From 1bb8b105829a7ab9b576342554c83155b2b4cc51 Mon Sep 17 00:00:00 2001
From: bloodearnest <simon.davy@thedatalab.org>
Date: Tue, 5 Dec 2023 15:47:25 +0000
Subject: [PATCH] Update to latest packages

---
 justfile            |   2 +-
 v2/packages.md      | 397 ++++++++++++++++++++++----------------------
 v2/requirements.txt | 109 ++++++------
 3 files changed, 253 insertions(+), 255 deletions(-)

diff --git a/justfile b/justfile
index 582c373..2b05e3f 100644
--- a/justfile
+++ b/justfile
@@ -17,7 +17,7 @@ test version *args="tests -v": (build version)
 
 
 # run pip-compile to add new dependencies, or update existing ones with --upgrade
-update version *args="": (build version)
+update version *args="":
     docker compose --env-file {{ version }}/env run --rm -v $PWD:/workspace base pip-compile {{ args }} {{ version }}/requirements.in -o {{ version }}/requirements.txt
     {{ just_executable() }} render {{ version }}
     {{ just_executable() }} test {{ version }}
diff --git a/v2/packages.md b/v2/packages.md
index 61176a1..4320c60 100644
--- a/v2/packages.md
+++ b/v2/packages.md
@@ -1,200 +1,197 @@
-# Package Versions for v2
-
-> [!NOTE]  
-> This file is auto-generated - do not edit.
-
-This python:v2 OpenSAFELY image is based on Ubuntu 22.04 with Python 3.10.12.
-
-## Packages
-
-It comes pre-installed with a standard set of python packages.
-
-- [anyio: 4.0.0](https://pypi.org/project/anyio/4.0.0/)
-- [argon2-cffi: 23.1.0](https://pypi.org/project/argon2-cffi/23.1.0/)
-- [argon2-cffi-bindings: 21.2.0](https://pypi.org/project/argon2-cffi-bindings/21.2.0/)
-- [arrow: 1.3.0](https://pypi.org/project/arrow/1.3.0/)
-- [astor: 0.8.1](https://pypi.org/project/astor/0.8.1/)
-- [asttokens: 2.4.1](https://pypi.org/project/asttokens/2.4.1/)
-- [async-lru: 2.0.4](https://pypi.org/project/async-lru/2.0.4/)
-- [attrs: 23.1.0](https://pypi.org/project/attrs/23.1.0/)
-- [autograd: 1.6.2](https://pypi.org/project/autograd/1.6.2/)
-- [autograd-gamma: 0.5.0](https://pypi.org/project/autograd-gamma/0.5.0/)
-- [babel: 2.13.1](https://pypi.org/project/babel/2.13.1/)
-- [bash-kernel: 0.9.1](https://pypi.org/project/bash-kernel/0.9.1/)
-- [beautifulsoup4: 4.12.2](https://pypi.org/project/beautifulsoup4/4.12.2/)
-- [bleach: 6.1.0](https://pypi.org/project/bleach/6.1.0/)
-- [build: 1.0.3](https://pypi.org/project/build/1.0.3/)
-- [cachetools: 5.3.2](https://pypi.org/project/cachetools/5.3.2/)
-- [cairocffi: 1.6.1](https://pypi.org/project/cairocffi/1.6.1/)
-- [cairosvg: 2.7.1](https://pypi.org/project/cairosvg/2.7.1/)
-- [certifi: 2023.11.17](https://pypi.org/project/certifi/2023.11.17/)
-- [cffi: 1.16.0](https://pypi.org/project/cffi/1.16.0/)
-- [charset-normalizer: 3.3.2](https://pypi.org/project/charset-normalizer/3.3.2/)
-- [click: 8.1.7](https://pypi.org/project/click/8.1.7/)
-- [click-plugins: 1.1.1](https://pypi.org/project/click-plugins/1.1.1/)
-- [cligj: 0.7.2](https://pypi.org/project/cligj/0.7.2/)
-- [comm: 0.2.0](https://pypi.org/project/comm/0.2.0/)
-- [contourpy: 1.2.0](https://pypi.org/project/contourpy/1.2.0/)
-- [coverage: 7.3.2](https://pypi.org/project/coverage/7.3.2/)
-- [cssselect2: 0.7.0](https://pypi.org/project/cssselect2/0.7.0/)
-- [cycler: 0.12.1](https://pypi.org/project/cycler/0.12.1/)
-- [db-dtypes: 1.1.1](https://pypi.org/project/db-dtypes/1.1.1/)
-- [debugpy: 1.8.0](https://pypi.org/project/debugpy/1.8.0/)
-- [decorator: 5.1.1](https://pypi.org/project/decorator/5.1.1/)
-- [defusedxml: 0.7.1](https://pypi.org/project/defusedxml/0.7.1/)
-- [descartes: 1.1.0](https://pypi.org/project/descartes/1.1.0/)
-- [ebmdatalab: 0.0.30](https://pypi.org/project/ebmdatalab/0.0.30/)
-- [exceptiongroup: 1.2.0](https://pypi.org/project/exceptiongroup/1.2.0/)
-- [executing: 2.0.1](https://pypi.org/project/executing/2.0.1/)
-- [fastjsonschema: 2.19.0](https://pypi.org/project/fastjsonschema/2.19.0/)
-- [fiona: 1.9.5](https://pypi.org/project/fiona/1.9.5/)
-- [fonttools: 4.45.0](https://pypi.org/project/fonttools/4.45.0/)
-- [formulaic: 0.6.6](https://pypi.org/project/formulaic/0.6.6/)
-- [fqdn: 1.5.1](https://pypi.org/project/fqdn/1.5.1/)
-- [future: 0.18.3](https://pypi.org/project/future/0.18.3/)
-- [geopandas: 0.14.1](https://pypi.org/project/geopandas/0.14.1/)
-- [google-api-core[grpc]: 2.14.0](https://pypi.org/project/google-api-core/2.14.0/)
-- [google-auth: 2.23.4](https://pypi.org/project/google-auth/2.23.4/)
-- [google-auth-oauthlib: 1.1.0](https://pypi.org/project/google-auth-oauthlib/1.1.0/)
-- [google-cloud-bigquery: 3.13.0](https://pypi.org/project/google-cloud-bigquery/3.13.0/)
-- [google-cloud-bigquery-storage: 2.22.0](https://pypi.org/project/google-cloud-bigquery-storage/2.22.0/)
-- [google-cloud-core: 2.3.3](https://pypi.org/project/google-cloud-core/2.3.3/)
-- [google-crc32c: 1.5.0](https://pypi.org/project/google-crc32c/1.5.0/)
-- [google-resumable-media: 2.6.0](https://pypi.org/project/google-resumable-media/2.6.0/)
-- [googleapis-common-protos: 1.61.0](https://pypi.org/project/googleapis-common-protos/1.61.0/)
-- [grpcio: 1.59.3](https://pypi.org/project/grpcio/1.59.3/)
-- [grpcio-status: 1.59.3](https://pypi.org/project/grpcio-status/1.59.3/)
-- [idna: 3.4](https://pypi.org/project/idna/3.4/)
-- [iniconfig: 2.0.0](https://pypi.org/project/iniconfig/2.0.0/)
-- [interface-meta: 1.3.0](https://pypi.org/project/interface-meta/1.3.0/)
-- [ipykernel: 6.27.0](https://pypi.org/project/ipykernel/6.27.0/)
-- [ipython: 8.17.2](https://pypi.org/project/ipython/8.17.2/)
-- [ipywidgets: 8.1.1](https://pypi.org/project/ipywidgets/8.1.1/)
-- [isoduration: 20.11.0](https://pypi.org/project/isoduration/20.11.0/)
-- [jedi: 0.19.1](https://pypi.org/project/jedi/0.19.1/)
-- [jinja2: 3.1.2](https://pypi.org/project/jinja2/3.1.2/)
-- [joblib: 1.3.2](https://pypi.org/project/joblib/1.3.2/)
-- [json5: 0.9.14](https://pypi.org/project/json5/0.9.14/)
-- [jsonpointer: 2.4](https://pypi.org/project/jsonpointer/2.4/)
-- [jsonschema[format-nongpl]: 4.20.0](https://pypi.org/project/jsonschema/4.20.0/)
-- [jsonschema-specifications: 2023.11.1](https://pypi.org/project/jsonschema-specifications/2023.11.1/)
-- [jupyter: 1.0.0](https://pypi.org/project/jupyter/1.0.0/)
-- [jupyter-client: 8.6.0](https://pypi.org/project/jupyter-client/8.6.0/)
-- [jupyter-console: 6.6.3](https://pypi.org/project/jupyter-console/6.6.3/)
-- [jupyter-core: 5.5.0](https://pypi.org/project/jupyter-core/5.5.0/)
-- [jupyter-events: 0.9.0](https://pypi.org/project/jupyter-events/0.9.0/)
-- [jupyter-lsp: 2.2.0](https://pypi.org/project/jupyter-lsp/2.2.0/)
-- [jupyter-server: 2.11.0](https://pypi.org/project/jupyter-server/2.11.0/)
-- [jupyter-server-terminals: 0.4.4](https://pypi.org/project/jupyter-server-terminals/0.4.4/)
-- [jupyterlab: 4.0.9](https://pypi.org/project/jupyterlab/4.0.9/)
-- [jupyterlab-pygments: 0.2.2](https://pypi.org/project/jupyterlab-pygments/0.2.2/)
-- [jupyterlab-server: 2.25.2](https://pypi.org/project/jupyterlab-server/2.25.2/)
-- [jupyterlab-widgets: 3.0.9](https://pypi.org/project/jupyterlab-widgets/3.0.9/)
-- [jupytext: 1.15.2](https://pypi.org/project/jupytext/1.15.2/)
-- [kaleido: 0.2.1](https://pypi.org/project/kaleido/0.2.1/)
-- [kiwisolver: 1.4.5](https://pypi.org/project/kiwisolver/1.4.5/)
-- [lifelines: 0.27.8](https://pypi.org/project/lifelines/0.27.8/)
-- [llvmlite: 0.41.1](https://pypi.org/project/llvmlite/0.41.1/)
-- [lz4: 4.3.2](https://pypi.org/project/lz4/4.3.2/)
-- [markdown-it-py: 3.0.0](https://pypi.org/project/markdown-it-py/3.0.0/)
-- [markupsafe: 2.1.3](https://pypi.org/project/markupsafe/2.1.3/)
-- [matplotlib: 3.8.2](https://pypi.org/project/matplotlib/3.8.2/)
-- [matplotlib-inline: 0.1.6](https://pypi.org/project/matplotlib-inline/0.1.6/)
-- [mdit-py-plugins: 0.4.0](https://pypi.org/project/mdit-py-plugins/0.4.0/)
-- [mdurl: 0.1.2](https://pypi.org/project/mdurl/0.1.2/)
-- [mistune: 3.0.2](https://pypi.org/project/mistune/3.0.2/)
-- [nbclient: 0.9.0](https://pypi.org/project/nbclient/0.9.0/)
-- [nbconvert: 7.11.0](https://pypi.org/project/nbconvert/7.11.0/)
-- [nbformat: 5.9.2](https://pypi.org/project/nbformat/5.9.2/)
-- [nbval: 0.10.0](https://pypi.org/project/nbval/0.10.0/)
-- [nest-asyncio: 1.5.8](https://pypi.org/project/nest-asyncio/1.5.8/)
-- [notebook: 7.0.6](https://pypi.org/project/notebook/7.0.6/)
-- [notebook-shim: 0.2.3](https://pypi.org/project/notebook-shim/0.2.3/)
-- [numba: 0.58.1](https://pypi.org/project/numba/0.58.1/)
-- [numpy: 1.26.2](https://pypi.org/project/numpy/1.26.2/)
-- [oauthlib: 3.2.2](https://pypi.org/project/oauthlib/3.2.2/)
-- [opensafely-cohort-extractor: 1.90.0](https://pypi.org/project/opensafely-cohort-extractor/1.90.0/)
-- [opensafely-matching: 0.2.0](https://pypi.org/project/opensafely-matching/0.2.0/)
-- [overrides: 7.4.0](https://pypi.org/project/overrides/7.4.0/)
-- [packaging: 23.2](https://pypi.org/project/packaging/23.2/)
-- [pandas: 2.1.3](https://pypi.org/project/pandas/2.1.3/)
-- [pandas-gbq: 0.19.2](https://pypi.org/project/pandas-gbq/0.19.2/)
-- [pandocfilters: 1.5.0](https://pypi.org/project/pandocfilters/1.5.0/)
-- [parso: 0.8.3](https://pypi.org/project/parso/0.8.3/)
-- [patsy: 0.5.3](https://pypi.org/project/patsy/0.5.3/)
-- [pexpect: 4.8.0](https://pypi.org/project/pexpect/4.8.0/)
-- [pillow: 10.1.0](https://pypi.org/project/pillow/10.1.0/)
-- [pip-tools: 7.3.0](https://pypi.org/project/pip-tools/7.3.0/)
-- [platformdirs: 4.0.0](https://pypi.org/project/platformdirs/4.0.0/)
-- [plotly: 5.18.0](https://pypi.org/project/plotly/5.18.0/)
-- [pluggy: 1.3.0](https://pypi.org/project/pluggy/1.3.0/)
-- [prometheus-client: 0.19.0](https://pypi.org/project/prometheus-client/0.19.0/)
-- [prompt-toolkit: 3.0.41](https://pypi.org/project/prompt-toolkit/3.0.41/)
-- [proto-plus: 1.22.3](https://pypi.org/project/proto-plus/1.22.3/)
-- [protobuf: 4.25.1](https://pypi.org/project/protobuf/4.25.1/)
-- [psutil: 5.9.6](https://pypi.org/project/psutil/5.9.6/)
-- [ptyprocess: 0.7.0](https://pypi.org/project/ptyprocess/0.7.0/)
-- [pure-eval: 0.2.2](https://pypi.org/project/pure-eval/0.2.2/)
-- [py: 1.11.0](https://pypi.org/project/py/1.11.0/)
-- [pyarrow: 14.0.1](https://pypi.org/project/pyarrow/14.0.1/)
-- [pyasn1: 0.5.1](https://pypi.org/project/pyasn1/0.5.1/)
-- [pyasn1-modules: 0.3.0](https://pypi.org/project/pyasn1-modules/0.3.0/)
-- [pycparser: 2.21](https://pypi.org/project/pycparser/2.21/)
-- [pydata-google-auth: 1.8.2](https://pypi.org/project/pydata-google-auth/1.8.2/)
-- [pygments: 2.17.1](https://pypi.org/project/pygments/2.17.1/)
-- [pyparsing: 3.1.1](https://pypi.org/project/pyparsing/3.1.1/)
-- [pyproj: 3.6.1](https://pypi.org/project/pyproj/3.6.1/)
-- [pyproject-hooks: 1.0.0](https://pypi.org/project/pyproject-hooks/1.0.0/)
-- [pytest: 7.4.3](https://pypi.org/project/pytest/7.4.3/)
-- [python-dateutil: 2.8.2](https://pypi.org/project/python-dateutil/2.8.2/)
-- [python-json-logger: 2.0.7](https://pypi.org/project/python-json-logger/2.0.7/)
-- [pytz: 2023.3.post1](https://pypi.org/project/pytz/2023.3.post1/)
-- [pyyaml: 6.0.1](https://pypi.org/project/pyyaml/6.0.1/)
-- [pyzmq: 25.1.1](https://pypi.org/project/pyzmq/25.1.1/)
-- [qtconsole: 5.5.1](https://pypi.org/project/qtconsole/5.5.1/)
-- [qtpy: 2.4.1](https://pypi.org/project/qtpy/2.4.1/)
-- [referencing: 0.31.0](https://pypi.org/project/referencing/0.31.0/)
-- [requests: 2.31.0](https://pypi.org/project/requests/2.31.0/)
-- [requests-oauthlib: 1.3.1](https://pypi.org/project/requests-oauthlib/1.3.1/)
-- [retry: 0.9.2](https://pypi.org/project/retry/0.9.2/)
-- [rfc3339-validator: 0.1.4](https://pypi.org/project/rfc3339-validator/0.1.4/)
-- [rfc3986-validator: 0.1.1](https://pypi.org/project/rfc3986-validator/0.1.1/)
-- [rpds-py: 0.13.1](https://pypi.org/project/rpds-py/0.13.1/)
-- [rsa: 4.9](https://pypi.org/project/rsa/4.9/)
-- [scikit-learn: 1.3.2](https://pypi.org/project/scikit-learn/1.3.2/)
-- [scipy: 1.11.4](https://pypi.org/project/scipy/1.11.4/)
-- [seaborn: 0.13.0](https://pypi.org/project/seaborn/0.13.0/)
-- [send2trash: 1.8.2](https://pypi.org/project/send2trash/1.8.2/)
-- [shapely: 2.0.2](https://pypi.org/project/shapely/2.0.2/)
-- [six: 1.16.0](https://pypi.org/project/six/1.16.0/)
-- [sniffio: 1.3.0](https://pypi.org/project/sniffio/1.3.0/)
-- [soupsieve: 2.5](https://pypi.org/project/soupsieve/2.5/)
-- [sqlparse: 0.4.4](https://pypi.org/project/sqlparse/0.4.4/)
-- [stack-data: 0.6.3](https://pypi.org/project/stack-data/0.6.3/)
-- [statsmodels: 0.14.0](https://pypi.org/project/statsmodels/0.14.0/)
-- [structlog: 23.2.0](https://pypi.org/project/structlog/23.2.0/)
-- [tabulate: 0.9.0](https://pypi.org/project/tabulate/0.9.0/)
-- [tenacity: 8.2.3](https://pypi.org/project/tenacity/8.2.3/)
-- [terminado: 0.18.0](https://pypi.org/project/terminado/0.18.0/)
-- [threadpoolctl: 3.2.0](https://pypi.org/project/threadpoolctl/3.2.0/)
-- [tinycss2: 1.2.1](https://pypi.org/project/tinycss2/1.2.1/)
-- [toml: 0.10.2](https://pypi.org/project/toml/0.10.2/)
-- [tomli: 2.0.1](https://pypi.org/project/tomli/2.0.1/)
-- [tornado: 6.3.3](https://pypi.org/project/tornado/6.3.3/)
-- [tqdm: 4.66.1](https://pypi.org/project/tqdm/4.66.1/)
-- [traitlets: 5.13.0](https://pypi.org/project/traitlets/5.13.0/)
-- [types-python-dateutil: 2.8.19.14](https://pypi.org/project/types-python-dateutil/2.8.19.14/)
-- [typing-extensions: 4.8.0](https://pypi.org/project/typing-extensions/4.8.0/)
-- [tzdata: 2023.3](https://pypi.org/project/tzdata/2023.3/)
-- [upsetplot: 0.8.0](https://pypi.org/project/upsetplot/0.8.0/)
-- [uri-template: 1.3.0](https://pypi.org/project/uri-template/1.3.0/)
-- [urllib3: 2.1.0](https://pypi.org/project/urllib3/2.1.0/)
-- [venn: 0.1.3](https://pypi.org/project/venn/0.1.3/)
-- [wcwidth: 0.2.11](https://pypi.org/project/wcwidth/0.2.11/)
-- [webcolors: 1.13](https://pypi.org/project/webcolors/1.13/)
-- [webencodings: 0.5.1](https://pypi.org/project/webencodings/0.5.1/)
-- [websocket-client: 1.6.4](https://pypi.org/project/websocket-client/1.6.4/)
-- [wheel: 0.41.3](https://pypi.org/project/wheel/0.41.3/)
-- [widgetsnbextension: 4.0.9](https://pypi.org/project/widgetsnbextension/4.0.9/)
-- [wrapt: 1.16.0](https://pypi.org/project/wrapt/1.16.0/)
-
+# Package Versions for v2
+
+This python:v2 OpenSAFELY image is based on Ubuntu 22.04 with Python 3.10.12.
+
+## Packages
+
+It comes pre-installed with a standard set of python packages.
+
+- [anyio: 4.1.0](https://pypi.org/project/anyio/4.1.0/)
+- [argon2-cffi: 23.1.0](https://pypi.org/project/argon2-cffi/23.1.0/)
+- [argon2-cffi-bindings: 21.2.0](https://pypi.org/project/argon2-cffi-bindings/21.2.0/)
+- [arrow: 1.3.0](https://pypi.org/project/arrow/1.3.0/)
+- [astor: 0.8.1](https://pypi.org/project/astor/0.8.1/)
+- [asttokens: 2.4.1](https://pypi.org/project/asttokens/2.4.1/)
+- [async-lru: 2.0.4](https://pypi.org/project/async-lru/2.0.4/)
+- [attrs: 23.1.0](https://pypi.org/project/attrs/23.1.0/)
+- [autograd: 1.6.2](https://pypi.org/project/autograd/1.6.2/)
+- [autograd-gamma: 0.5.0](https://pypi.org/project/autograd-gamma/0.5.0/)
+- [babel: 2.13.1](https://pypi.org/project/babel/2.13.1/)
+- [bash-kernel: 0.9.3](https://pypi.org/project/bash-kernel/0.9.3/)
+- [beautifulsoup4: 4.12.2](https://pypi.org/project/beautifulsoup4/4.12.2/)
+- [bleach: 6.1.0](https://pypi.org/project/bleach/6.1.0/)
+- [build: 1.0.3](https://pypi.org/project/build/1.0.3/)
+- [cachetools: 5.3.2](https://pypi.org/project/cachetools/5.3.2/)
+- [cairocffi: 1.6.1](https://pypi.org/project/cairocffi/1.6.1/)
+- [cairosvg: 2.7.1](https://pypi.org/project/cairosvg/2.7.1/)
+- [certifi: 2023.11.17](https://pypi.org/project/certifi/2023.11.17/)
+- [cffi: 1.16.0](https://pypi.org/project/cffi/1.16.0/)
+- [charset-normalizer: 3.3.2](https://pypi.org/project/charset-normalizer/3.3.2/)
+- [click: 8.1.7](https://pypi.org/project/click/8.1.7/)
+- [click-plugins: 1.1.1](https://pypi.org/project/click-plugins/1.1.1/)
+- [cligj: 0.7.2](https://pypi.org/project/cligj/0.7.2/)
+- [comm: 0.2.0](https://pypi.org/project/comm/0.2.0/)
+- [contourpy: 1.2.0](https://pypi.org/project/contourpy/1.2.0/)
+- [coverage: 7.3.2](https://pypi.org/project/coverage/7.3.2/)
+- [cssselect2: 0.7.0](https://pypi.org/project/cssselect2/0.7.0/)
+- [cycler: 0.12.1](https://pypi.org/project/cycler/0.12.1/)
+- [db-dtypes: 1.1.1](https://pypi.org/project/db-dtypes/1.1.1/)
+- [debugpy: 1.8.0](https://pypi.org/project/debugpy/1.8.0/)
+- [decorator: 5.1.1](https://pypi.org/project/decorator/5.1.1/)
+- [defusedxml: 0.7.1](https://pypi.org/project/defusedxml/0.7.1/)
+- [descartes: 1.1.0](https://pypi.org/project/descartes/1.1.0/)
+- [ebmdatalab: 0.0.30](https://pypi.org/project/ebmdatalab/0.0.30/)
+- [exceptiongroup: 1.2.0](https://pypi.org/project/exceptiongroup/1.2.0/)
+- [executing: 2.0.1](https://pypi.org/project/executing/2.0.1/)
+- [fastjsonschema: 2.19.0](https://pypi.org/project/fastjsonschema/2.19.0/)
+- [fiona: 1.9.5](https://pypi.org/project/fiona/1.9.5/)
+- [fonttools: 4.46.0](https://pypi.org/project/fonttools/4.46.0/)
+- [formulaic: 0.6.6](https://pypi.org/project/formulaic/0.6.6/)
+- [fqdn: 1.5.1](https://pypi.org/project/fqdn/1.5.1/)
+- [future: 0.18.3](https://pypi.org/project/future/0.18.3/)
+- [geopandas: 0.14.1](https://pypi.org/project/geopandas/0.14.1/)
+- [google-api-core[grpc]: 2.14.0](https://pypi.org/project/google-api-core/2.14.0/)
+- [google-auth: 2.24.0](https://pypi.org/project/google-auth/2.24.0/)
+- [google-auth-oauthlib: 1.1.0](https://pypi.org/project/google-auth-oauthlib/1.1.0/)
+- [google-cloud-bigquery: 3.13.0](https://pypi.org/project/google-cloud-bigquery/3.13.0/)
+- [google-cloud-bigquery-storage: 2.23.0](https://pypi.org/project/google-cloud-bigquery-storage/2.23.0/)
+- [google-cloud-core: 2.3.3](https://pypi.org/project/google-cloud-core/2.3.3/)
+- [google-crc32c: 1.5.0](https://pypi.org/project/google-crc32c/1.5.0/)
+- [google-resumable-media: 2.6.0](https://pypi.org/project/google-resumable-media/2.6.0/)
+- [googleapis-common-protos: 1.61.0](https://pypi.org/project/googleapis-common-protos/1.61.0/)
+- [grpcio: 1.59.3](https://pypi.org/project/grpcio/1.59.3/)
+- [grpcio-status: 1.59.3](https://pypi.org/project/grpcio-status/1.59.3/)
+- [idna: 3.6](https://pypi.org/project/idna/3.6/)
+- [iniconfig: 2.0.0](https://pypi.org/project/iniconfig/2.0.0/)
+- [interface-meta: 1.3.0](https://pypi.org/project/interface-meta/1.3.0/)
+- [ipykernel: 6.27.1](https://pypi.org/project/ipykernel/6.27.1/)
+- [ipython: 8.18.1](https://pypi.org/project/ipython/8.18.1/)
+- [ipywidgets: 8.1.1](https://pypi.org/project/ipywidgets/8.1.1/)
+- [isoduration: 20.11.0](https://pypi.org/project/isoduration/20.11.0/)
+- [jedi: 0.19.1](https://pypi.org/project/jedi/0.19.1/)
+- [jinja2: 3.1.2](https://pypi.org/project/jinja2/3.1.2/)
+- [joblib: 1.3.2](https://pypi.org/project/joblib/1.3.2/)
+- [json5: 0.9.14](https://pypi.org/project/json5/0.9.14/)
+- [jsonpointer: 2.4](https://pypi.org/project/jsonpointer/2.4/)
+- [jsonschema[format-nongpl]: 4.20.0](https://pypi.org/project/jsonschema/4.20.0/)
+- [jsonschema-specifications: 2023.11.2](https://pypi.org/project/jsonschema-specifications/2023.11.2/)
+- [jupyter: 1.0.0](https://pypi.org/project/jupyter/1.0.0/)
+- [jupyter-client: 8.6.0](https://pypi.org/project/jupyter-client/8.6.0/)
+- [jupyter-console: 6.6.3](https://pypi.org/project/jupyter-console/6.6.3/)
+- [jupyter-core: 5.5.0](https://pypi.org/project/jupyter-core/5.5.0/)
+- [jupyter-events: 0.9.0](https://pypi.org/project/jupyter-events/0.9.0/)
+- [jupyter-lsp: 2.2.1](https://pypi.org/project/jupyter-lsp/2.2.1/)
+- [jupyter-server: 2.11.2](https://pypi.org/project/jupyter-server/2.11.2/)
+- [jupyter-server-terminals: 0.4.4](https://pypi.org/project/jupyter-server-terminals/0.4.4/)
+- [jupyterlab: 4.0.9](https://pypi.org/project/jupyterlab/4.0.9/)
+- [jupyterlab-pygments: 0.3.0](https://pypi.org/project/jupyterlab-pygments/0.3.0/)
+- [jupyterlab-server: 2.25.2](https://pypi.org/project/jupyterlab-server/2.25.2/)
+- [jupyterlab-widgets: 3.0.9](https://pypi.org/project/jupyterlab-widgets/3.0.9/)
+- [jupytext: 1.16.0](https://pypi.org/project/jupytext/1.16.0/)
+- [kaleido: 0.2.1](https://pypi.org/project/kaleido/0.2.1/)
+- [kiwisolver: 1.4.5](https://pypi.org/project/kiwisolver/1.4.5/)
+- [lifelines: 0.27.8](https://pypi.org/project/lifelines/0.27.8/)
+- [llvmlite: 0.41.1](https://pypi.org/project/llvmlite/0.41.1/)
+- [lz4: 4.3.2](https://pypi.org/project/lz4/4.3.2/)
+- [markdown-it-py: 3.0.0](https://pypi.org/project/markdown-it-py/3.0.0/)
+- [markupsafe: 2.1.3](https://pypi.org/project/markupsafe/2.1.3/)
+- [matplotlib: 3.8.2](https://pypi.org/project/matplotlib/3.8.2/)
+- [matplotlib-inline: 0.1.6](https://pypi.org/project/matplotlib-inline/0.1.6/)
+- [mdit-py-plugins: 0.4.0](https://pypi.org/project/mdit-py-plugins/0.4.0/)
+- [mdurl: 0.1.2](https://pypi.org/project/mdurl/0.1.2/)
+- [mistune: 3.0.2](https://pypi.org/project/mistune/3.0.2/)
+- [nbclient: 0.9.0](https://pypi.org/project/nbclient/0.9.0/)
+- [nbconvert: 7.12.0](https://pypi.org/project/nbconvert/7.12.0/)
+- [nbformat: 5.9.2](https://pypi.org/project/nbformat/5.9.2/)
+- [nbval: 0.10.0](https://pypi.org/project/nbval/0.10.0/)
+- [nest-asyncio: 1.5.8](https://pypi.org/project/nest-asyncio/1.5.8/)
+- [notebook: 7.0.6](https://pypi.org/project/notebook/7.0.6/)
+- [notebook-shim: 0.2.3](https://pypi.org/project/notebook-shim/0.2.3/)
+- [numba: 0.58.1](https://pypi.org/project/numba/0.58.1/)
+- [numpy: 1.26.2](https://pypi.org/project/numpy/1.26.2/)
+- [oauthlib: 3.2.2](https://pypi.org/project/oauthlib/3.2.2/)
+- [opensafely-cohort-extractor: 1.90.0](https://pypi.org/project/opensafely-cohort-extractor/1.90.0/)
+- [opensafely-matching: 0.2.0](https://pypi.org/project/opensafely-matching/0.2.0/)
+- [overrides: 7.4.0](https://pypi.org/project/overrides/7.4.0/)
+- [packaging: 23.2](https://pypi.org/project/packaging/23.2/)
+- [pandas: 2.1.3](https://pypi.org/project/pandas/2.1.3/)
+- [pandas-gbq: 0.19.2](https://pypi.org/project/pandas-gbq/0.19.2/)
+- [pandocfilters: 1.5.0](https://pypi.org/project/pandocfilters/1.5.0/)
+- [parso: 0.8.3](https://pypi.org/project/parso/0.8.3/)
+- [patsy: 0.5.4](https://pypi.org/project/patsy/0.5.4/)
+- [pexpect: 4.9.0](https://pypi.org/project/pexpect/4.9.0/)
+- [pillow: 10.1.0](https://pypi.org/project/pillow/10.1.0/)
+- [pip-tools: 7.3.0](https://pypi.org/project/pip-tools/7.3.0/)
+- [platformdirs: 4.1.0](https://pypi.org/project/platformdirs/4.1.0/)
+- [plotly: 5.18.0](https://pypi.org/project/plotly/5.18.0/)
+- [pluggy: 1.3.0](https://pypi.org/project/pluggy/1.3.0/)
+- [prometheus-client: 0.19.0](https://pypi.org/project/prometheus-client/0.19.0/)
+- [prompt-toolkit: 3.0.41](https://pypi.org/project/prompt-toolkit/3.0.41/)
+- [proto-plus: 1.22.3](https://pypi.org/project/proto-plus/1.22.3/)
+- [protobuf: 4.25.1](https://pypi.org/project/protobuf/4.25.1/)
+- [psutil: 5.9.6](https://pypi.org/project/psutil/5.9.6/)
+- [ptyprocess: 0.7.0](https://pypi.org/project/ptyprocess/0.7.0/)
+- [pure-eval: 0.2.2](https://pypi.org/project/pure-eval/0.2.2/)
+- [py: 1.11.0](https://pypi.org/project/py/1.11.0/)
+- [pyarrow: 14.0.1](https://pypi.org/project/pyarrow/14.0.1/)
+- [pyasn1: 0.5.1](https://pypi.org/project/pyasn1/0.5.1/)
+- [pyasn1-modules: 0.3.0](https://pypi.org/project/pyasn1-modules/0.3.0/)
+- [pycparser: 2.21](https://pypi.org/project/pycparser/2.21/)
+- [pydata-google-auth: 1.8.2](https://pypi.org/project/pydata-google-auth/1.8.2/)
+- [pygments: 2.17.2](https://pypi.org/project/pygments/2.17.2/)
+- [pyparsing: 3.1.1](https://pypi.org/project/pyparsing/3.1.1/)
+- [pyproj: 3.6.1](https://pypi.org/project/pyproj/3.6.1/)
+- [pyproject-hooks: 1.0.0](https://pypi.org/project/pyproject-hooks/1.0.0/)
+- [pytest: 7.4.3](https://pypi.org/project/pytest/7.4.3/)
+- [python-dateutil: 2.8.2](https://pypi.org/project/python-dateutil/2.8.2/)
+- [python-json-logger: 2.0.7](https://pypi.org/project/python-json-logger/2.0.7/)
+- [pytz: 2023.3.post1](https://pypi.org/project/pytz/2023.3.post1/)
+- [pyyaml: 6.0.1](https://pypi.org/project/pyyaml/6.0.1/)
+- [pyzmq: 25.1.2](https://pypi.org/project/pyzmq/25.1.2/)
+- [qtconsole: 5.5.1](https://pypi.org/project/qtconsole/5.5.1/)
+- [qtpy: 2.4.1](https://pypi.org/project/qtpy/2.4.1/)
+- [referencing: 0.31.1](https://pypi.org/project/referencing/0.31.1/)
+- [requests: 2.31.0](https://pypi.org/project/requests/2.31.0/)
+- [requests-oauthlib: 1.3.1](https://pypi.org/project/requests-oauthlib/1.3.1/)
+- [retry: 0.9.2](https://pypi.org/project/retry/0.9.2/)
+- [rfc3339-validator: 0.1.4](https://pypi.org/project/rfc3339-validator/0.1.4/)
+- [rfc3986-validator: 0.1.1](https://pypi.org/project/rfc3986-validator/0.1.1/)
+- [rpds-py: 0.13.2](https://pypi.org/project/rpds-py/0.13.2/)
+- [rsa: 4.9](https://pypi.org/project/rsa/4.9/)
+- [scikit-learn: 1.3.2](https://pypi.org/project/scikit-learn/1.3.2/)
+- [scipy: 1.11.4](https://pypi.org/project/scipy/1.11.4/)
+- [seaborn: 0.13.0](https://pypi.org/project/seaborn/0.13.0/)
+- [send2trash: 1.8.2](https://pypi.org/project/send2trash/1.8.2/)
+- [shapely: 2.0.2](https://pypi.org/project/shapely/2.0.2/)
+- [six: 1.16.0](https://pypi.org/project/six/1.16.0/)
+- [sniffio: 1.3.0](https://pypi.org/project/sniffio/1.3.0/)
+- [soupsieve: 2.5](https://pypi.org/project/soupsieve/2.5/)
+- [sqlparse: 0.4.4](https://pypi.org/project/sqlparse/0.4.4/)
+- [stack-data: 0.6.3](https://pypi.org/project/stack-data/0.6.3/)
+- [statsmodels: 0.14.0](https://pypi.org/project/statsmodels/0.14.0/)
+- [structlog: 23.2.0](https://pypi.org/project/structlog/23.2.0/)
+- [tabulate: 0.9.0](https://pypi.org/project/tabulate/0.9.0/)
+- [tenacity: 8.2.3](https://pypi.org/project/tenacity/8.2.3/)
+- [terminado: 0.18.0](https://pypi.org/project/terminado/0.18.0/)
+- [threadpoolctl: 3.2.0](https://pypi.org/project/threadpoolctl/3.2.0/)
+- [tinycss2: 1.2.1](https://pypi.org/project/tinycss2/1.2.1/)
+- [toml: 0.10.2](https://pypi.org/project/toml/0.10.2/)
+- [tomli: 2.0.1](https://pypi.org/project/tomli/2.0.1/)
+- [tornado: 6.4](https://pypi.org/project/tornado/6.4/)
+- [tqdm: 4.66.1](https://pypi.org/project/tqdm/4.66.1/)
+- [traitlets: 5.14.0](https://pypi.org/project/traitlets/5.14.0/)
+- [types-python-dateutil: 2.8.19.14](https://pypi.org/project/types-python-dateutil/2.8.19.14/)
+- [typing-extensions: 4.8.0](https://pypi.org/project/typing-extensions/4.8.0/)
+- [tzdata: 2023.3](https://pypi.org/project/tzdata/2023.3/)
+- [upsetplot: 0.8.0](https://pypi.org/project/upsetplot/0.8.0/)
+- [uri-template: 1.3.0](https://pypi.org/project/uri-template/1.3.0/)
+- [urllib3: 2.1.0](https://pypi.org/project/urllib3/2.1.0/)
+- [venn: 0.1.3](https://pypi.org/project/venn/0.1.3/)
+- [wcwidth: 0.2.12](https://pypi.org/project/wcwidth/0.2.12/)
+- [webcolors: 1.13](https://pypi.org/project/webcolors/1.13/)
+- [webencodings: 0.5.1](https://pypi.org/project/webencodings/0.5.1/)
+- [websocket-client: 1.7.0](https://pypi.org/project/websocket-client/1.7.0/)
+- [wheel: 0.42.0](https://pypi.org/project/wheel/0.42.0/)
+- [widgetsnbextension: 4.0.9](https://pypi.org/project/widgetsnbextension/4.0.9/)
+- [wrapt: 1.16.0](https://pypi.org/project/wrapt/1.16.0/)
+
diff --git a/v2/requirements.txt b/v2/requirements.txt
index aecf474..25c762f 100644
--- a/v2/requirements.txt
+++ b/v2/requirements.txt
@@ -2,9 +2,9 @@
 # This file is autogenerated by pip-compile with Python 3.10
 # by the following command:
 #
-#    pip-compile requirements-3.10.in
+#    pip-compile --output-file=v2/requirements.txt v2/requirements.in
 #
-anyio==4.0.0
+anyio==4.1.0
     # via jupyter-server
 argon2-cffi==23.1.0
     # via jupyter-server
@@ -31,8 +31,8 @@ autograd-gamma==0.5.0
     # via lifelines
 babel==2.13.1
     # via jupyterlab-server
-bash-kernel==0.9.1
-    # via -r requirements-3.10.in
+bash-kernel==0.9.3
+    # via -r v2/requirements.in
 beautifulsoup4==4.12.2
     # via nbconvert
 bleach==6.1.0
@@ -44,7 +44,7 @@ cachetools==5.3.2
 cairocffi==1.6.1
     # via cairosvg
 cairosvg==2.7.1
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 certifi==2023.11.17
     # via
     #   fiona
@@ -93,7 +93,7 @@ defusedxml==0.7.1
 descartes==1.1.0
     # via ebmdatalab
 ebmdatalab==0.0.30
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 exceptiongroup==1.2.0
     # via
     #   anyio
@@ -105,7 +105,7 @@ fastjsonschema==2.19.0
     # via nbformat
 fiona==1.9.5
     # via geopandas
-fonttools==4.45.0
+fonttools==4.46.0
     # via matplotlib
 formulaic==0.6.6
     # via lifelines
@@ -121,7 +121,7 @@ google-api-core[grpc]==2.14.0
     #   google-cloud-bigquery-storage
     #   google-cloud-core
     #   pandas-gbq
-google-auth==2.23.4
+google-auth==2.24.0
     # via
     #   google-api-core
     #   google-auth-oauthlib
@@ -134,7 +134,7 @@ google-auth-oauthlib==1.1.0
     #   pydata-google-auth
 google-cloud-bigquery==3.13.0
     # via pandas-gbq
-google-cloud-bigquery-storage==2.22.0
+google-cloud-bigquery-storage==2.23.0
     # via pandas-gbq
 google-cloud-core==2.3.3
     # via google-cloud-bigquery
@@ -153,7 +153,7 @@ grpcio==1.59.3
     #   grpcio-status
 grpcio-status==1.59.3
     # via google-api-core
-idna==3.4
+idna==3.6
     # via
     #   anyio
     #   jsonschema
@@ -162,7 +162,7 @@ iniconfig==2.0.0
     # via pytest
 interface-meta==1.3.0
     # via formulaic
-ipykernel==6.27.0
+ipykernel==6.27.1
     # via
     #   bash-kernel
     #   jupyter
@@ -170,14 +170,14 @@ ipykernel==6.27.0
     #   jupyterlab
     #   nbval
     #   qtconsole
-ipython==8.17.2
+ipython==8.18.1
     # via
     #   ipykernel
     #   ipywidgets
     #   jupyter-console
 ipywidgets==8.1.1
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   jupyter
 isoduration==20.11.0
     # via jsonschema
@@ -200,10 +200,10 @@ jsonschema[format-nongpl]==4.20.0
     #   jupyter-events
     #   jupyterlab-server
     #   nbformat
-jsonschema-specifications==2023.11.1
+jsonschema-specifications==2023.11.2
     # via jsonschema
 jupyter==1.0.0
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 jupyter-client==8.6.0
     # via
     #   ipykernel
@@ -227,9 +227,9 @@ jupyter-core==5.5.0
     #   qtconsole
 jupyter-events==0.9.0
     # via jupyter-server
-jupyter-lsp==2.2.0
+jupyter-lsp==2.2.1
     # via jupyterlab
-jupyter-server==2.11.0
+jupyter-server==2.11.2
     # via
     #   jupyter-lsp
     #   jupyterlab
@@ -240,9 +240,9 @@ jupyter-server-terminals==0.4.4
     # via jupyter-server
 jupyterlab==4.0.9
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   notebook
-jupyterlab-pygments==0.2.2
+jupyterlab-pygments==0.3.0
     # via nbconvert
 jupyterlab-server==2.25.2
     # via
@@ -250,14 +250,14 @@ jupyterlab-server==2.25.2
     #   notebook
 jupyterlab-widgets==3.0.9
     # via ipywidgets
-jupytext==1.15.2
-    # via -r requirements-3.10.in
+jupytext==1.16.0
+    # via -r v2/requirements.in
 kaleido==0.2.1
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 kiwisolver==1.4.5
     # via matplotlib
 lifelines==0.27.8
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 llvmlite==0.41.1
     # via numba
 lz4==4.3.2
@@ -272,7 +272,7 @@ markupsafe==2.1.3
     #   nbconvert
 matplotlib==3.8.2
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   descartes
     #   lifelines
     #   seaborn
@@ -290,7 +290,7 @@ mistune==3.0.2
     # via nbconvert
 nbclient==0.9.0
     # via nbconvert
-nbconvert==7.11.0
+nbconvert==7.12.0
     # via
     #   jupyter
     #   jupyter-server
@@ -302,7 +302,7 @@ nbformat==5.9.2
     #   nbconvert
     #   nbval
 nbval==0.10.0
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 nest-asyncio==1.5.8
     # via ipykernel
 notebook==7.0.6
@@ -312,10 +312,10 @@ notebook-shim==0.2.3
     #   jupyterlab
     #   notebook
 numba==0.58.1
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 numpy==1.26.2
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   autograd
     #   contourpy
     #   db-dtypes
@@ -335,9 +335,9 @@ numpy==1.26.2
 oauthlib==3.2.2
     # via requests-oauthlib
 opensafely-cohort-extractor==1.90.0
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 opensafely-matching==0.2.0
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 overrides==7.4.0
     # via jupyter-server
 packaging==23.2
@@ -350,6 +350,7 @@ packaging==23.2
     #   jupyter-server
     #   jupyterlab
     #   jupyterlab-server
+    #   jupytext
     #   matplotlib
     #   nbconvert
     #   plotly
@@ -359,7 +360,7 @@ packaging==23.2
     #   statsmodels
 pandas==2.1.3
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   db-dtypes
     #   ebmdatalab
     #   formulaic
@@ -373,29 +374,29 @@ pandas==2.1.3
     #   upsetplot
 pandas-gbq==0.19.2
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   ebmdatalab
 pandocfilters==1.5.0
     # via nbconvert
 parso==0.8.3
     # via jedi
-patsy==0.5.3
+patsy==0.5.4
     # via statsmodels
-pexpect==4.8.0
+pexpect==4.9.0
     # via
     #   bash-kernel
     #   ipython
 pillow==10.1.0
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   cairosvg
     #   matplotlib
 pip-tools==7.3.0
-    # via -r requirements-3.10.in
-platformdirs==4.0.0
+    # via -r v2/requirements.in
+platformdirs==4.1.0
     # via jupyter-core
 plotly==5.18.0
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 pluggy==1.3.0
     # via pytest
 prometheus-client==0.19.0
@@ -428,7 +429,7 @@ py==1.11.0
     # via retry
 pyarrow==14.0.1
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   db-dtypes
     #   opensafely-cohort-extractor
     #   pandas-gbq
@@ -442,7 +443,7 @@ pycparser==2.21
     # via cffi
 pydata-google-auth==1.8.2
     # via pandas-gbq
-pygments==2.17.1
+pygments==2.17.2
     # via
     #   ipython
     #   jupyter-console
@@ -456,7 +457,7 @@ pyproject-hooks==1.0.0
     # via build
 pytest==7.4.3
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   nbval
 python-dateutil==2.8.2
     # via
@@ -474,7 +475,7 @@ pyyaml==6.0.1
     #   jupyter-events
     #   jupytext
     #   opensafely-cohort-extractor
-pyzmq==25.1.1
+pyzmq==25.1.2
     # via
     #   ipykernel
     #   jupyter-client
@@ -485,7 +486,7 @@ qtconsole==5.5.1
     # via jupyter
 qtpy==2.4.1
     # via qtconsole
-referencing==0.31.0
+referencing==0.31.1
     # via
     #   jsonschema
     #   jsonschema-specifications
@@ -509,17 +510,17 @@ rfc3986-validator==0.1.1
     # via
     #   jsonschema
     #   jupyter-events
-rpds-py==0.13.1
+rpds-py==0.13.2
     # via
     #   jsonschema
     #   referencing
 rsa==4.9
     # via google-auth
 scikit-learn==1.3.2
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 scipy==1.11.4
     # via
-    #   -r requirements-3.10.in
+    #   -r v2/requirements.in
     #   autograd-gamma
     #   formulaic
     #   lifelines
@@ -577,7 +578,7 @@ tomli==2.0.1
     #   pip-tools
     #   pyproject-hooks
     #   pytest
-tornado==6.3.3
+tornado==6.4
     # via
     #   ipykernel
     #   jupyter-client
@@ -586,8 +587,8 @@ tornado==6.3.3
     #   notebook
     #   terminado
 tqdm==4.66.1
-    # via -r requirements-3.10.in
-traitlets==5.13.0
+    # via -r v2/requirements.in
+traitlets==5.14.0
     # via
     #   comm
     #   ipykernel
@@ -613,14 +614,14 @@ typing-extensions==4.8.0
 tzdata==2023.3
     # via pandas
 upsetplot==0.8.0
-    # via -r requirements-3.10.in
+    # via -r v2/requirements.in
 uri-template==1.3.0
     # via jsonschema
 urllib3==2.1.0
     # via requests
 venn==0.1.3
-    # via -r requirements-3.10.in
-wcwidth==0.2.11
+    # via -r v2/requirements.in
+wcwidth==0.2.12
     # via prompt-toolkit
 webcolors==1.13
     # via jsonschema
@@ -629,9 +630,9 @@ webencodings==0.5.1
     #   bleach
     #   cssselect2
     #   tinycss2
-websocket-client==1.6.4
+websocket-client==1.7.0
     # via jupyter-server
-wheel==0.41.3
+wheel==0.42.0
     # via pip-tools
 widgetsnbextension==4.0.9
     # via ipywidgets