docs: added requirements and updated readme

README.md

@@ -42,6 +42,8 @@ Install Python3.9:
 apt-get update
 apt-get install software-properties-common
 add-apt-repository ppa:deadsnakes/ppa
+apt-get -y update; DEBIAN_FRONTEND=noninteractive apt-get -y install \
+    curl ffmpeg libsm6 libxext6 libpangocairo-1.0-0 dcmtk xvfb libjemalloc2 && rm -rf /var/lib/apt/lists/*
 # Install py39 from deadsnakes repository
 apt-get install python3.9
 # Install pip from standard ubuntu packages
@@ -52,7 +54,7 @@ Install BOA & RadTA:
 
 ```sh
 # Get the RadTA software from GitHub
-git clone --submodules https://TODO
+git clone --recurse-submodules https://TODO
 cd radta/
 # Install all dependencies via pip
 python3.9 -m pip install -r requirements.txt

requirements.txt

@@ -1,7 +1,110 @@
+amqp==5.1.1 ; python_version >= "3.8" and python_version < "3.11"
+argparse==1.4.0 ; python_version >= "3.8" and python_version < "3.11"
+attrs==23.1.0 ; python_version >= "3.8" and python_version < "3.11"
+backports-zoneinfo[tzdata]==0.2.1 ; python_version >= "3.8" and python_version < "3.9"
+batchgenerators==0.21 ; python_version >= "3.8" and python_version < "3.11"
+billiard==3.6.4.0 ; python_version >= "3.8" and python_version < "3.11"
+boa-contrast==0.1.4 ; python_version >= "3.8" and python_version < "3.11"
+cairocffi==1.6.1 ; python_version >= "3.8" and python_version < "3.11"
+cairosvg==2.7.1 ; python_version >= "3.8" and python_version < "3.11"
+celery==5.2.7 ; python_version >= "3.8" and python_version < "3.11"
+certifi==2023.7.22 ; python_version >= "3.8" and python_version < "3.11"
+cffi==1.15.1 ; python_version >= "3.8" and python_version < "3.11"
+charset-normalizer==3.2.0 ; python_version >= "3.8" and python_version < "3.11"
+click-didyoumean==0.3.0 ; python_version >= "3.8" and python_version < "3.11"
+click-plugins==1.1.1 ; python_version >= "3.8" and python_version < "3.11"
+click-repl==0.3.0 ; python_version >= "3.8" and python_version < "3.11"
+click==8.1.6 ; python_version >= "3.8" and python_version < "3.11"
+colorama==0.4.6 ; python_version >= "3.8" and python_version < "3.11" and platform_system == "Windows"
+connected-components-3d==3.12.1 ; python_version >= "3.8" and python_version < "3.11"
+contourpy==1.1.0 ; python_version >= "3.8" and python_version < "3.11"
+cryptography==41.0.3 ; python_version >= "3.8" and python_version < "3.11"
+cssselect2==0.7.0 ; python_version >= "3.8" and python_version < "3.11"
+cycler==0.11.0 ; python_version >= "3.8" and python_version < "3.11"
+dataclasses-json==0.5.14 ; python_version >= "3.8" and python_version < "3.11"
+defusedxml==0.7.1 ; python_version >= "3.8" and python_version < "3.11"
+dicomweb-client==0.59.1 ; python_version >= "3.8" and python_version < "3.11"
+dill==0.3.7 ; python_version >= "3.8" and python_version < "3.11"
+fonttools==4.43.0 ; python_version >= "3.8" and python_version < "3.11"
+fury==0.8.0 ; python_version >= "3.8" and python_version < "3.11"
+future==0.18.3 ; python_version >= "3.8" and python_version < "3.11"
+grpcio==1.56.2 ; python_version >= "3.8" and python_version < "3.11"
+html5lib==1.1 ; python_version >= "3.8" and python_version < "3.11"
+idna==3.4 ; python_version >= "3.8" and python_version < "3.11"
+imageio==2.31.1 ; python_version >= "3.8" and python_version < "3.11"
+importlib-resources==6.0.1 ; python_version >= "3.8" and python_version < "3.10"
+jinja2==3.1.3 ; python_version >= "3.8" and python_version < "3.11"
+joblib==1.3.2 ; python_version >= "3.8" and python_version < "3.11"
+jsonschema==3.2.0 ; python_version >= "3.8" and python_version < "3.11"
+kaleido==0.2.1 ; python_version >= "3.8" and python_version < "3.11"
+kiwisolver==1.4.4 ; python_version >= "3.8" and python_version < "3.11"
+kombu==5.3.1 ; python_version >= "3.8" and python_version < "3.11"
+linecache2==1.0.0 ; python_version >= "3.8" and python_version < "3.11"
+markupsafe==2.1.3 ; python_version >= "3.8" and python_version < "3.11"
+marshmallow==3.20.1 ; python_version >= "3.8" and python_version < "3.11"
+matplotlib==3.7.2 ; python_version >= "3.8" and python_version < "3.11"
+medpy==0.4.0 ; python_version >= "3.8" and python_version < "3.11"
+multiprocess==0.70.15 ; python_version >= "3.8" and python_version < "3.11"
+mypy-extensions==0.4.4 ; python_version >= "3.8" and python_version < "3.11"
+networkx==3.1 ; python_version >= "3.8" and python_version < "3.11"
+nibabel==5.1.0 ; python_version >= "3.8" and python_version < "3.11"
+numpy==1.24.4 ; python_version < "3.11" and python_version >= "3.8"
+opencv-python==4.8.0.74 ; python_version >= "3.8" and python_version < "3.11"
+p-tqdm==1.4.0 ; python_version >= "3.8" and python_version < "3.11"
+packaging==23.1 ; python_version >= "3.8" and python_version < "3.11"
+pandas==1.5.3 ; python_version >= "3.8" and python_version < "3.11"
+pathos==0.3.1 ; python_version >= "3.8" and python_version < "3.11"
+pillow==10.2.0 ; python_version >= "3.8" and python_version < "3.11"
+plotly==5.15.0 ; python_version >= "3.8" and python_version < "3.11"
+pox==0.3.3 ; python_version >= "3.8" and python_version < "3.11"
+ppft==1.7.6.7 ; python_version >= "3.8" and python_version < "3.11"
+prompt-toolkit==3.0.39 ; python_version >= "3.8" and python_version < "3.11"
+protobuf==3.20.3 ; python_version >= "3.8" and python_version < "3.11"
+psutil==5.9.5 ; python_version >= "3.8" and python_version < "3.11"
+psycopg2-binary==2.9.9 ; python_version >= "3.8" and python_version < "3.11"
+pycparser==2.21 ; python_version >= "3.8" and python_version < "3.11"
+pydicom-seg==0.4.1 ; python_version >= "3.8" and python_version < "3.11"
+pydicom==2.4.2 ; python_version >= "3.8" and python_version < "3.11"
+pyparsing==3.0.9 ; python_version >= "3.8" and python_version < "3.11"
+pyphen==0.14.0 ; python_version >= "3.8" and python_version < "3.11"
+pyrsistent==0.19.3 ; python_version >= "3.8" and python_version < "3.11"
+pyspnego==0.9.1 ; python_version >= "3.8" and python_version < "3.11"
+python-dateutil==2.8.2 ; python_version >= "3.8" and python_version < "3.11"
+python-rapidjson==1.10 ; python_version >= "3.8" and python_version < "3.11"
+pytz==2023.3 ; python_version >= "3.8" and python_version < "3.11"
+pywavelets==1.4.1 ; python_version >= "3.8" and python_version < "3.11"
+requests==2.31.0 ; python_version >= "3.8" and python_version < "3.11"
+retrying==1.3.4 ; python_version >= "3.8" and python_version < "3.11"
+scikit-image==0.19.3 ; python_version >= "3.8" and python_version < "3.11"
+scikit-learn==1.3.0 ; python_version >= "3.8" and python_version < "3.11"
+scipy==1.10.1 ; python_version >= "3.8" and python_version < "3.11"
+setuptools==68.0.0 ; python_version >= "3.8" and python_version < "3.11"
+simpleitk==2.2.1 ; python_version >= "3.8" and python_version < "3.11"
+six==1.16.0 ; python_version >= "3.8" and python_version < "3.11"
+smbprotocol==1.10.1 ; python_version >= "3.8" and python_version < "3.11"
+tenacity==8.2.2 ; python_version >= "3.8" and python_version < "3.11"
+threadpoolctl==3.2.0 ; python_version >= "3.8" and python_version < "3.11"
+tifffile==2023.7.10 ; python_version >= "3.8" and python_version < "3.11"
+tinycss2==1.2.1 ; python_version >= "3.8" and python_version < "3.11"
+tqdm==4.65.2 ; python_version >= "3.8" and python_version < "3.11"
+traceback2==1.4.0 ; python_version >= "3.8" and python_version < "3.11"
+tritonclient[grpc]==2.36.0 ; python_version >= "3.8" and python_version < "3.11"
+typing-extensions==4.7.1 ; python_version >= "3.8" and python_version < "3.11"
+typing-inspect==0.9.0 ; python_version >= "3.8" and python_version < "3.11"
+tzdata==2023.3 ; python_version >= "3.8" and python_version < "3.9"
+unidecode==1.3.6 ; python_version >= "3.8" and python_version < "3.11"
+unittest2==1.1.0 ; python_version >= "3.8" and python_version < "3.11"
+urllib3==2.0.7 ; python_version >= "3.8" and python_version < "3.11"
+vine==5.0.0 ; python_version >= "3.8" and python_version < "3.11"
+vtk==9.2.6 ; python_version >= "3.8" and python_version < "3.11"
+wcwidth==0.2.6 ; python_version >= "3.8" and python_version < "3.11"
+weasyprint==52.5 ; python_version >= "3.8" and python_version < "3.11"
+webencodings==0.5.1 ; python_version >= "3.8" and python_version < "3.11"
+xlsxwriter==3.1.2 ; python_version >= "3.8" and python_version < "3.11"
+xvfbwrapper==0.2.9 ; python_version >= "3.8" and python_version < "3.11"
+zipp==3.16.2 ; python_version >= "3.8" and python_version < "3.10"
 openpyxl
 torch
 pyradiomics
-tqdm
 plotnine
-scipy
 patchworklib