Simplify test setup

Author: benjeffery

.github/workflows/tests.yml

@@ -32,14 +32,6 @@ jobs:
         with:
           submodules: true
 
-      - name: Install Conda (needed for GSL)
-        uses: conda-incubator/setup-miniconda@v3.1.1
-        with:
-          activate-environment: anaconda-client-env
-          python-version: ${{ matrix.python }}
-          channels: conda-forge, anaconda
-          channel-priority: strict
-          auto-update-conda: true
 
       - name: Fix windows symlinks
         # This is horrible, but the "git config core.symlinks true" didn't work.
@@ -48,36 +40,105 @@ jobs:
           rm lwt_interface
           cp -r --dereference git-submodules/tskit/python/lwt_interface ./lwt_interface
 
-      - name: Fix windows .profile
-        if: steps.cache.outputs.cache-hit != 'true' && matrix.os == 'windows-latest'
+      - name: Install GSL (macOS)
+        if: matrix.os == 'macos-latest'
+        run: brew install gsl
+        
+      - name: Install GSL (Windows)
+        if: matrix.os == 'windows-latest'
         run: |
-          cp ~/.bash_profile ~/.profile
-
-      - name: Install GSL
-        if: steps.cache.outputs.cache-hit != 'true'
-        shell: bash -l {0} #We need a login shell to get conda
-        run: conda install gsl
+          vcpkg install gsl:x64-windows
+          # Add GSL DLL directory to PATH for runtime
+          $vcpkgRoot = $env:VCPKG_INSTALLATION_ROOT
+          if (-not $vcpkgRoot) { $vcpkgRoot = "C:\vcpkg" }
+          $gslBinPath = Join-Path $vcpkgRoot "installed\x64-windows\bin"
+          echo "$gslBinPath" >> $env:GITHUB_PATH
+          Write-Output "Added to PATH: $gslBinPath"
+        shell: powershell
+        
+      - name: Install GSL (Ubuntu)
+        if: matrix.os == 'ubuntu-24.04'
+        run: sudo apt-get update && sudo apt-get install -y libgsl-dev
 
-      - name: Install uv
+      - name: Install uv and set the python version
         uses: astral-sh/setup-uv@v6
         with:
+          python-version: ${{ matrix.python }}
           version: "0.8.15"
 
       - name: Install pip deps
-        shell: bash -l {0}
         run: | 
+          uv venv
           uv pip install -r pyproject.toml --extra test
 
       - name: Build module
-        env:
-          MSP_CONDA_PREFIX: c:\Miniconda\envs\anaconda-client-env
         run: |
-          source ~/.profile
-          conda activate anaconda-client-env
-          python setup.py build_ext --inplace
+          uv run --no-sync python setup.py build_ext --inplace
+
+      - name: Analyze DLL dependencies (Windows)
+        if: matrix.os == 'windows-latest'
+        run: |
+          # First, let's see what files were actually created
+          Write-Output "=== All .pyd files in directory ==="
+          Get-ChildItem -Recurse -Name "*.pyd"
+          
+          Write-Output "=== All files matching *msprime* ==="
+          Get-ChildItem -Recurse -Name "*msprime*"
+          
+          Write-Output "=== Contents of msprime directory ==="
+          if (Test-Path "msprime") {
+            Get-ChildItem "msprime" -Name
+          } else {
+            Write-Output "msprime directory not found"
+          }
+          
+          # Find the built extension - try multiple patterns
+          $extension = Get-ChildItem -Recurse -Name "*.pyd" | Where-Object { $_ -like "*msprime*" } | Select-Object -First 1
+          Write-Output "Found extension: $extension"
+          
+          if ($extension) {
+            # Get full path
+            $extensionPath = Get-ChildItem -Recurse "*.pyd" | Where-Object { $_.Name -like "*msprime*" } | Select-Object -First 1 -ExpandProperty FullName
+            Write-Output "Extension full path: $extensionPath"
+            
+            # Download Dependency Walker
+            Write-Output "=== Downloading Dependency Walker ==="
+            Invoke-WebRequest -Uri "http://www.dependencywalker.com/depends22_x64.zip" -OutFile "depends.zip"
+            Expand-Archive depends.zip -DestinationPath "depends"
+            
+            # Run dependency walker
+            Write-Output "=== Running Dependency Walker ==="
+            .\depends\depends.exe /c /f:1 /ot:deps.txt "$extensionPath"
+            Start-Sleep -Seconds 5  # Give it time to complete
+            
+            # Output the full dependency analysis
+            if (Test-Path "deps.txt") {
+              Write-Output "=== Dependency Walker Analysis ==="
+              Get-Content deps.txt
+              Write-Output "=== End Analysis ==="
+            } else {
+              Write-Output "deps.txt not created - Dependency Walker may have failed"
+              Write-Output "=== Simple Import Test ==="
+              python -c "import msprime._msprime; print('SUCCESS')" 2>&1 || Write-Output "Import failed"
+            }
+            
+            # Check if GSL DLLs are in PATH
+            Write-Output "=== GSL DLL Check ==="
+            $env:PATH.Split(';') | ForEach-Object {
+              $dir = $_.Trim()
+              if ($dir -and (Test-Path $dir)) {
+                $gslDlls = Get-ChildItem -Path $dir -Name "gsl*.dll" -ErrorAction SilentlyContinue
+                if ($gslDlls) {
+                  Write-Output "Found GSL DLLs in ${dir}:"
+                  $gslDlls | ForEach-Object { Write-Output "  $_" }
+                }
+              }
+            }
+          } else {
+            Write-Output "ERROR: Could not find any msprime extension"
+          }
+        shell: powershell
 
       - name: Run tests
         run: |
-          source ~/.profile
-          conda activate anaconda-client-env
-          pytest -xvs -n0
+          uv run --no-sync pytest -xvs -n0