Remove all Python-related code (#290)

* Remove legacy example data * Remove kde and summarystats from API These will be added back later * Remove plotting functions from API * Remove rcparams code If desired, this functionality could be later be provided by Preferences.jl * Remove conversions of ELPD results to Python * Remove automatic conversions to xarray types * Remove Python-specific utilities * Remove Python setup code * Don't load PyCall * Remove extraneous load * Don't load Python * Remove unused DataFrames dependency * Remove Python as dependency * Remove futures workflow * Remove installation of Python deps * Use new Julia cache workflow * Update docs to note we no longer wrap Python arviz * Fix URL * Don't install Python deps in Invalidations workflow * Only run CI on ubuntu
arviz-devs · Jul 28, 2023 · 900b497 · 900b497
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Showing 39 changed files with 10 additions and 2,642 deletions.
diff --git a/.github/workflows/Invalidations.yml b/.github/workflows/Invalidations.yml
@@ -9,9 +9,6 @@ concurrency:
   group: ${{ github.workflow }}-${{ github.ref }}
   cancel-in-progress: true
 
-env:
-  PYTHON: "Conda" # use Julia's packaged Conda build for installing packages
-
 jobs:
   evaluate:
     # Only run on PRs to the default branch.
@@ -20,21 +17,8 @@ jobs:
     runs-on: ubuntu-latest
     steps:
     - uses: julia-actions/setup-julia@v1
-      with:
-        version: '1'
     - uses: actions/checkout@v3
     - uses: julia-actions/julia-buildpkg@v1
-    - name: Install ArviZ dependencies
-      run: |
-        using Pkg
-        Pkg.instantiate()
-        using Conda
-        # https://discourse.julialang.org/t/conda-not-installing-matplotlib-for-pyplot/96813/2
-        Conda.add("conda==23.1.0")
-        using ArviZ
-        ArviZ.initialize_arviz()
-        ArviZ.initialize_pandas()
-      shell: julia --color=yes --project {0}
     - uses: julia-actions/julia-invalidations@v1
       id: invs_pr
 

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -7,21 +7,15 @@ on:
   schedule:
     - cron: "0 0 * * *"
 
-env:
-  PYTHON: "Conda" # use Julia's packaged Conda build for installing packages
-
 jobs:
   test:
     name: Julia ${{ matrix.julia-version }} - ${{ matrix.os }}
     runs-on: ${{ matrix.os }}
     strategy:
       fail-fast: false
       matrix:
-        julia-version: ["1"]
-        os: [ubuntu-latest, windows-latest, macOS-latest]
-        include:
-          - julia-version: "1.6"
-            os: ubuntu-latest
+        julia-version: ["1", "1.6"]
+        os: [ubuntu-latest]
     steps:
       - uses: actions/checkout@v2
       - uses: r-lib/actions/setup-r@v2
@@ -41,34 +35,8 @@ jobs:
         with:
           version: ${{ matrix.julia-version }}
           arch: x64
-      - name: Cache Julia artifacts
-        uses: actions/cache@v2
-        env:
-          cache-name: cache-artifacts
-        with:
-          path: ~/.julia/artifacts
-          key: ${{ runner.os }}-test-${{ env.cache-name }}-${{ hashFiles('**/Project.toml') }}
-          restore-keys: |
-            ${{ runner.os }}-test-${{ env.cache-name }}-
-            ${{ runner.os }}-test-
-            ${{ runner.os }}-
-      - name: Install wget for windows
-        if: matrix.os == 'windows-latest'
-        uses: crazy-max/ghaction-chocolatey@v2
-        with:
-          args: install wget
+      - uses: julia-actions/cache@v1
       - uses: julia-actions/julia-buildpkg@latest
-      - name: Install ArviZ dependencies
-        run: |
-          using Pkg
-          Pkg.instantiate()
-          using Conda
-          # https://discourse.julialang.org/t/conda-not-installing-matplotlib-for-pyplot/96813/2
-          Conda.add("conda==23.1.0")
-          using ArviZ
-          ArviZ.initialize_arviz()
-          ArviZ.initialize_pandas()
-        shell: julia --color=yes --project {0}
       - uses: julia-actions/julia-runtest@latest
       - uses: julia-actions/julia-processcoverage@v1
       - uses: codecov/codecov-action@v1

diff --git a/.github/workflows/documenter.yml b/.github/workflows/documenter.yml
@@ -6,7 +6,6 @@ on:
   pull_request:
 
 env:
-  PYTHON: "Conda" # use Julia's packaged Conda build for installing packages
   CMDSTAN_VERSION: "2.25.0"
   CMDSTAN_PATH: "${{ GITHUB.WORKSPACE }}/.cmdstan/"
   JULIA_NUM_THREADS: 2
@@ -18,12 +17,7 @@ jobs:
     steps:
       - uses: actions/checkout@v2
       - uses: julia-actions/setup-julia@v1
-      - name: Cache CmdStan
-        id: cache-cmdstan
-        uses: actions/cache@v2
-        with:
-          path: ${{ env.CMDSTAN_PATH }}
-          key: cmdstan-${{ env.CMDSTAN_VERSION }}-${{ runner.os }}
+      - uses: julia-actions/cache@v1
       - name: Download and build CmdStan
         if: steps.cache-cmdstan.outputs.cache-hit != 'true'
         run: |
@@ -32,14 +26,6 @@ jobs:
           make -C ${{ env.CMDSTAN_PATH }}/cmdstan-${{ env.CMDSTAN_VERSION }}/ build
         shell: bash
       - uses: julia-actions/julia-buildpkg@latest
-      - name: Setup Conda
-        run: |
-          using Pkg
-          Pkg.instantiate()
-          using Conda
-          # https://discourse.julialang.org/t/conda-not-installing-matplotlib-for-pyplot/96813/2
-          Conda.add("conda==23.1.0")
-        shell: julia --color=yes --project {0}
       - uses: julia-actions/julia-docdeploy@v1
         env:
           JULIA_CMDSTAN_HOME: ${{ env.CMDSTAN_PATH }}/cmdstan-${{ env.CMDSTAN_VERSION }}/ # required by CmdStan.jl

diff --git a/.github/workflows/futures.yml b/.github/workflows/futures.yml
diff --git a/Project.toml b/Project.toml
@@ -4,17 +4,13 @@ authors = ["Seth Axen <[email protected]>"]
 version = "0.9.0-DEV"
 
 [deps]
-Conda = "8f4d0f93-b110-5947-807f-2305c1781a2d"
-DataDeps = "124859b0-ceae-595e-8997-d05f6a7a8dfe"
-DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
 DataInterpolations = "82cc6244-b520-54b8-b5a6-8a565e85f1d0"
 Dates = "ade2ca70-3891-5945-98fb-dc099432e06a"
 DimensionalData = "0703355e-b756-11e9-17c0-8b28908087d0"
 Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
 DocStringExtensions = "ffbed154-4ef7-542d-bbb7-c09d3a79fcae"
 InferenceObjects = "b5cf5a8d-e756-4ee3-b014-01d49d192c00"
 IteratorInterfaceExtensions = "82899510-4779-5014-852e-03e436cf321d"
-JSON3 = "0f8b85d8-7281-11e9-16c2-39a750bddbf1"
 LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
 LogExpFunctions = "2ab3a3ac-af41-5b50-aa03-7779005ae688"
 MCMCDiagnosticTools = "be115224-59cd-429b-ad48-344e309966f0"
@@ -24,8 +20,6 @@ OrderedCollections = "bac558e1-5e72-5ebc-8fee-abe8a469f55d"
 PSIS = "ce719bf2-d5d0-4fb9-925d-10a81b42ad04"
 PrettyTables = "08abe8d2-0d0c-5749-adfa-8a2ac140af0d"
 Printf = "de0858da-6303-5e67-8744-51eddeeeb8d7"
-PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"
-PyPlot = "d330b81b-6aea-500a-939a-2ce795aea3ee"
 REPL = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb"
 Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
 Requires = "ae029012-a4dd-5104-9daa-d747884805df"
@@ -36,24 +30,18 @@ TableTraits = "3783bdb8-4a98-5b6b-af9a-565f29a5fe9c"
 Tables = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"
 
 [compat]
-Conda = "1.0"
-DataDeps = "0.7"
-DataFrames = "0.20, 0.21, 0.22, 1.0"
 DataInterpolations = "4"
 DimensionalData = "0.23, 0.24"
 Distributions = "0.21, 0.22, 0.23, 0.24, 0.25"
 DocStringExtensions = "0.8, 0.9"
 InferenceObjects = "0.3.10"
 IteratorInterfaceExtensions = "0.1.1, 1"
-JSON3 = "1"
 LogExpFunctions = "0.2.0, 0.3"
 MCMCDiagnosticTools = "0.3.4"
 Optim = "1"
 OrderedCollections = "1"
 PSIS = "0.9.1"
 PrettyTables = "2.1, 2.2"
-PyCall = "1.91.2"
-PyPlot = "2.8.2"
 Requires = "0.5.2, 1.0"
 Setfield = "1"
 StatsBase = "0.32, 0.33, 0.34"

diff --git a/deps/build.jl b/deps/build.jl
diff --git a/deps/data/example_data/.gitignore b/deps/data/example_data/.gitignore