/run-treeqsm-in-octave

Run TreeQSM in Octave

Some notes on how to run TreeQSM in Octave, I needed to do this as the HPC facility did not have a matlab licence. Hoping this will help people in a similar situation :)

1. Create a conda environment

conda create -n octave

Then activate the enviroment

conda activate octave

2. Install Octave and other prerequisites

conda install -c conda-forge octave cmake cxx-compiler

3. Open Octave and install prerequisites

pkg install -forge io

pkg install -forge statistics

Then load the statistics package

pkg load statistics

4. Update treeqsm.m to save as binary format

save([inputs.out, '/', str], 'qsm', '-v7')

5. Run as normal!