Fix Python dependency issues breaking CI (#234)

* Pin versions using conda

* Increment version number

* Add windows build

* Correctly set Julia version

* Add macOS build

* Simplify matrix

* Pin pandas also

* Test data home only on v1.8

* Install wget for windows

* Don't specify shell is bash

* Check approximate equality for extract_dataset

.github/workflows/ci.yml

@@ -14,13 +14,16 @@ env:
 
 jobs:
  test:
- name: Julia ${{ matrix.julia-version }}
+ name: Julia ${{ matrix.julia-version }} - ${{ matrix.os }}
  runs-on: ${{ matrix.os }}
  strategy:
  fail-fast: false
  matrix:
- julia-version: ["1.6", "1"]
- os: [ubuntu-latest]
+ julia-version: ["1"]
+ os: [ubuntu-latest, windows-latest, macOS-latest]
+ include:
+ - julia-version: "1.6"
+ os: ubuntu-latest
  steps:
  - uses: actions/checkout@v2
  - uses: julia-actions/setup-julia@v1
@@ -44,13 +47,17 @@ jobs:
  with:
  path: ${{ env.CMDSTAN_PATH }}
  key: cmdstan-${{ env.CMDSTAN_VERSION }}-${{ runner.os }}
+ - name: Install wget for windows
+ if: matrix.os == 'windows-latest'
+ uses: crazy-max/ghaction-chocolatey@v2
+ with:
+ args: install wget
  - name: Download and build CmdStan
  if: steps.cache-cmdstan.outputs.cache-hit != 'true'
  run: |
  wget -P ${{ env.CMDSTAN_PATH }} https://github.com/stan-dev/cmdstan/releases/download/v${{ env.CMDSTAN_VERSION }}/cmdstan-${{ env.CMDSTAN_VERSION }}.tar.gz
  tar -xzpf ${{ env.CMDSTAN_PATH }}/cmdstan-${{ env.CMDSTAN_VERSION }}.tar.gz -C ${{ env.CMDSTAN_PATH }}
  make -C ${{ env.CMDSTAN_PATH }}/cmdstan-${{ env.CMDSTAN_VERSION }}/ build
- shell: bash
  - uses: julia-actions/julia-buildpkg@latest
  - name: Install ArviZ dependencies
  run: |

Project.toml

@@ -1,7 +1,7 @@
 name = "ArviZ"
 uuid = "131c737c-5715-5e2e-ad31-c244f01c1dc7"
 authors = ["Seth Axen <[email protected]>"]
-version = "0.6.5"
+version = "0.6.6"
 
 [deps]
 Conda = "8f4d0f93-b110-5947-807f-2305c1781a2d"

deps/build.jl

@@ -1,7 +1,6 @@
 using Conda
 
-# try to install scipy with pip if not yet installed
-# temporary workaround for https://github.com/arviz-devs/ArviZ.jl/issues/188
-Conda.pip_interop(true)
-Conda.pip("uninstall -y", "scipy")
-Conda.pip("install", "scipy")
+# temporary workaround for
+# - https://github.com/arviz-devs/ArviZ.jl/issues/188
+# - https://github.com/arviz-devs/arviz/issues/2120
+Conda.add(["matplotlib<3.6.0", "pandas<1.5.0", "scipy<=1.8.0"])

test/test_data.jl

@@ -5,7 +5,7 @@ using ArviZ, DimensionalData, Test
  post = extract_dataset(idata, :posterior; combined=false)
  for k in keys(idata.posterior)
  @test haskey(post, k)
- @test post[k] == idata.posterior[k]
+ @test post[k] ≈ idata.posterior[k]
  dims = DimensionalData.dims(post)
  dims_exp = DimensionalData.dims(idata.posterior)
  @test DimensionalData.name(dims) === DimensionalData.name(dims_exp)
@@ -14,7 +14,7 @@ using ArviZ, DimensionalData, Test
  prior = extract_dataset(idata, :prior; combined=false)
  for k in keys(idata.prior)
  @test haskey(prior, k)
- @test prior[k] == idata.prior[k]
+ @test prior[k] ≈ idata.prior[k]
  dims = DimensionalData.dims(prior)
  dims_exp = DimensionalData.dims(idata.prior)
  @test DimensionalData.name(dims) === DimensionalData.name(dims_exp)

test/test_example_data.jl

@@ -54,7 +54,7 @@ using ArviZ, Test
  data = @test_deprecated load_arviz_data("centered_eight")
  datasets = @test_deprecated load_arviz_data()
  @test datasets isa Dict
- mktempdir() do data_home
+ VERSION >= v"1.8" && mktempdir() do data_home
  @test_deprecated load_arviz_data("rugby", data_home)
  @test readdir(data_home) == ["rugby.nc"]
  end