Dump info about installed packages

.github/workflows/benchmark.yaml

@@ -4,6 +4,10 @@ on:
   push:
     branches:
       - main
+  pull_request:
+    branches:
+      - '*'
+  workflow_dispatch: # allows to trigger manually
   schedule:
     - cron: "0 5 * * 4" # Once a week at 0500 on Thursday
 
@@ -37,7 +41,11 @@ jobs:
         with:
           repository: deshaw/versioned-hdf5
           path: ./versioned-hdf5/
-          fetch-depth: 0 # Needed for asv to be able to run benchmarks on old commits
+          fetch-depth: 0  # Needed for asv to be able to run benchmarks on old commits
+
+      - name: Get commit hash
+        working-directory: ./versioned-hdf5
+        run: echo "PROJECT_SHA=$(git rev-parse HEAD)" >> $GITHUB_ENV
 
       - uses: actions/checkout@v4
         with:
@@ -46,17 +54,30 @@ jobs:
       - name: Setup python with miniconda
         uses: conda-incubator/setup-miniconda@v3
         with:
-          python-version: 3.11
-          channels: conda-forge
+          miniforge-variant: Mambaforge
+          miniforge-version: latest
+          use-mamba: true
+          environment-file: versioned-hdf5-benchmarks/environment.yml
+          activate-environment: versioned-hdf5-benchmarks
 
       - name: Install versioned-hdf5
+        shell: bash -el {0}
         working-directory: ./versioned-hdf5
+        run: python -m pip install '.[bench]'
+
+      - name: Dump conda environment
+        shell: bash -el {0}
+        run: conda list
+
+      - name: Print hdf5 configuration
+        shell: bash -el {0}
+        working-directory: ./versioned-hdf5-benchmarks
         run: |
-          echo "PROJECT_SHA=$(git rev-parse HEAD)" >> $GITHUB_ENV
-          conda install -n test pip hdf5 openmpi h5py ndindex -c conda-forge -y
-          conda run -n test pip install '.[bench]'
+            python -c 'import utils; utils.debug_libhdf5_so()'
+            h5cc -showconfig
 
       - name: Run benchmarks
+        shell: bash -el {0}
         working-directory: ./versioned-hdf5
         run: |
           # Copy the old asv results back into ./versioned-hdf5 to avoid
@@ -65,11 +86,11 @@ jobs:
 
           # set the machine name; otherwise this is unique to each run
           echo "Setting machine name to $MACHINE_NAME"
-          conda run -n test asv machine --machine $MACHINE_NAME --yes -v
+          asv machine --machine $MACHINE_NAME --yes -v
           cat ~/.asv-machine.json
 
           # Don't return exit code 1 if results are slower
-          conda run -n test asv run --skip-existing --machine $MACHINE_NAME 1.7.0.. || true;
+          asv run --skip-existing --machine $MACHINE_NAME 1.7.0.. || true;
 
           # Copy the new benchmark results to the benchmarks repo to commit them
           rsync -r .asv ../versioned-hdf5-benchmarks/
@@ -82,18 +103,20 @@ jobs:
           message: "Update benchmarks for commit ${{ env.PROJECT_SHA }}"
 
       - name: Generate html
+        shell: bash -el {0}
         working-directory: ./versioned-hdf5
-        run: |
-          conda run -n test asv publish -o ./html
+        run: asv publish -o ./html
 
       - name: Setup Pages
         uses: actions/configure-pages@v5
 
       - name: Upload artifact
         uses: actions/upload-pages-artifact@v3
         with:
-          path: './versioned-hdf5/html'
+          path: ./versioned-hdf5/html
+          retention-days: 30
 
       - name: Deploy to GitHub Pages
+        if: github.event_name != 'pull_request'
         id: deployment
         uses: actions/deploy-pages@v4

environment.yml

@@ -0,0 +1,10 @@
+name: versioned-hdf5-benchmarks
+channels:
+  - conda-forge
+dependencies:
+  - python =3.11
+  - pip
+  - hdf5
+  - openmpi
+  - h5py
+  - ndindex

utils.py

@@ -0,0 +1,16 @@
+import os
+import subprocess
+
+
+def debug_libhdf5_so():
+    """Print out which .so file is actually loaded at runtime for libhdf5"""
+    import h5py
+
+    for row in (
+        subprocess.check_output(["lsof", "-p", str(os.getpid())])
+        .decode("utf-8")
+        .splitlines()
+    ):
+        row = row.strip()
+        if "libhdf5" in row:
+            print(row)