marmaduke woodman

You can set env vars to change the default temp dir [cf tempfile module docs](https://docs.python.org/3.5/library/tempfile.html#tempfile.mkstemp): > The default directory is chosen from a platform-dependent list, but the user of the...

but, we should probable have a method on the runner to allow changing the default dir.

ah something like ```bash rm /tmp ln -s /work/tmp /tmp ``` ? I don't remember if /tmp has its own filesystem on Ubuntu.

Convergence looks good. Based on that plot, I guess a cutoff of 0.001 would require ~30M tracks, right? In any case, I think 0.01 is fine. Just to be careful,...

> Convergence is actually post-sift 👍 👍 hadn't read the code sorry

Do you have other commits on the way, or should I pick this up?

I don't think `main.sh` works on anyone's computer except Denis' so is not a criteria for excluding merging this code. Testing is delayed until I can assure that GitLab can...

This seems equivalent do a `labelconvert` from mrtrix. I'm also certain this should be rewritten a la ```python aa_nnz = aparc_aseg_mat > 0 aparc_aseg_mat = aparc_aseg_mat * (~aa_nnz) + fs_conn_map[aparc_aseg_mat]...

also for pre-commit checks - [ ] autopep8 (`find tvb -name '*.py' -exec autopep8 --in-place '{}' \;`) - [ ] flake8 - [ ] mypy

That would be possible but only useful for cortical areas.