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WhiizParticipant
We worked it out, there was a problem with the used label!
Thank you very much again for this addition, works like a charm now!
Kind regards,
AdrienWhiizParticipantC:\Program Files\BrainSuite23a\bin> filterdft -i “C:\files\AllTracksVP001.dft” -o test.dft -l “C:\files\T1.svreg.init.label.nii.gz” –include 131 225 –and -v 1
5504428 starting streamlines
length filter kept 5504428
exclude filter kept 5504428
sphere filter kept 5504428
include filter kept 0
0 final tracks
filtering took 0:01.310WhiizParticipantHi David,
Thank you for your work!
I used the following command which only worked once i executed it as an administrator:
C:\Program Files\BrainSuite23a\bin> filterdft -i ‘C:\files\AllTracksVP001.dft’ -o test.dft -l ‘C:\files\T1.svreg.init.label.nii.gz’ –include 131 225 –andBut the output file was an empty .dft file.
My question now is if I used a wrong label or input file?
Kind regards,
AdrienWhiizParticipantThanks for the update, really appreciate it!
WhiizParticipantHey,
I am still waiting for a response.
Kind regards,
Adrien
WhiizParticipantHi David,
thanks for the quick reply!I am trying to single out selected fiber tracks and save them for further FA and MD calculations with TractConnect, but on a larger scale.
At the moment I am manually selecting the desired fibertracks using the computed tracks from the connectivity matrix, and then saving the filtered fiber tracks (e.g. L. Insula to L. Amygdala) as a BrainSuite Track File (*dft).
What I am looking for now is a way to not click through this process manually for each of my predefined fiber tracks.WhiizParticipantHey,
having a similar problem, any solutions yet?
Error in find_bounding_box (line 16)
Error in EPI_correct_files_registration_INVERSION>trim_msk_PED (line 513)
Error in EPI_correct_files_registration_INVERSION (line 271)
Error in coregister_diffusion_mprage_pipeline (line 219)
Error in BrainSuite_Diffusion_pipeline (line 26)
MATLAB:badsubscript
WhiizParticipantUpdate:
It worked after I reinstalled brainsuite21a on the same drive ass the file location.
Thanks for all your help! :)
Kind regards,
Adrien
WhiizParticipantI’ve tried to run the tutorial with the material but to no aveil. I still get the error message access denied and that the app cannot be executed. I’ve also tried repairing in admin mode with sfc/ scannow.
Prompt for reference:
Microsoft Windows [Version 10.0.19042.1466]
(c) Microsoft Corporation. Alle Rechte vorbehalten.C:\Users\nicad>”D:\Utility\BrainSuite21a\bdp\bdp.exe” C:\Users\nicad\Downloads\BrainSuiteTutorialDWI\2523412.bfc.nii.gz –tensor –FRT –nii C:\Users\nicad\Downloads\BrainSuiteTutorialDWI\2523412.dwi.nii.gz -g C:\Users\nicad\Downloads\BrainSuiteTutorialDWI\2523412.dwi.bvec -b C:\Users\nicad\Downloads\BrainSuiteTutorialDWI\2523412.dwi.bval
Zugriff verweigert
(tensor, FRT and nii all with doubledashes of course)WhiizParticipantAfter installing the 2019b runtime i get the same error.
WhiizParticipantThank you for the quick reply!
I was running Matlab 2021b and will try it now with 2019b.
I’m processing my data as follows:
dicom to nifti using micro GL
open brainsuite and drag in DTI.nii.gz, then process
unpack DTI.nii.gz
open CMC and use the following command:”D:\Utility\BrainSuite21a\bdp\bdp.exe” ”C:\Users\nicad\Desktop\PHD\DTI\Ersatzdaten\DCM2\T1.bfc.nii.gz” –tensor –FRT –FRACT –nii “C:\Users\nicad\Desktop\PHD\DTI\Ersatzdaten\DCM2\DWI.nii” -g “C:\Users\nicad\Desktop\PHD\DTI\Ersatzdaten\DCM2\DWI.bvec“ -b “C:\Users\nicad\Desktop\PHD\DTI\Ersatzdaten\DCM2\DWI.bval“ –generate-statsKind regards,
Adrien Nicolay
- This reply was modified 2 years, 2 months ago by Whiiz.
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