rebuild requirements.txt and doc/requirements.txt

doc/misc/changelog.md

@@ -22,6 +22,11 @@ Bug fixes:
   It looks like this bug was introduced back in {pr}`791`, which was part of the 0.16.0 release.
   PR {pr}`857`
 
+Build system:
+
+* Update requirements.txt and doc/requirements.txt.
+  PR {pr}`864`.
+
 ## 0.17.0a1
 
 Changes to `fwdpy11.conditional_models`:

doc/requirements.in

@@ -1,3 +1,4 @@
+-c ../requirements.in
 jupyter-book
 matplotlib
 msprime>=1.0.1

doc/requirements.txt

@@ -6,14 +6,15 @@
 #
 alabaster==0.7.12
     # via sphinx
-anyio==3.3.4
+anyio==3.4.0
     # via jupyter-server
 argon2-cffi==21.1.0
     # via
     #   jupyter-server
     #   notebook
 attrs==21.2.0
     # via
+    #   -c ../requirements.in
     #   demes
     #   jsonschema
     #   jupyter-cache
@@ -33,7 +34,7 @@ certifi==2021.10.8
     # via requests
 cffi==1.15.0
     # via argon2-cffi
-charset-normalizer==2.0.7
+charset-normalizer==2.0.8
     # via requests
 click==7.1.2
     # via
@@ -42,7 +43,7 @@ click==7.1.2
     #   sphinx-external-toc
 colorama==0.4.4
     # via nbdime
-cycler==0.10.0
+cycler==0.11.0
     # via matplotlib
 debugpy==1.5.1
     # via ipykernel
@@ -52,6 +53,7 @@ defusedxml==0.7.1
     # via nbconvert
 demes==0.1.2
     # via
+    #   -c ../requirements.in
     #   demesdraw
     #   msprime
 demesdraw @ git+https://github.com/grahamgower/demesdraw
@@ -72,7 +74,9 @@ entrypoints==0.3
     # via
     #   jupyter-client
     #   nbconvert
-gitdb==4.0.7
+fonttools==4.28.2
+    # via matplotlib
+gitdb==4.0.9
     # via gitpython
 gitpython==3.1.24
     # via nbdime
@@ -82,23 +86,22 @@ idna==3.3
     # via
     #   anyio
     #   requests
-imagesize==1.2.0
+imagesize==1.3.0
     # via sphinx
-importlib-metadata==4.8.1
+importlib-metadata==4.8.2
     # via myst-nb
-ipykernel==6.4.2
+ipykernel==6.5.1
     # via
     #   ipywidgets
     #   notebook
-ipython==7.28.0
+ipython==7.29.0
     # via
     #   ipykernel
     #   ipywidgets
     #   jupyter-sphinx
     #   myst-nb
 ipython-genutils==0.2.0
     # via
-    #   ipykernel
     #   ipywidgets
     #   jupyter-server
     #   nbformat
@@ -107,9 +110,9 @@ ipywidgets==7.6.5
     # via
     #   jupyter-sphinx
     #   myst-nb
-jedi==0.18.0
+jedi==0.18.1
     # via ipython
-jinja2==3.0.2
+jinja2==3.0.3
     # via
     #   jupyter-server
     #   myst-parser
@@ -122,24 +125,24 @@ jsonschema==3.2.0
     #   jupyter-book
     #   nbformat
     #   tskit
-jupyter-book==0.12.0
+jupyter-book==0.12.1
     # via -r requirements.in
 jupyter-cache==0.4.3
     # via myst-nb
-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==1.12.0
     # via
     #   jupyter-server-mathjax
     #   nbdime
@@ -166,7 +169,7 @@ markdown-it-py==1.1.0
     #   myst-parser
 markupsafe==2.0.1
     # via jinja2
-matplotlib==3.4.3
+matplotlib==3.5.0
     # via
     #   -r requirements.in
     #   demesdraw
@@ -180,17 +183,19 @@ mdit-py-plugins==0.2.8
     #   myst-parser
 mistune==0.8.4
     # via nbconvert
-msprime==1.0.2
-    # via -r requirements.in
+msprime==1.0.3
+    # via
+    #   -c ../requirements.in
+    #   -r requirements.in
 myst-nb==0.13.1
     # via jupyter-book
 myst-parser==0.15.2
     # via myst-nb
-nbclient==0.5.4
+nbclient==0.5.9
     # via
     #   jupyter-cache
     #   nbconvert
-nbconvert==6.2.0
+nbconvert==6.3.0
     # via
     #   jupyter-server
     #   jupyter-sphinx
@@ -214,21 +219,25 @@ nest-asyncio==1.5.1
     # via
     #   jupyter-client
     #   nbclient
+    #   notebook
 newick==1.3.1
     # via msprime
-notebook==6.4.5
+notebook==6.4.6
     # via widgetsnbextension
 numpy==1.20.3
     # via
+    #   -c ../requirements.in
     #   demesdraw
     #   matplotlib
     #   msprime
     #   pandas
     #   scipy
     #   tskit
-packaging==21.0
+packaging==21.3
     # via
     #   bleach
+    #   matplotlib
+    #   setuptools-scm
     #   sphinx
 pandas==1.3.4
     # via -r requirements.in
@@ -242,11 +251,11 @@ pickleshare==0.7.5
     # via ipython
 pillow==8.4.0
     # via matplotlib
-prometheus-client==0.11.0
+prometheus-client==0.12.0
     # via
     #   jupyter-server
     #   notebook
-prompt-toolkit==3.0.21
+prompt-toolkit==3.0.22
     # via ipython
 ptyprocess==0.7.0
     # via
@@ -258,9 +267,9 @@ pybtex==0.24.0
     #   sphinxcontrib-bibtex
 pybtex-docutils==1.0.1
     # via sphinxcontrib-bibtex
-pycparser==2.20
+pycparser==2.21
     # via cffi
-pydata-sphinx-theme==0.6.3
+pydata-sphinx-theme==0.7.2
     # via sphinx-book-theme
 pygments==2.10.0
     # via
@@ -269,7 +278,7 @@ pygments==2.10.0
     #   nbconvert
     #   nbdime
     #   sphinx
-pyparsing==2.4.7
+pyparsing==3.0.6
     # via
     #   matplotlib
     #   packaging
@@ -301,37 +310,39 @@ pyzmq==22.3.0
 requests==2.26.0
     # via
     #   nbdime
-    #   requests-unixsocket
     #   sphinx
-requests-unixsocket==0.2.0
-    # via jupyter-server
-ruamel.yaml==0.17.16
+ruamel.yaml==0.17.17
     # via demes
 ruamel.yaml.clib==0.2.6
     # via ruamel.yaml
-scipy==1.7.1
-    # via demesdraw
+scipy==1.7.3
+    # via
+    #   -c ../requirements.in
+    #   demesdraw
 send2trash==1.8.0
     # via
     #   jupyter-server
     #   notebook
+setuptools-scm==6.3.2
+    # via
+    #   -c ../requirements.in
+    #   matplotlib
 six==1.16.0
     # via
     #   bleach
-    #   cycler
     #   jsonschema
     #   latexcodec
     #   pybtex
     #   python-dateutil
-smmap==4.0.0
+smmap==5.0.0
     # via gitdb
 sniffio==1.2.0
     # via anyio
-snowballstemmer==2.1.0
+snowballstemmer==2.2.0
     # via sphinx
-soupsieve==2.2.1
+soupsieve==2.3.1
     # via beautifulsoup4
-sphinx==4.2.0
+sphinx==4.3.0
     # via
     #   jupyter-book
     #   jupyter-sphinx
@@ -349,7 +360,7 @@ sphinx==4.2.0
     #   sphinx-thebe
     #   sphinx-togglebutton
     #   sphinxcontrib-bibtex
-sphinx-book-theme==0.1.6
+sphinx-book-theme==0.1.7
     # via jupyter-book
 sphinx-comments==0.0.3
     # via jupyter-book
@@ -359,7 +370,7 @@ sphinx-external-toc==0.2.3
     # via jupyter-book
 sphinx-issues==1.2.0
     # via -r requirements.in
-sphinx-jupyterbook-latex==0.4.5
+sphinx-jupyterbook-latex==0.4.6
     # via jupyter-book
 sphinx-multitoc-numbering==0.1.3
     # via jupyter-book
@@ -385,7 +396,7 @@ sphinxcontrib-qthelp==1.0.3
     # via sphinx
 sphinxcontrib-serializinghtml==1.1.5
     # via sphinx
-sqlalchemy==1.4.26
+sqlalchemy==1.4.27
     # via jupyter-cache
 svgwrite==1.4.1
     # via tskit
@@ -397,6 +408,8 @@ testpath==0.5.0
     # via nbconvert
 toml==0.10.2
     # via jupytext
+tomli==1.2.2
+    # via setuptools-scm
 tornado==6.1
     # via
     #   ipykernel
@@ -405,7 +418,7 @@ tornado==6.1
     #   nbdime
     #   notebook
     #   terminado
-traitlets==5.1.0
+traitlets==5.1.1
     # via
     #   ipykernel
     #   ipython
@@ -419,15 +432,15 @@ traitlets==5.1.0
     #   nbformat
     #   notebook
 tskit==0.3.7
-    # via msprime
-typing-extensions==3.10.0.2
+    # via
+    #   -c ../requirements.in
+    #   msprime
+typing-extensions==4.0.0
     # via gitpython
 uc-micro-py==1.0.1
     # via linkify-it-py
 urllib3==1.26.7
-    # via
-    #   requests
-    #   requests-unixsocket
+    # via requests
 wcwidth==0.2.5
     # via prompt-toolkit
 webencodings==0.5.1
@@ -436,7 +449,7 @@ websocket-client==1.2.1
     # via jupyter-server
 wheel==0.37.0
     # via sphinx-togglebutton
-widgetsnbextension==3.5.1
+widgetsnbextension==3.5.2
     # via ipywidgets
 zipp==3.6.0
     # via importlib-metadata

requirements.in

@@ -11,7 +11,7 @@ demes
 # requirements for docs are in docs/requirements.txt
 msprime
 tskit
-setuptools_scm==1.11.1
+setuptools_scm
 pytest
 pytest-xdist