[Whiiz]

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,
Adrien

[Whiiz]

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 –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 0:01.310

[Whiiz]

Hi 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 –and

But the output file was an empty .dft file.

My question now is if I used a wrong label or input file?

Kind regards,
Adrien

[Whiiz]

Thanks for the update, really appreciate it!

[Whiiz]

Hey,

I am still waiting for a response.

Kind regards,

Adrien

[Whiiz]

Hi 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.

[Whiiz]

Hey,

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

[Whiiz]

Update:

It worked after I reinstalled brainsuite21a on the same drive ass the file location.

Thanks for all your help! :)

Kind regards,

Adrien

[Whiiz]

I’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)

[Whiiz]

After installing the 2019b runtime i get the same error.

[Whiiz]

Thank 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-stats

Kind regards,

Adrien Nicolay

• This reply was modified 3 years, 9 months ago by Whiiz.

[Whiiz]

Post deleted

[Author]

Posts