the new dicoms
Since this copying back and forth takes a lot of time, I need a better way to convert the “crazy” Martinos Center dicoms into the “treatable” ones!
I would really appreciate your help.
Best, Emad
Emad Ahmadi, MD ----------------------------------------------- Research Fellow Department of Radiology Massachusetts General Hospital Harvard Medical School
25 New Chardon Street, Suite 400 Boston, MA 02114 Tel: 617 726 5237 Email: emad@nmr.mgh.harvard.edu