Python dependencies¶
The Python requirements for this book are:
bokeh
holoviews
jupyter-book
matplotlib
numpy
msprime==1.0.1
pandas
git+https://bitbucket.com/simongravel/moments
The above list is defined in requirements.txt in the GitHub repository.
The precise versions of all packages used to create this book are:
alabaster==0.7.12
anyio==3.4.0
argon2-cffi==21.1.0
attrs==21.2.0
Babel==2.9.1
backcall==0.2.0
beautifulsoup4==4.10.0
bleach==4.1.0
bokeh==2.4.2
certifi==2021.10.8
cffi==1.15.0
charset-normalizer==2.0.8
click==7.1.2
colorama==0.4.4
colorcet==3.0.0
cycler==0.11.0
Cython==0.29.24
debugpy==1.5.1
decorator==5.1.0
defusedxml==0.7.1
demes==0.2.0
docutils==0.16
entrypoints==0.3
fonttools==4.28.2
gitdb==4.0.9
GitPython==3.1.24
greenlet==1.1.2
holoviews==1.14.6
idna==3.3
imagesize==1.3.0
importlib-metadata==4.8.2
importlib-resources==5.4.0
ipykernel==6.6.0
ipython==7.30.0
ipython-genutils==0.2.0
ipywidgets==7.6.5
jedi==0.18.1
Jinja2==3.0.3
jsonschema==3.2.0
jupyter-book==0.12.1
jupyter-cache==0.4.3
jupyter-client==7.1.0
jupyter-core==4.9.1
jupyter-server==1.12.1
jupyter-server-mathjax==0.2.3
jupyter-sphinx==0.3.2
jupyterlab-pygments==0.1.2
jupyterlab-widgets==1.0.2
jupytext==1.11.5
kiwisolver==1.3.2
latexcodec==2.0.1
linkify-it-py==1.0.2
Markdown==3.3.6
markdown-it-py==1.1.0
MarkupSafe==2.0.1
matplotlib==3.5.0
matplotlib-inline==0.1.3
mdit-py-plugins==0.2.8
mistune==0.8.4
moments @ git+https://bitbucket.com/simongravel/moments@1e4136b680312612e2ec31d1f2f3f5521748c9ca
mpmath==1.2.1
msprime==1.0.1
myst-nb==0.13.1
myst-parser==0.15.2
nbclient==0.5.9
nbconvert==6.3.0
nbdime==3.1.1
nbformat==5.1.3
nest-asyncio==1.5.4
newick==1.3.1
notebook==6.4.6
numpy==1.21.4
packaging==21.3
pandas==1.3.4
pandocfilters==1.5.0
panel==0.12.5
param==1.12.0
parso==0.8.3
pexpect==4.8.0
pickleshare==0.7.5
Pillow==8.4.0
prometheus-client==0.12.0
prompt-toolkit==3.0.23
ptyprocess==0.7.0
pybtex==0.24.0
pybtex-docutils==1.0.1
pycparser==2.21
pyct==0.4.8
pydata-sphinx-theme==0.7.2
Pygments==2.10.0
pyparsing==3.0.6
pyrsistent==0.18.0
python-dateutil==2.8.2
pytz==2021.3
pyviz-comms==2.1.0
PyYAML==6.0
pyzmq==22.3.0
requests==2.26.0
ruamel.yaml==0.17.17
ruamel.yaml.clib==0.2.6
scipy==1.7.3
Send2Trash==1.8.0
setuptools-scm==6.3.2
six==1.16.0
smmap==5.0.0
sniffio==1.2.0
snowballstemmer==2.2.0
soupsieve==2.3.1
Sphinx==4.3.1
sphinx-book-theme==0.1.7
sphinx-comments==0.0.3
sphinx-copybutton==0.4.0
sphinx-external-toc==0.2.3
sphinx-jupyterbook-latex==0.4.6
sphinx-multitoc-numbering==0.1.3
sphinx-panels==0.6.0
sphinx-thebe==0.0.10
sphinx-togglebutton==0.2.3
sphinxcontrib-applehelp==1.0.2
sphinxcontrib-bibtex==2.2.1
sphinxcontrib-devhelp==1.0.2
sphinxcontrib-htmlhelp==2.0.0
sphinxcontrib-jsmath==1.0.1
sphinxcontrib-qthelp==1.0.3
sphinxcontrib-serializinghtml==1.1.5
SQLAlchemy==1.4.27
svgwrite==1.4.1
terminado==0.12.1
testpath==0.5.0
toml==0.10.2
tomli==1.2.2
tornado==6.1
tqdm==4.62.3
traitlets==5.1.1
tskit==0.3.7
typing_extensions==4.0.1
uc-micro-py==1.0.1
urllib3==1.26.7
wcwidth==0.2.5
webencodings==0.5.1
websocket-client==1.2.1
widgetsnbextension==3.5.2
zipp==3.6.0