Pin SciPy to <1.8.0

.github/workflows/arviz_compat.yml

@@ -38,12 +38,12 @@ jobs:
       - name: Cache conda
         uses: actions/cache@v1
         env:
-          # Increase this value to reset cache if environment-dev-py39.yml has not changed
+          # Increase this value to reset cache if environment-test-py39.yml has not changed
           CACHE_NUMBER: 0
         with:
           path: ~/conda_pkgs_dir
           key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{
-            hashFiles('conda-envs/environment-dev-py39.yml') }}
+            hashFiles('conda-envs/environment-test-py39.yml') }}
       - name: Cache multiple paths
         uses: actions/cache@v2
         env:
@@ -61,19 +61,19 @@ jobs:
           miniforge-variant: Mambaforge
           miniforge-version: latest
           mamba-version: "*"
-          activate-environment: pymc-dev-py39
+          activate-environment: pymc-test-py39
           channel-priority: strict
-          environment-file: conda-envs/environment-dev-py39.yml
+          environment-file: conda-envs/environment-test-py39.yml
           use-mamba: true
           use-only-tar-bz2: true # IMPORTANT: This needs to be set for caching to work properly!
       - name: Install pymc
         run: |
-          conda activate pymc-dev-py39
+          conda activate pymc-test-py39
           pip install -e .
           python --version
       - name: Install latest arviz
         run: |
-          conda activate pymc-dev-py39
+          conda activate pymc-test-py39
           pip uninstall arviz -y
           pip install git+git://github.com/arviz-devs/arviz.git
       - name: Run tests

.github/workflows/jaxtests.yml

@@ -34,12 +34,12 @@ jobs:
       - name: Cache conda
         uses: actions/cache@v1
         env:
-          # Increase this value to reset cache if environment-dev-py39.yml has not changed
+          # Increase this value to reset cache if environment-test-py39.yml has not changed
           CACHE_NUMBER: 0
         with:
           path: ~/conda_pkgs_dir
           key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{
-            hashFiles('conda-envs/environment-dev-py39.yml') }}
+            hashFiles('conda-envs/environment-test-py39.yml') }}
       - name: Cache multiple paths
         uses: actions/cache@v2
         env:
@@ -57,19 +57,19 @@ jobs:
           miniforge-variant: Mambaforge
           miniforge-version: latest
           mamba-version: "*"
-          activate-environment: pymc-dev-py39
+          activate-environment: pymc-test-py39
           channel-priority: strict
-          environment-file: conda-envs/environment-dev-py39.yml
+          environment-file: conda-envs/environment-test-py39.yml
           use-mamba: true
           use-only-tar-bz2: true # IMPORTANT: This needs to be set for caching to work properly!
       - name: Install pymc
         run: |
-          conda activate pymc-dev-py39
+          conda activate pymc-test-py39
           pip install -e .
           python --version
       - name: Install jax specific dependencies
         run: |
-          conda activate pymc-dev-py39
+          conda activate pymc-test-py39
           pip install "numpyro>=0.8.0"
       - name: Run tests
         run: |

conda-envs/environment-dev-py37.yml

@@ -11,23 +11,23 @@ dependencies:
 - cloudpickle
 - fastprogress>=0.2.0
 - h5py>=2.7
-- ipython
+- ipython>=7.16
 - myst-nb
-- numpy>=1.15
+- numpy>=1.15.0
 - numpydoc<1.2
-- pandas>=0.24
+- pandas>=0.24.0
 - pip
 - pre-commit>=2.8.0
 - pydata-sphinx-theme
 - pytest-cov>=2.5
 - pytest>=3.0
 - python-graphviz
 - python=3.7
-- scipy>1.4.1
+- scipy>=1.4.1,<1.8.0
 - sphinx-copybutton
 - sphinx-notfound-page
 - sphinx>=1.5
-- typing-extensions
+- typing-extensions>=3.7.4
 - pip:
   - polyagamma
   - sphinx-design

conda-envs/environment-dev-py38.yml

@@ -11,7 +11,7 @@ dependencies:
 - cloudpickle
 - fastprogress>=0.2.0
 - h5py>=2.7
-- ipython
+- ipython>=7.16
 - myst-nb
 - numpy>=1.15.0
 - numpydoc<1.2
@@ -23,7 +23,7 @@ dependencies:
 - pytest>=3.0
 - python-graphviz
 - python=3.8
-- scipy>1.4.1
+- scipy>=1.4.1,<1.8.0
 - sphinx-copybutton
 - sphinx-notfound-page
 - sphinx>=1.5

conda-envs/environment-dev-py39.yml

@@ -11,19 +11,19 @@ dependencies:
 - cloudpickle
 - fastprogress>=0.2.0
 - h5py>=2.7
-- ipython
+- ipython>=7.16
 - myst-nb
 - numpy>=1.15.0
 - numpydoc<1.2
-- pandas
+- pandas>=0.24.0
 - pip
 - pre-commit>=2.8.0
 - pydata-sphinx-theme
 - pytest-cov>=2.5
 - pytest>=3.0
 - python-graphviz
 - python=3.9
-- scipy>1.4.1
+- scipy>=1.4.1,<1.8.0
 - sphinx-copybutton
 - sphinx-notfound-page
 - sphinx>=1.5

conda-envs/environment-test-py37.yml

@@ -11,15 +11,15 @@ dependencies:
 - cloudpickle
 - fastprogress>=0.2.0
 - h5py>=2.7
-- ipython
+- ipython>=7.16
 - libblas=*=*mkl
 - mkl-service
 - numpy>=1.15.0
-- pandas>=0.24
+- pandas>=0.24.0
 - pre-commit>=2.8.0
 - pytest-cov>=2.5
 - pytest>=3.0
 - python-graphviz
 - python=3.7
-- scipy>1.4.1
-- typing-extensions
+- scipy>=1.4.1,<1.8.0
+- typing-extensions>=3.7.4

conda-envs/environment-test-py38.yml

@@ -11,15 +11,15 @@ dependencies:
 - cloudpickle
 - fastprogress>=0.2.0
 - h5py>=2.7
-- ipython
+- ipython>=7.16
 - libblas=*=*mkl
 - mkl-service
 - numpy>=1.15.0
-- pandas
+- pandas>=0.24.0
 - pre-commit>=2.8.0
 - pytest-cov>=2.5
 - pytest>=3.0
 - python-graphviz
 - python=3.8
-- scipy>1.4.1
+- scipy>=1.4.1,<1.8.0
 - typing-extensions>=3.7.4

conda-envs/environment-test-py39.yml

@@ -7,19 +7,19 @@ dependencies:
 - aeppl=0.0.18
 - aesara=2.3.8
 - arviz>=0.11.4
-- cachetools
+- cachetools>=4.2.1
 - cloudpickle
 - fastprogress>=0.2.0
-- h5py
+- h5py>=2.7
 - ipython>=7.16
 - libblas=*=*mkl
 - mkl-service
 - numpy>=1.15.0
-- pandas
+- pandas>=0.24.0
 - pre-commit>=2.8.0
 - pytest-cov>=2.5
 - pytest>=3.0
 - python-graphviz
 - python=3.9
-- scipy>1.4.1
+- scipy>=1.4.1,<1.8.0
 - typing-extensions>=3.7.4

conda-envs/windows-environment-dev-py38.yml

@@ -10,16 +10,16 @@ dependencies:
 - cachetools>=4.2.1
 - cloudpickle
 - fastprogress>=0.2.0
-- h5py
+- h5py>=2.7
 - numpy>=1.15.0
-- pandas
+- pandas>=0.24.0
 - pip
 - python=3.8
 - python-graphviz
-- scipy>1.4.1
+- scipy>=1.4.1,<1.8.0
 - typing-extensions>=3.7.4
 # Extra stuff for dev, testing and docs build
-- ipython
+- ipython>=7.16
 - myst-nb
 - numpydoc<1.2
 - pre-commit>=2.8.0

conda-envs/windows-environment-test-py38.yml

@@ -6,8 +6,8 @@ dependencies:
  # base dependencies (see install guide for Windows)
 - aeppl=0.0.18
 - aesara=2.3.8
-- arviz>=0.11.2
-- cachetools
+- arviz>=0.11.4
+- cachetools>=4.2.1
 - cloudpickle
 - fastprogress>=0.2.0
 - h5py>=2.7
@@ -16,11 +16,11 @@ dependencies:
 - mkl-service==2.3.0
 - m2w64-toolchain
 - numpy>=1.15.0
-- pandas
+- pandas>=0.24.0
 - pip
 - python=3.8
 - python-graphviz
-- scipy>1.4.1
+- scipy>=1.4.1,<1.8.0
 - typing-extensions>=3.7.4
 # Extra stuff for testing
 - ipython>=7.16

requirements-dev.txt

@@ -8,17 +8,17 @@ cachetools>=4.2.1
 cloudpickle
 fastprogress>=0.2.0
 h5py>=2.7
-ipython
+ipython>=7.16
 myst-nb
 numpy>=1.15.0
 numpydoc<1.2
-pandas
+pandas>=0.24.0
 polyagamma
 pre-commit>=2.8.0
 pydata-sphinx-theme
 pytest-cov>=2.5
 pytest>=3.0
-scipy>1.4.1
+scipy>=1.4.1,<1.8.0
 sphinx-copybutton
 sphinx-design
 sphinx-notfound-page

requirements.txt

@@ -6,5 +6,5 @@ cloudpickle
 fastprogress>=0.2.0
 numpy>=1.15.0
 pandas>=0.24.0
-scipy>=1.4.1
+scipy>=1.4.1,<1.8.0
 typing-extensions>=3.7.4

scripts/generate_pip_deps_from_conda.py

@@ -50,7 +50,6 @@
     "m2w64-toolchain",
     "mkl-service",
     "numba",
-    "scipy",
     "python-graphviz",
 }
 RENAME = {}