#
# This file is autogenerated by pip-compile with Python 3.9
# by the following command:
#
#    pip-compile --annotation-style=line --extra=test,pipeline,plots --output-file=/output/requirements.txt --strip-extras pyproject.toml
#
aiohappyeyeballs==2.4.0   # via aiohttp
aiohttp==3.10.5           # via gcsfs
aiosignal==1.3.1          # via aiohttp
annotated-types==0.7.0    # via pydantic
antlr4-python3-runtime==4.9.3  # via omegaconf
anyio==4.4.0              # via httpx, jupyter-server
argon2-cffi==23.1.0       # via jupyter-server
argon2-cffi-bindings==21.2.0  # via argon2-cffi
arrow==1.3.0              # via isoduration
asttokens==2.4.1          # via stack-data
async-lru==2.0.4          # via jupyterlab
async-timeout==4.0.3      # via aiohttp
attrs==24.2.0             # via aiohttp, jsonschema, pytest, referencing
babel==2.16.0             # via jupyterlab-server
beautifulsoup4==4.12.3    # via nbconvert
biotite==0.39.0           # via plinder (pyproject.toml)
bleach==6.1.0             # via nbconvert
build==0.9.0              # via plinder (pyproject.toml)
cachetools==5.5.0         # via google-auth, tox
certifi==2024.8.30        # via httpcore, httpx, requests
cffi==1.17.0              # via argon2-cffi-bindings
chardet==5.2.0            # via tox
charset-normalizer==3.3.2  # via requests
cloudpathlib==0.19.0      # via plinder (pyproject.toml)
colorama==0.4.6           # via tox
comm==0.2.2               # via ipykernel, ipywidgets
contourpy==1.3.0          # via matplotlib
coverage==7.6.1           # via pytest-cov
cycler==0.12.1            # via matplotlib
debugpy==1.8.5            # via ipykernel
decorator==5.1.1          # via gcsfs, ipython
defusedxml==0.7.1         # via nbconvert
distlib==0.3.8            # via virtualenv
duckdb==1.0.0             # via plinder (pyproject.toml)
eval-type-backport==0.2.0  # via plinder (pyproject.toml)
exceptiongroup==1.2.2     # via anyio, ipython, pytest
execnet==2.1.1            # via pytest-xdist
executing==2.1.0          # via stack-data
fastjsonschema==2.20.0    # via nbformat
filelock==3.15.4          # via tox, virtualenv
fonttools==4.53.1         # via matplotlib
fqdn==1.5.1               # via jsonschema
frozenlist==1.4.1         # via aiohttp, aiosignal
fsspec==2024.6.1          # via gcsfs
future==1.0.0             # via mmcif
gcsfs==2024.6.1           # via plinder (pyproject.toml)
gemmi==0.6.6              # via plinder (pyproject.toml)
google-api-core==2.19.2   # via google-cloud-core, google-cloud-storage
google-auth==2.34.0       # via gcsfs, google-api-core, google-auth-oauthlib, google-cloud-core, google-cloud-storage
google-auth-oauthlib==1.2.1  # via gcsfs
google-cloud-core==2.4.1  # via google-cloud-storage
google-cloud-storage==2.18.2  # via gcsfs, plinder (pyproject.toml)
google-crc32c==1.6.0      # via google-cloud-storage, google-resumable-media
google-resumable-media==2.7.2  # via google-cloud-storage
googleapis-common-protos==1.65.0  # via google-api-core
h11==0.14.0               # via httpcore
httpcore==1.0.5           # via httpx
httpx==0.27.2             # via jupyterlab
idna==3.8                 # via anyio, httpx, jsonschema, requests, yarl
importlib-metadata==8.4.0  # via jupyter-client, jupyter-lsp, jupyterlab, jupyterlab-server, nbconvert
importlib-resources==6.4.4  # via matplotlib
iniconfig==2.0.0          # via pytest
ipykernel==6.29.5         # via jupyterlab
ipython==8.18.1           # via ipykernel, ipywidgets
ipython-genutils==0.2.0   # via ipywidgets
ipywidgets==7.8.4         # via mols2grid
isoduration==20.11.0      # via jsonschema
jedi==0.19.1              # via ipython
jinja2==3.1.4             # via jupyter-server, jupyterlab, jupyterlab-server, mols2grid, nbconvert
json5==0.9.25             # via jupyterlab-server
jsonpointer==3.0.0        # via jsonschema
jsonschema==4.23.0        # via jupyter-events, jupyterlab-server, nbformat
jsonschema-specifications==2023.12.1  # via jsonschema
jupyter-client==8.6.2     # via ipykernel, jupyter-server, nbclient
jupyter-core==5.7.2       # via ipykernel, jupyter-client, jupyter-server, jupyterlab, nbclient, nbconvert, nbformat
jupyter-events==0.10.0    # via jupyter-server
jupyter-lsp==2.2.5        # via jupyterlab
jupyter-server==2.14.2    # via jupyter-lsp, jupyterlab, jupyterlab-server, notebook, notebook-shim
jupyter-server-terminals==0.5.3  # via jupyter-server
jupyterlab==4.2.5         # via notebook
jupyterlab-pygments==0.3.0  # via nbconvert
jupyterlab-server==2.27.3  # via jupyterlab, notebook
jupyterlab-widgets==1.1.10  # via ipywidgets
kiwisolver==1.4.5         # via matplotlib
markupsafe==2.1.5         # via jinja2, nbconvert
matplotlib==3.9.2         # via matplotlib-venn, plinder (pyproject.toml), seaborn
matplotlib-inline==0.1.7  # via ipykernel, ipython
matplotlib-venn==1.1.1    # via plinder (pyproject.toml)
mistune==3.0.2            # via nbconvert
mmcif==0.89.0             # via plinder (pyproject.toml)
mols2grid==2.0.0          # via plinder (pyproject.toml)
msgpack==1.0.8            # via biotite, mmcif
multidict==6.0.5          # via aiohttp, yarl
nbclient==0.10.0          # via nbconvert
nbconvert==7.16.4         # via jupyter-server
nbformat==5.10.4          # via jupyter-server, nbclient, nbconvert, plinder (pyproject.toml)
nest-asyncio==1.6.0       # via ipykernel
networkx==3.2.1           # via biotite
notebook==7.2.2           # via widgetsnbextension
notebook-shim==0.2.4      # via jupyterlab, notebook
numpy==1.26.4             # via biotite, contourpy, matplotlib, matplotlib-venn, mols2grid, pandas, plinder (pyproject.toml), posebusters, pyarrow, rdkit, scipy, seaborn
oauthlib==3.2.2           # via requests-oauthlib
omegaconf==2.3.0          # via plinder (pyproject.toml)
overrides==7.7.0          # via jupyter-server
packaging==24.1           # via build, ipykernel, jupyter-server, jupyterlab, jupyterlab-server, matplotlib, nbconvert, plotly, pyproject-api, pytest, setuptools-scm, tox
pandas==2.2.2             # via mols2grid, plinder (pyproject.toml), posebusters, seaborn
pandocfilters==1.5.1      # via nbconvert
parso==0.8.4              # via jedi
pep517==0.13.1            # via build
pexpect==4.9.0            # via ipython
pillow==10.4.0            # via matplotlib, rdkit
platformdirs==4.2.2       # via jupyter-core, tox, virtualenv
plotly==5.24.0            # via plinder (pyproject.toml)
pluggy==1.5.0             # via pytest, tox
posebusters==0.3.1        # via plinder (pyproject.toml)
prometheus-client==0.20.0  # via jupyter-server
prompt-toolkit==3.0.47    # via ipython
proto-plus==1.24.0        # via google-api-core
protobuf==5.28.0          # via google-api-core, googleapis-common-protos, proto-plus
psutil==6.0.0             # via ipykernel
ptyprocess==0.7.0         # via pexpect, terminado
pure-eval==0.2.3          # via stack-data
pyarrow==17.0.0           # via plinder (pyproject.toml)
pyasn1==0.6.0             # via pyasn1-modules, rsa
pyasn1-modules==0.4.0     # via google-auth
pycparser==2.22           # via cffi
pydantic==2.8.2           # via plinder (pyproject.toml)
pydantic-core==2.20.1     # via pydantic
pygments==2.18.0          # via ipython, nbconvert
pyparsing==3.1.4          # via matplotlib
pyproject-api==1.7.1      # via tox
pytest==7.2.0             # via plinder (pyproject.toml), pytest-cov, pytest-xdist
pytest-cov==4.0.0         # via plinder (pyproject.toml)
pytest-xdist==3.6.1       # via plinder (pyproject.toml)
python-dateutil==2.9.0.post0  # via arrow, jupyter-client, matplotlib, pandas
python-json-logger==2.0.7  # via jupyter-events
pytz==2024.1              # via pandas
pyyaml==6.0.2             # via jupyter-events, omegaconf, posebusters
pyzmq==26.2.0             # via ipykernel, jupyter-client, jupyter-server
rdkit==2023.9.5           # via plinder (pyproject.toml), posebusters
referencing==0.35.1       # via jsonschema, jsonschema-specifications, jupyter-events
requests==2.32.3          # via biotite, gcsfs, google-api-core, google-cloud-storage, jupyterlab-server, mmcif, requests-oauthlib
requests-oauthlib==2.0.0  # via google-auth-oauthlib
rfc3339-validator==0.1.4  # via jsonschema, jupyter-events
rfc3986-validator==0.1.1  # via jsonschema, jupyter-events
rpds-py==0.20.0           # via jsonschema, referencing
rsa==4.9                  # via google-auth
scipy==1.13.1             # via matplotlib-venn, plinder (pyproject.toml)
seaborn==0.13.2           # via plinder (pyproject.toml)
send2trash==1.8.3         # via jupyter-server
setuptools-scm==7.0.5     # via plinder (pyproject.toml)
six==1.16.0               # via asttokens, bleach, mmcif, plinder (pyproject.toml), python-dateutil, rfc3339-validator
sniffio==1.3.1            # via anyio, httpx
soupsieve==2.6            # via beautifulsoup4
stack-data==0.6.3         # via ipython
tenacity==9.0.0           # via plotly
terminado==0.18.1         # via jupyter-server, jupyter-server-terminals
tinycss2==1.3.0           # via nbconvert
tomli==2.0.1              # via build, coverage, jupyterlab, pep517, pyproject-api, pytest, setuptools-scm, tox
tornado==6.4.1            # via ipykernel, jupyter-client, jupyter-server, jupyterlab, notebook, terminado
tox==4.18.0               # via plinder (pyproject.toml)
tqdm==4.66.5              # via plinder (pyproject.toml)
traitlets==5.14.3         # via comm, ipykernel, ipython, ipywidgets, jupyter-client, jupyter-core, jupyter-events, jupyter-server, jupyterlab, matplotlib-inline, nbclient, nbconvert, nbformat
types-python-dateutil==2.9.0.20240821  # via arrow
typing-extensions==4.12.2  # via anyio, async-lru, cloudpathlib, ipython, plinder (pyproject.toml), pydantic, pydantic-core, setuptools-scm
tzdata==2024.1            # via pandas
uri-template==1.3.0       # via jsonschema
urllib3==2.2.2            # via requests
virtualenv==20.26.3       # via tox
wcwidth==0.2.13           # via prompt-toolkit
webcolors==24.8.0         # via jsonschema
webencodings==0.5.1       # via bleach, tinycss2
websocket-client==1.8.0   # via jupyter-server
widgetsnbextension==3.6.9  # via ipywidgets
yarl==1.9.7               # via aiohttp
zipp==3.20.1              # via importlib-metadata, importlib-resources

# The following packages are considered to be unsafe in a requirements file:
# setuptools
