[Actions] Auto-Update dependencies

[github-actions]

The following packages are outdated

Package	Used	Update
attrs	22.1.0	24.2.0
autoflake	1.7.7	2.3.1
black	22.10.0	24.10.0
certifi	2022.9.24	2024.8.30
cfgv	3.3.1	3.4.0
charset-normalizer	2.1.1	3.4.0
click	8.1.3	8.1.7
contourpy	1.0.6	1.3.1
coverage	6.5.0	7.6.8
cycler	0.11.0	0.12.1
dipy	1.5.0	1.9.0
distlib	0.3.6	0.3.9
eradicate	2.1.0	2.3.0
exceptiongroup	1.0.0	1.2.2
filelock	3.8.0	3.16.1
flake8	5.0.4	7.1.1
flake8-bugbear	22.10.27	24.10.31
flake8-builtins	2.0.1	2.5.0
flake8-comprehensions	3.10.1	3.16.0
flake8-eradicate	1.4.0	1.5.0
flake8-logging-format	0.8.1	2024.24.12
fonttools	4.38.0	4.55.0
gitdb	4.0.9	4.0.11
gitpython	3.1.29	3.1.43
h5py	3.7.0	3.12.1
identify	2.5.8	2.6.3
idna	3.4	3.10
iniconfig	1.1.1	2.0.0
isort	5.10.1	5.13.2
jinja2	3.1.2	3.1.4
kiwisolver	1.4.4	1.4.7
markdown	3.3.7	3.7
markupsafe	2.1.1	3.0.2
matplotlib	3.6.2	3.9.3
mkdocs	1.4.2	1.6.1
mkdocs-autorefs	0.4.1	1.2.0
mkdocs-material	8.5.8	9.5.46
mkdocs-material-extensions	1.1	1.3.1
mkdocstrings	0.19.0	0.27.0
mypy	0.982	1.13.0
mypy-extensions	0.4.3	1.0.0
nibabel	4.0.2	5.3.2
nodeenv	1.7.0	1.9.1
numpy	1.23.4	2.1.3
nvidia-cublas-cu11	11.10.3.66	11.11.3.6
nvidia-cuda-nvrtc-cu11	11.7.99	11.8.89
nvidia-cuda-runtime-cu11	11.7.99	11.8.89
nvidia-cudnn-cu11	8.5.0.96	9.5.1.17
packaging	21.3	24.2
pathspec	0.10.1	0.12.1
pep8-naming	0.13.2	0.14.1
pillow	9.3.0	11.0.0
platformdirs	2.5.2	4.3.6
pluggy	1.0.0	1.5.0
pre-commit	2.20.0	4.0.1
pycodestyle	2.9.1	2.12.1
pyflakes	2.5.0	3.2.0
pygments	2.13.0	2.18.0
pymdown-extensions	9.7	10.12
pyparsing	3.0.9	3.2.0
pytest	7.2.0	8.3.3
pytest-cov	4.0.0	6.0.0
pytest-github-actions-annotate-failures	0.1.7	0.2.0
python-box	6.1.0	7.2.0
python-dateutil	2.8.2	2.9.0.post0
python-kacl	0.2.30	0.6.2
pyupgrade	3.2.0	3.19.0
pyyaml	6.0	6.0.2
requests	2.28.1	2.32.3
rich	12.6.0	13.9.4
scipy	1.9.3	1.14.1
semver	2.13.0	3.0.2
setuptools-scm	7.0.5	8.1.0
smmap	5.0.0	5.0.1
stripy	2.1.0	2.3.3
tokenize-rt	5.0.0	6.1.0
tomli	2.0.1	2.2.1
torch	1.13.0	2.5.1
tqdm	4.64.1	4.67.1
tryceratops	1.1.0	2.4.1
typing-extensions	4.4.0	4.12.2
urllib3	1.26.12	2.2.3
virtualenv	20.16.6	20.28.0
watchdog	2.1.9	6.0.0