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AI4Health-2023
AI4HEALTH Fed-BioMed Practical Session
Commits
ee993957
Commit
ee993957
authored
1 year ago
by
CREMONESI Francesco
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Try to brutally inject fedbiomed environment
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#
# environment for fedbiomed-researcher
#
#
#
name
:
fedbiomed-researcher
channels
:
-
conda-forge
dependencies
:
# minimal environment
-
python >=3.9,<3.10
-
pip
-
jupyter
-
ipython
# tests
-
pytest >6.2.2
-
tinydb >=4.4.0,<5.0.0
-
tabulate >=0.8.9,<0.9.0
-
nose
-
coverage
# tools
-
colorama
-
pyyaml
# code
-
GitPython >=3.1.14,<4.0.0
-
requests >=2.25.1,<3.0.0
-
paho-mqtt >=1.5.1,<2.0.0
-
validators >=0.18.2,<0.19.0
-
tqdm >=4.59.0,<5.0.0
-
git
-
packaging >=23.0,<24.0
# these two have to be aligned
-
cryptography ~=39.0
-
pyopenssl ~=23.0
# git notebook striper
-
nbstripout
-
joblib >=1.0.1
# sklearn
# scipy >= 1.9 from conda-forge needs recent GLIBC thus causes issue 389
# with many current systems
# another option is to install scipy from pip
-
scipy >=1.8.0,<1.9.0
-
scikit-learn >=1.0.0,<1.1.0
# other
-
itk
-
pip
:
# nn
-
torch >=1.8.0,<2.0.0
-
torchvision >=0.9.0,<0.15.0
-
opacus >=1.2.0,<1.3.0
-
monai >=1.1.0,<1.2.0
# other
-
msgpack ~=1.0
-
persist-queue >=0.5.1,<0.6.0
-
pandas >=1.2.3,<2.0.0
-
openpyxl >= 3.0.9,<3.1
-
tensorboard
-
JSON-log-formatter
-
python-minifier ==2.5.0
# for nbconvert
-
jupyter_contrib_nbextensions
-
pathvalidate
# FLamby
-
git+https://github.com/owkin/FLamby@main
# declearn
-
declearn[torch] ~= 2.1.0
-
gmpy2 >=2.1,<
2.2
#### Notebook-specific packages ####
# This section contains packages that are needed only to run specific notebooks
-
unet == 0.7.7
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pandas
seaborn
matplotlib
scipy
torch
torchvision
tqdm
scikit-learn
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