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environment.yml
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environment.yml
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name: stat159-s23
channels:
- conda-forge
dependencies:
# Base language runtimes
- python==3.10.8
- nodejs=16 # VS code-server requires node < 17
# Other user-facing Python packages
- altair==4.2.2
- bash_kernel==0.9.0
- beautifulsoup4==4.11.1
- black==22.12.0
- bokeh==2.4.3
- bqplot==0.12.36
- cartopy==0.21.1
- coverage==7.0.5
- cython==0.29.33
- dask==2023.1.1
- dask-labextension==6.0.0
- datascience==0.17.6
- fortran-magic==0.7
- gh-scoped-creds==4.1
- h5netcdf==1.1.0
- h5py==3.7.0
- hdf4==4.2.15
- hdf5==1.12.2
- hypothesis==6.70.0
- intake==0.6.6
- intake-esm==2022.9.18
- intake-xarray==0.6.1
- ipycanvas==0.13.1
- ipydatagrid==1.1.14
- ipympl==0.9.2
- ipyparallel==8.4.1
- ipywidgets==8.0.4
- jupyter-resource-usage==0.7.1
- jupyter_bokeh==3.0.5
- jupyter_server==2.5.0
- jupyterlab==3.6.3
- jupyterlab-drawio==0.9.0
- jupyterlab-favorites==3.1.1
- jupyterlab-geojson==3.3.1
- jupyterlab-git==0.41.0
# LSP for JupyterLab/Python - enhanced completions/language support
- jupyterlab-lsp==4.0.0
- python-lsp-server==1.7.0
- jupyterlab-link-share==0.2.5
- jupyterlab-variableinspector==3.0.9
- jupyterlab-myst==1.1.3
- jupyterlab_pygments==0.2.2
- jupyterlab_server==2.19.0
- jupyterlab-spellchecker==0.7.3
- jupyterlab_widgets==3.0.5
- jupyter_server_ydoc==0.8.0
- jupytext==1.14.4
- mamba==1.2.0
- matplotlib==3.6.3
- matplotlib-inline==0.1.6
- mock==5.0.1
- nbconvert==6.5.3
# nbdime 3.1.1 is incompatible with jupyter server 2.0
# See https://github.com/jupyter/nbdime/pull/649.
# Use manual pip install from git (see below), revert once
# official compatible release is available.
#- nbdime==3.1.1
- nbgitpuller==1.1.1
- networkx==3.0
- numba==0.56.4
- numpy==1.23.5
- pandas==1.5.3
- pep8==1.7.1
- pillow==9.4.0
- pip==22.3.1
- plotly==5.12.0
- pooch==1.6.0
- prettytable==3.6.0
- pyarrow==10.0.1
- pypdf2==2.11.1
- pytables==3.7.0
- pytest==7.2.1
- pytest-cov==4.0.0
- pytest-notebook==0.6.1
- requests==2.28.2
- ruyaml==0.91.0
- scikit-image==0.19.3
- scikit-learn==1.2.0
- scipy==1.10.0
- seaborn==0.12.2
- sqlparse==0.4.3
- statsmodels==0.13.5
- sympy==1.11.1
- tk==8.6.12
- tornado==6.2.0
- tqdm==4.64.1
- xarray==2023.1.0
- xlrd==2.0.1
# Packages for Jupyter book. These are normal packages, but we put them in a
# separate section so they are easier to manually sync between the main
# environment.yml file and a pip requirements file that _only_ builds
# jupyterbook sites using Github Actions.
- jupyter-book==0.15.0
- jupyter-sphinx==0.4.0
- markdown-it-py==2.2.0
- markupsafe==2.1.2
- myst-nb==0.17.1
# Userland small TeX (similar to tinytex)
- tectonic==0.12.0
# Packages that could be installed via the system package manager
# (apt, homebrew, etc) but we bring them through here for better
# reproducibility
- git==2.39.1
- pandoc==2.19.2
- pandocfilters==1.5.0
# ----------------- Hub-only section ----------------------------
# Packages needed only on the hub (mostly linux)
# If installing this environment on a personal machine,
# comment these out (but not the pip section below)
- micro==2.0.8
- python-pdfkit==1.0.0
- syncthing==1.23.0
- websockify==0.11.0
# VS Code support
- jupyter-vscode-proxy==0.2
- code-server==4.10.1
# Companions to tectonic, not yet available for desktop
- texlab==5.4.0
- chktex==1.7.8
# Packages not available on conda-forge, installed through pip
- pip:
- ipython-sql==0.4.1
- ipytest==0.13.0
- nbval==0.10.0
# nbdime 3.1.1 is incompatible with jupyter server 2.0
# See https://github.com/jupyter/nbdime/pull/649, remove once newer release available.
# nbdime not building ATM - https://github.com/jupyter/nbdime/issues/653
#- git+https://github.com/jupyter/nbdime.git@2da614b
# ----------------- Hub-only section ----------------------------
# Packages needed only on the hub (mostly linux)
# If installing this environment on a personal machine,
# comment these out
- jupyter-remote-desktop-proxy==1.0.0
# syncthing for dropbox-like functionality
- jupyter-syncthing-proxy==1.0.3
# Needed for RTC on NFS-backed hubs
- git+https://github.com/berkeley-dsep-infra/tmpystore.git@84765e1