Scott

Hi Fabian, I am actually trying different OS flavors... MATE 19 is so far, a bust....a lot/too many path problems on install. Ubuntu16 is a work in progress...no path problems...but...

Hi Fabian, Loving the virtual environment! And the pip version thing...outside venv...no pip...inside venv...pip 20. Installed from the same files...no install errors! Guessing you might be able to run a...

Hi Fabian, Using the python venv, got HD-BET to run...somewhat....on a test file made using dcm2nii on raw Siemens multi-slice 3D data to make... myfile.nii.gz ran hd-bet - i infolderpath...

Hi Fabian, As an option to the hd-bet command? meaning hd-bet -i foldin -o foldout -device etc. can that be called as a separate hd-bet command i.e. before setting folders...

Hi Fabian, Getting REALLY close now.... RuntimeError: [enforce fail at CPUAllocator.cpp:64] . DefaultCPUAllocator: can't allocate memory: you tried to allocate 5350883328 bytes. Error code 12 (Cannot allocate memory) (my_venv) scott@earthmars:~/HD-BET$...

Hi Fabian, Added an internal swapfile, think it's running...but in virtual memory..so slow...if I could set the memory to 4 GB, I'm guessing it will run faster...will keep you posted...as...

Nope...gobbling up the swap memory too... RuntimeError: [enforce fail at CPUAllocator.cpp:64] . DefaultCPUAllocator: can't allocate memory: you tried to allocate 10701766656 bytes. Error code 12 (Cannot allocate memory) (my_venv) scott@earthmars:~/HD-BET$...

File: sgAxT2.nii preprocessing... image shape after preprocessing: (34, 137, 124) prediction (CNN id)... 0 Traceback (most recent call last): File "/home/scott/my_venv/bin/hd-bet", line 7, in exec(compile(f.read(), __file__, 'exec')) File "/home/scott/HD-BET/HD_BET/hd-bet", line...

Hi Korbinian, OK CLEARSWI is working, using MRItools 3.3.1 and being careful to use single quotes 'a' not "a". ClearSWI turns out to be no good for my application: asynchronous...

Hi Korbinian, Baby steps. Julia up and running, the import for "MriResearchTools" and "FFTW" went swimmingly. What about masking? Probably need to set a mask and call it from Julia,...