update requirements in preparation for Jan 2022 snapshot

Author: OriolAbril

README.md

@@ -0,0 +1,13 @@
+# PyMC binder sandbox
+
+This repository is used to store the binder environment used to run the
+notebooks in https://docs.pymc.io/projects/examples/en/latest/ (hosted
+on [this GitHub repo](https://github.com/pymc-devs/pymc-examples))
+
+This freezes the dependencies at the time of each [snapshot]()
+to ensure notebooks can always be executed on binder and
+accelerate loading the binder kernel for the notebooks.
+
+### Contributors
+To update the `requirements.txt` use `pip-compile requirements.in` which will
+generate the new `requirements.txt`. You'll need `pip-tools` installed

apt.txt

@@ -0,0 +1 @@
+graphviz

environment.yml

@@ -2,3 +2,5 @@ nbgitpuller
 
 # Data analytics
 pymc3
+graphviz
+seaborn

requirements.in

@@ -1,38 +1,36 @@
 #
-# This file is autogenerated by pip-compile with python 3.8
+# This file is autogenerated by pip-compile with python 3.9
 # To update, run:
 #
-#    pip-compile --output-file=pip-compiled.txt requirements.in
+#    pip-compile requirements.in
 #
-anyio==3.3.4
+anyio==3.4.0
     # via jupyter-server
-argon2-cffi==21.1.0
+argon2-cffi==21.3.0
     # via
     #   jupyter-server
     #   notebook
+argon2-cffi-bindings==21.2.0
+    # via argon2-cffi
 arviz==0.11.4
     # via pymc3
-attrs==21.2.0
+attrs==21.4.0
     # via jsonschema
 backcall==0.2.0
     # via ipython
 bleach==4.1.0
     # via nbconvert
-cachetools==4.2.4
+cachetools==5.0.0
     # via pymc3
-certifi==2021.10.8
-    # via requests
 cffi==1.15.0
-    # via argon2-cffi
-cftime==1.5.1
+    # via argon2-cffi-bindings
+cftime==1.5.1.1
     # via netcdf4
-charset-normalizer==2.0.7
-    # via requests
-cycler==0.10.0
+cycler==0.11.0
     # via matplotlib
-debugpy==1.5.0
+debugpy==1.5.1
     # via ipykernel
-decorator==5.1.0
+decorator==5.1.1
     # via ipython
 defusedxml==0.7.1
     # via nbconvert
@@ -44,63 +42,66 @@ entrypoints==0.3
     #   nbconvert
 fastprogress==1.0.0
     # via pymc3
-filelock==3.3.1
+filelock==3.4.2
     # via theano-pymc
+fonttools==4.28.5
+    # via matplotlib
+graphviz==0.19.1
+    # via -r requirements.in
 idna==3.3
-    # via
-    #   anyio
-    #   requests
-ipykernel==6.4.1
+    # via anyio
+ipykernel==6.6.1
     # via notebook
-ipython==7.28.0
+ipython==7.31.0
     # via ipykernel
 ipython-genutils==0.2.0
     # via
-    #   ipykernel
     #   jupyter-server
     #   nbformat
     #   notebook
-jedi==0.18.0
+jedi==0.18.1
     # via ipython
-jinja2==3.0.2
+jinja2==3.0.3
     # via
     #   jupyter-server
     #   nbconvert
     #   notebook
-jsonschema==4.1.0
+jsonschema==4.3.3
     # via nbformat
-jupyter-client==7.0.6
+jupyter-client==7.1.0
     # via
     #   ipykernel
     #   jupyter-server
     #   nbclient
     #   notebook
-jupyter-core==4.8.1
+jupyter-core==4.9.1
     # via
     #   jupyter-client
     #   jupyter-server
     #   nbconvert
     #   nbformat
     #   notebook
-jupyter-server==1.11.1
+jupyter-server==1.13.1
     # via nbgitpuller
 jupyterlab-pygments==0.1.2
     # via nbconvert
 kiwisolver==1.3.2
     # via matplotlib
 markupsafe==2.0.1
     # via jinja2
-matplotlib==3.4.3
-    # via arviz
+matplotlib==3.5.1
+    # via
+    #   arviz
+    #   seaborn
 matplotlib-inline==0.1.3
     # via
     #   ipykernel
     #   ipython
 mistune==0.8.4
     # via nbconvert
-nbclient==0.5.4
+nbclient==0.5.9
     # via nbconvert
-nbconvert==6.2.0
+nbconvert==6.4.0
     # via
     #   jupyter-server
     #   notebook
@@ -112,15 +113,17 @@ nbformat==5.1.3
     #   notebook
 nbgitpuller==1.0.2
     # via -r requirements.in
-nest-asyncio==1.5.1
+nest-asyncio==1.5.4
     # via
+    #   ipykernel
     #   jupyter-client
     #   nbclient
-netcdf4==1.5.7
+    #   notebook
+netcdf4==1.5.8
     # via arviz
-notebook==6.4.4
+notebook==6.4.6
     # via nbgitpuller
-numpy==1.21.2
+numpy==1.22.0
     # via
     #   arviz
     #   cftime
@@ -131,49 +134,52 @@ numpy==1.21.2
     #   patsy
     #   pymc3
     #   scipy
+    #   seaborn
     #   theano-pymc
     #   xarray
-packaging==21.0
+packaging==21.3
     # via
     #   arviz
     #   bleach
-pandas==1.3.3
+    #   matplotlib
+pandas==1.3.5
     # via
     #   arviz
     #   pymc3
+    #   seaborn
     #   xarray
 pandocfilters==1.5.0
     # via nbconvert
-parso==0.8.2
+parso==0.8.3
     # via jedi
 patsy==0.5.2
     # via pymc3
 pexpect==4.8.0
     # via ipython
 pickleshare==0.7.5
     # via ipython
-pillow==8.4.0
+pillow==9.0.0
     # via matplotlib
-prometheus-client==0.11.0
+prometheus-client==0.12.0
     # via
     #   jupyter-server
     #   notebook
-prompt-toolkit==3.0.20
+prompt-toolkit==3.0.24
     # via ipython
 ptyprocess==0.7.0
     # via
     #   pexpect
     #   terminado
-pycparser==2.20
+pycparser==2.21
     # via cffi
-pygments==2.10.0
+pygments==2.11.2
     # via
     #   ipython
     #   jupyterlab-pygments
     #   nbconvert
 pymc3==3.11.4
     # via -r requirements.in
-pyparsing==2.4.7
+pyparsing==3.0.6
     # via
     #   matplotlib
     #   packaging
@@ -191,15 +197,14 @@ pyzmq==22.3.0
     #   jupyter-client
     #   jupyter-server
     #   notebook
-requests==2.26.0
-    # via requests-unixsocket
-requests-unixsocket==0.2.0
-    # via jupyter-server
-scipy==1.7.1
+scipy==1.7.3
     # via
     #   arviz
     #   pymc3
+    #   seaborn
     #   theano-pymc
+seaborn==0.11.2
+    # via -r requirements.in
 semver==2.13.0
     # via pymc3
 send2trash==1.8.0
@@ -209,7 +214,6 @@ send2trash==1.8.0
 six==1.16.0
     # via
     #   bleach
-    #   cycler
     #   patsy
     #   python-dateutil
 sniffio==1.2.0
@@ -230,7 +234,7 @@ tornado==6.1
     #   nbgitpuller
     #   notebook
     #   terminado
-traitlets==5.1.0
+traitlets==5.1.1
     # via
     #   ipykernel
     #   ipython
@@ -246,17 +250,13 @@ typing-extensions==3.10.0.2
     # via
     #   arviz
     #   pymc3
-urllib3==1.26.7
-    # via
-    #   requests
-    #   requests-unixsocket
 wcwidth==0.2.5
     # via prompt-toolkit
 webencodings==0.5.1
     # via bleach
-websocket-client==1.2.1
+websocket-client==1.2.3
     # via jupyter-server
-xarray==0.19.0
+xarray==0.20.2
     # via arviz
 
 # The following packages are considered to be unsafe in a requirements file: