dorianps

For what is worth, I performed a verification that nifti headers can be read for all nifti files in the BIDS folder. Tried both `PrintHeader` from ANTs and `c3d` from...

Yes, it is indeed hitting the user open file limit. And I managed to resolve the issue. Once I increased my user file limit from the default 4096 to 10000,...

`ulimit -Hn` if you want to check it yourself.

I have not used it myself slurm, maybe SGE long time ago. I also have not used it through containers. Not sure if anyone else has done it. You probably...

No, sorry, I have not planned to work on the bids app for now, but will see about it later. Fyi, R packages do not require admin privileges, they will...

One more question. Where did you find the singularity image? Converting from docker typically requires admin privileges. On Sun, Sep 3, 2023, 12:52 PM Simon Thibault ***@***.***> wrote: > Hi...

This is the line that is causing the error in the code: https://github.com/dorianps/LESYMAP/blob/master/R/checkMask.R#L28 I am not sure if this is a bug. Looks like you are preloading the lesion masks...

Yea, not sure about re-orienting. See the ANTsR functions, looks like there is a function reorientImage: https://github.com/ANTsX/ANTsR/blob/master/R/reorientImage.R If the differences are just tiny in float points etc, you could just...

Hi Simon, Not sure what is causing it, but LINDA relies heavily on asymmetries. Also, it runs multiple iterative registrations to the template, and things can go wrong there, too....

No, I would never use LINDA drawings as a basis to suspect lesions. It may only be useful to make you look somewhere and if you suspect a lesion from...