Update integration test environment

[jan-janssen]

Summary by CodeRabbit

• Chores
  • Updated key dependencies to latest stable versions for improved compatibility and system stability.

_{✏️ Tip: You can customize this high-level summary in your review settings.}

[coderabbitai]

Walkthrough

This pull request updates three dependency versions in the CI environment specification file: h5py to 3.15.1, atomistics to 0.3.4, and flux-core to 0.79.0. No dependencies are added or removed; only version numbers are modified.

Changes

Cohort / File(s)	Summary
CI environment dependency updates \.ci_support/environment-integration\.yml	Updated h5py from 3.15.0 to 3.15.1, atomistics from 0.3.0 to 0.3.4, and flux-core from 0.64.0 to 0.79.0

Estimated code review effort

🎯 1 (Trivial) | ⏱️ ~2 minutes

• Verify that version bumps are intentional and compatible with existing code
• Check if atomistics 0.3.4 introduction aligns with any API changes in the codebase
• Confirm flux-core 0.79.0 is stable and compatible with other dependencies

Possibly related PRs

• fix integration test #833: Updates code to use new public APIs introduced in atomistics 0.3.4 (same version bump target in this PR)
• Update h5py to 3.15.0 #843: Previous h5py version bump from 3.14.0 to 3.15.0 (this PR further bumps to 3.15.1)
• h5py - 3.13.0 #593: Similarly modifies h5py version pins in CI environment specification files

Poem

🐰 A hop through versions, one by one,
h5py shines brighter, 3.15's done,
Atomistics leaps to 0.3.4 high,
Flux-core soars through the CI sky! ✨

Pre-merge checks and finishing touches

✅ Passed checks (3 passed)

Check name	Status	Explanation
Description Check	✅ Passed	Check skipped - CodeRabbit’s high-level summary is enabled.
Title check	✅ Passed	The title 'Update integration test environment' directly and clearly summarizes the main change: updating dependency versions in the .ci_support/environment-integration.yml file for integration testing.
Docstring Coverage	✅ Passed	No functions found in the changed files to evaluate docstring coverage. Skipping docstring coverage check.

✨ Finishing touches

🧪 Generate unit tests (beta)

• Create PR with unit tests
• Post copyable unit tests in a comment
• Commit unit tests in branch integration

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[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 93.27%. Comparing base (e5fa92c) to head (3fe1635).
⚠️ Report is 2 commits behind head on main.

Additional details and impacted files

@@           Coverage Diff           @@
##             main     #871   +/-   ##
=======================================
  Coverage   93.27%   93.27%           
=======================================
  Files          38       38           
  Lines        1800     1800           
=======================================
  Hits         1679     1679           
  Misses        121      121           

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[coderabbitai]

Actionable comments posted: 1

📜 Review details

Configuration used: defaults

Review profile: CHILL

Plan: Pro

📥 Commits

Reviewing files that changed from the base of the PR and between 25681c6 and 3fe1635.

📒 Files selected for processing (1)

• .ci_support/environment-integration.yml (1 hunks)

⏰ Context from checks skipped due to timeout of 90000ms. You can increase the timeout in your CodeRabbit configuration to a maximum of 15 minutes (900000ms). (17)

• GitHub Check: unittest_mpich (ubuntu-24.04-arm, 3.13)
• GitHub Check: unittest_openmpi (ubuntu-24.04-arm, 3.13)
• GitHub Check: unittest_mpich (ubuntu-22.04-arm, 3.13)
• GitHub Check: unittest_openmpi (ubuntu-latest, 3.11)
• GitHub Check: unittest_mpich (ubuntu-latest, 3.11)
• GitHub Check: unittest_mpich (ubuntu-latest, 3.13)
• GitHub Check: unittest_openmpi (ubuntu-latest, 3.12)
• GitHub Check: unittest_flux_mpich
• GitHub Check: unittest_openmpi (ubuntu-22.04-arm, 3.13)
• GitHub Check: unittest_mpich (macos-latest, 3.13)
• GitHub Check: unittest_slurm_mpich
• GitHub Check: unittest_win
• GitHub Check: notebooks_integration
• GitHub Check: benchmark (ubuntu-latest, 3.13, .ci_support/environment-openmpi.yml)
• GitHub Check: unittest_flux_openmpi
• GitHub Check: benchmark (ubuntu-latest, 3.13, .ci_support/environment-mpich.yml)
• GitHub Check: notebooks

🔇 Additional comments (2)

.ci_support/environment-integration.yml (2)

4-4: h5py 3.15.1 is available on conda-forge. The patch version bump from 3.15.0 is a standard bugfix update and the version is available across multiple platforms (linux-64, linux-aarch64, linux-ppc64le, osx-64, osx-arm64, win-64). No action needed.

---

12-12: flux-core 0.79.0 is available on conda-forge — version jump is significant but acceptable for integration tests.

Version 0.79.0 is available on conda-forge. The 15 minor version jump is substantial, and since flux-core is at major version zero with unstable interfaces, any breaking changes would be announced in the release notes. However, for CI integration tests, any compatibility issues will be caught by test failures, so the risk is limited.

[coderabbitai]

⚠️ Potential issue | 🔴 Critical

🧩 Analysis chain

🏁 Script executed:

#!/bin/bash
# Verify atomistics 0.3.4 exists on conda-forge
conda search -c conda-forge atomistics --info 2>/dev/null | grep -E "^atomistics\s+0\.3\.(0|1|2|3|4)" | head -20

Repository: pyiron/executorlib

Length of output: 44

---

🏁 Script executed:

#!/bin/bash
# Broader search for atomistics on conda-forge
conda search -c conda-forge atomistics 2>/dev/null | head -30

Repository: pyiron/executorlib

Length of output: 44

---

Atomistics version 0.3.4 does not exist on conda-forge.

Only v0.2.5 is available on conda-forge. Update the version to atomistics =0.2.5 or verify the correct version should be specified.

🤖 Prompt for AI Agents

In .ci_support/environment-integration.yml around line 10, the pinned package
version "atomistics =0.3.4" does not exist on conda-forge; change it to the
available version "atomistics =0.2.5" (or update to the correct valid version if
0.3.4 was intended but obtained from a different channel), and ensure the
dependency line matches conda-forge naming and spacing conventions so the CI
environment can resolve the package.