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requirements.lock
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requirements.lock
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# generated by rye
# use `rye lock` or `rye sync` to update this lockfile
#
# last locked with the following flags:
# pre: false
# features: []
# all-features: false
# with-sources: false
# generate-hashes: false
# universal: false
-e file:.
absl-py==2.1.0
# via tensorboard
aiobotocore==2.4.1
# via instanovo
aiohttp==3.9.5
# via aiobotocore
# via datasets
# via fsspec
aioitertools==0.11.0
# via aiobotocore
aiosignal==1.3.1
# via aiohttp
antlr4-python3-runtime==4.9.3
# via omegaconf
anyio==4.4.0
# via httpx
# via jupyter-server
appdirs==1.4.4
# via spectrum-utils
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==23.2.0
# via aiohttp
# via jsonschema
# via referencing
babel==2.16.0
# via jupyterlab-server
beautifulsoup4==4.12.3
# via nbconvert
bleach==6.1.0
# via nbconvert
boto3==1.24.59
# via instanovo
botocore==1.27.59
# via aiobotocore
# via boto3
# via instanovo
# via s3transfer
cachetools==5.4.0
# via google-auth
certifi==2024.7.4
# via httpcore
# via httpx
# via requests
cffi==1.17.0
# via argon2-cffi-bindings
cfgv==3.4.0
# via pre-commit
charset-normalizer==3.3.2
# via requests
click==8.1.7
# via instanovo
# via jiwer
cloudpathlib==0.10.0
# via instanovo
comm==0.2.2
# via ipykernel
# via ipywidgets
contourpy==1.2.1
# via matplotlib
cycler==0.12.1
# via matplotlib
datasets==2.14.5
# via instanovo
debugpy==1.8.2
# via ipykernel
decorator==5.1.1
# via ipython
defusedxml==0.7.1
# via nbconvert
deprecated==1.2.14
# via matchms
depthcharge-ms==0.1.0
# via instanovo
dill==0.3.7
# via datasets
# via multiprocess
distlib==0.3.8
# via virtualenv
einops==0.8.0
# via depthcharge-ms
exceptiongroup==1.2.2
# via anyio
# via ipython
executing==2.0.1
# via stack-data
fastjsonschema==2.20.0
# via nbformat
fastobo==0.12.3
# via spectrum-utils
fastprogress==1.0.3
# via instanovo
filelock==3.15.4
# via huggingface-hub
# via torch
# via triton
# via virtualenv
fonttools==4.53.1
# via matplotlib
fqdn==1.5.1
# via jsonschema
frozenlist==1.4.1
# via aiohttp
# via aiosignal
fsspec==2023.6.0
# via datasets
# via huggingface-hub
# via pytorch-lightning
# via torch
google-auth==2.32.0
# via google-auth-oauthlib
# via tensorboard
google-auth-oauthlib==0.4.6
# via tensorboard
grpcio==1.65.1
# via tensorboard
h11==0.14.0
# via httpcore
h5py==3.11.0
# via depthcharge-ms
httpcore==1.0.5
# via httpx
httpx==0.27.0
# via jupyterlab
huggingface-hub==0.24.0
# via datasets
identify==2.6.0
# via pre-commit
idna==3.7
# via anyio
# via httpx
# via jsonschema
# via requests
# via yarl
instanovo==0.1.7
# via hackathon-indaba-senegal-2024
ipykernel==6.29.5
# via hackathon-indaba-senegal-2024
# via jupyter
# via jupyter-console
# via jupyterlab
# via qtconsole
ipython==8.26.0
# via ipykernel
# via ipywidgets
# via jupyter-console
ipywidgets==8.1.3
# via jupyter
isoduration==20.11.0
# via jsonschema
jedi==0.19.1
# via ipython
jinja2==3.1.4
# via jupyter-server
# via jupyterlab
# via jupyterlab-server
# via nbconvert
# via torch
jiwer==3.0.3
# via instanovo
jmespath==1.0.1
# via boto3
# via botocore
joblib==1.4.2
# via scikit-learn
json5==0.9.25
# via jupyterlab-server
jsonpointer==3.0.0
# via jsonschema
jsonschema==4.23.0
# via jupyter-events
# via jupyterlab-server
# via nbformat
jsonschema-specifications==2023.12.1
# via jsonschema
jupyter==1.0.0
# via hackathon-indaba-senegal-2024
jupyter-client==8.6.2
# via ipykernel
# via jupyter-console
# via jupyter-server
# via nbclient
# via qtconsole
jupyter-console==6.6.3
# via jupyter
jupyter-core==5.7.2
# via ipykernel
# via jupyter-client
# via jupyter-console
# via jupyter-server
# via jupyterlab
# via nbclient
# via nbconvert
# via nbformat
# via qtconsole
jupyter-events==0.10.0
# via jupyter-server
jupyter-lsp==2.2.5
# via jupyterlab
jupyter-server==2.14.2
# via jupyter-lsp
# via jupyterlab
# via jupyterlab-server
# via notebook
# via notebook-shim
jupyter-server-terminals==0.5.3
# via jupyter-server
jupyterlab==4.2.4
# via notebook
jupyterlab-pygments==0.3.0
# via nbconvert
jupyterlab-server==2.27.3
# via jupyterlab
# via notebook
jupyterlab-widgets==3.0.11
# via ipywidgets
kiwisolver==1.4.5
# via matplotlib
lark==1.1.9
# via spectrum-utils
lightning-utilities==0.11.5
# via pytorch-lightning
# via torchmetrics
llvmlite==0.40.1
# via numba
lxml==4.9.4
# via depthcharge-ms
# via matchms
markdown==3.6
# via tensorboard
markupsafe==2.1.5
# via jinja2
# via nbconvert
# via werkzeug
matchms==0.22.0
# via instanovo
matplotlib==3.7.2
# via instanovo
# via matchms
# via pyopenms
# via seaborn
# via spectrum-utils
matplotlib-inline==0.1.7
# via ipykernel
# via ipython
mistune==3.0.2
# via nbconvert
mpmath==1.3.0
# via sympy
multidict==6.0.5
# via aiohttp
# via yarl
multiprocess==0.70.15
# via datasets
nbclient==0.10.0
# via nbconvert
nbconvert==7.16.4
# via jupyter
# via jupyter-server
nbformat==5.10.4
# via jupyter-server
# via nbclient
# via nbconvert
nest-asyncio==1.6.0
# via ipykernel
networkx==3.3
# via matchms
# via torch
nodeenv==1.9.1
# via pre-commit
notebook==7.2.1
# via jupyter
notebook-shim==0.2.4
# via jupyterlab
# via notebook
numba==0.57.1
# via depthcharge-ms
# via instanovo
# via matchms
# via sparsestack
# via spectrum-utils
numpy==1.23.3
# via contourpy
# via datasets
# via depthcharge-ms
# via h5py
# via instanovo
# via matchms
# via matplotlib
# via numba
# via pandas
# via pyarrow
# via pyopenms
# via pytorch-lightning
# via rdkit
# via scikit-learn
# via scipy
# via seaborn
# via sparsestack
# via spectrum-utils
# via tensorboard
# via tensorboardx
# via torchmetrics
nvidia-cublas-cu12==12.1.3.1
# via nvidia-cudnn-cu12
# via nvidia-cusolver-cu12
# via torch
nvidia-cuda-cupti-cu12==12.1.105
# via torch
nvidia-cuda-nvrtc-cu12==12.1.105
# via torch
nvidia-cuda-runtime-cu12==12.1.105
# via torch
nvidia-cudnn-cu12==8.9.2.26
# via torch
nvidia-cufft-cu12==11.0.2.54
# via torch
nvidia-curand-cu12==10.3.2.106
# via torch
nvidia-cusolver-cu12==11.4.5.107
# via torch
nvidia-cusparse-cu12==12.1.0.106
# via nvidia-cusolver-cu12
# via torch
nvidia-nccl-cu12==2.19.3
# via torch
nvidia-nvjitlink-cu12==12.5.82
# via nvidia-cusolver-cu12
# via nvidia-cusparse-cu12
nvidia-nvtx-cu12==12.1.105
# via torch
oauthlib==3.2.2
# via requests-oauthlib
omegaconf==2.2.3
# via instanovo
overrides==7.7.0
# via jupyter-server
packaging==24.1
# via datasets
# via huggingface-hub
# via ipykernel
# via jupyter-server
# via jupyterlab
# via jupyterlab-server
# via lightning-utilities
# via matplotlib
# via nbconvert
# via pytorch-lightning
# via qtconsole
# via qtpy
# via torchmetrics
pandas==2.0.3
# via datasets
# via depthcharge-ms
# via instanovo
# via matchms
# via pyopenms
# via seaborn
pandocfilters==1.5.1
# via nbconvert
parso==0.8.4
# via jedi
pexpect==4.9.0
# via ipython
pickydict==0.4.0
# via matchms
pillow==10.4.0
# via matchms
# via matplotlib
# via rdkit
pip==24.1.2
# via hackathon-indaba-senegal-2024
platformdirs==4.2.2
# via jupyter-core
# via virtualenv
polars==0.19.7
# via instanovo
pre-commit==3.7.1
# via hackathon-indaba-senegal-2024
prometheus-client==0.20.0
# via jupyter-server
prompt-toolkit==3.0.47
# via ipython
# via jupyter-console
protobuf==3.19.6
# via instanovo
# via tensorboard
# via tensorboardx
psutil==6.0.0
# via ipykernel
ptyprocess==0.7.0
# via pexpect
# via terminado
pure-eval==0.2.3
# via stack-data
pyarrow==15.0.0
# via datasets
# via instanovo
pyasn1==0.6.0
# via pyasn1-modules
# via rsa
pyasn1-modules==0.4.0
# via google-auth
pycparser==2.22
# via cffi
pygments==2.18.0
# via ipython
# via jupyter-console
# via nbconvert
# via qtconsole
pyopenms==3.1.0
# via instanovo
pyparsing==3.0.9
# via matplotlib
pyteomics==4.7.2
# via depthcharge-ms
# via matchms
# via spectrum-utils
python-dateutil==2.9.0.post0
# via arrow
# via botocore
# via jupyter-client
# via matplotlib
# via pandas
python-dotenv==0.21.0
# via instanovo
python-json-logger==2.0.7
# via jupyter-events
pytorch-lightning==1.8.6
# via depthcharge-ms
# via instanovo
pytz==2024.1
# via pandas
pyyaml==6.0.1
# via datasets
# via huggingface-hub
# via jupyter-events
# via matchms
# via omegaconf
# via pre-commit
# via pytorch-lightning
pyzmq==26.0.3
# via ipykernel
# via jupyter-client
# via jupyter-console
# via jupyter-server
# via qtconsole
qtconsole==5.5.2
# via jupyter
qtpy==2.4.1
# via qtconsole
rapidfuzz==3.9.4
# via jiwer
rdkit==2023.9.6
# via matchms
referencing==0.35.1
# via jsonschema
# via jsonschema-specifications
# via jupyter-events
requests==2.32.3
# via datasets
# via fsspec
# via huggingface-hub
# via jupyterlab-server
# via matchms
# via requests-oauthlib
# via tensorboard
requests-oauthlib==2.0.0
# via google-auth-oauthlib
rfc3339-validator==0.1.4
# via jsonschema
# via jupyter-events
rfc3986-validator==0.1.1
# via jsonschema
# via jupyter-events
rpds-py==0.20.0
# via jsonschema
# via referencing
rsa==4.9
# via google-auth
s3transfer==0.6.2
# via boto3
scikit-learn==1.1.2
# via instanovo
scipy==1.10.1
# via matchms
# via scikit-learn
# via sparsestack
seaborn==0.12.0
# via instanovo
send2trash==1.8.3
# via jupyter-server
setuptools==71.1.0
# via jupyterlab
# via lightning-utilities
# via tensorboard
six==1.16.0
# via asttokens
# via bleach
# via python-dateutil
# via rfc3339-validator
sniffio==1.3.1
# via anyio
# via httpx
soupsieve==2.6
# via beautifulsoup4
sparsestack==0.4.1
# via matchms
spectrum-utils==0.4.1
# via instanovo
stack-data==0.6.3
# via ipython
sympy==1.13.1
# via torch
tensorboard==2.10.1
# via instanovo
tensorboard-data-server==0.6.1
# via tensorboard
tensorboard-plugin-wit==1.8.1
# via tensorboard
tensorboardx==2.5.1
# via instanovo
# via pytorch-lightning
terminado==0.18.1
# via jupyter-server
# via jupyter-server-terminals
threadpoolctl==3.5.0
# via scikit-learn
tinycss2==1.3.0
# via nbconvert
tomli==2.0.1
# via jupyterlab
torch==2.2.1
# via depthcharge-ms
# via instanovo
# via pytorch-lightning
# via torchmetrics
torchmetrics==1.4.0.post0
# via pytorch-lightning
tornado==6.4.1
# via ipykernel
# via jupyter-client
# via jupyter-server
# via jupyterlab
# via notebook
# via terminado
tqdm==4.65.0
# via datasets
# via huggingface-hub
# via instanovo
# via matchms
# via pytorch-lightning
traitlets==5.14.3
# via comm
# via ipykernel
# via ipython
# via ipywidgets
# via jupyter-client
# via jupyter-console
# via jupyter-core
# via jupyter-events
# via jupyter-server
# via jupyterlab
# via matplotlib-inline
# via nbclient
# via nbconvert
# via nbformat
# via qtconsole
transfusion-asr==0.1.0
# via instanovo
triton==2.2.0
# via torch
types-python-dateutil==2.9.0.20240316
# via arrow
typing-extensions==4.12.2
# via anyio
# via async-lru
# via huggingface-hub
# via ipython
# via lightning-utilities
# via pytorch-lightning
# via torch
tzdata==2024.1
# via pandas
uri-template==1.3.0
# via jsonschema
urllib3==1.26.19
# via botocore
# via requests
virtualenv==20.26.3
# via pre-commit
wcwidth==0.2.13
# via prompt-toolkit
webcolors==24.8.0
# via jsonschema
webencodings==0.5.1
# via bleach
# via tinycss2
websocket-client==1.8.0
# via jupyter-server
werkzeug==3.0.3
# via tensorboard
wheel==0.43.0
# via tensorboard
widgetsnbextension==4.0.11
# via ipywidgets
wrapt==1.16.0
# via aiobotocore
# via deprecated
xxhash==3.4.1
# via datasets
yarl==1.9.4
# via aiohttp