♻️🚇 Use GITHUB_OUTPUT instead of set-output in github actions

[s-weigand]

GitHub deprecated the usage of set-output in favor of using the environment file located at $GITHUB_OUTPUT.
The old syntax already gives warnings and will be switched off 31st May 2023.
This change makes the CI more future proof.

Ref.: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/

Change summary

• ♻️🚇 Use GITHUB_OUTPUT instead of set-output in github actions
• 📚🩹 Fixed input description for doxygen workflow

Checklist

• ✔️ Passing the tests (mandatory for all PR's)
• 🚧 Added changes to changelog (mandatory for all PR's)

[github-actions]

👈 Launch a binder notebook on branch s-weigand/pyglotaran/upgrade-gha-set-output

[github-actions]

Benchmark is done. Checkout the benchmark result page.
Benchmark differences below 5% might be due to CI noise.

Benchmark diff v0.6.0 vs. main

Parametrized benchmark signatures:

BenchmarkOptimize.time_optimize(index_dependent, grouped, weight)

All benchmarks:

       before           after         ratio
     [6c3c390e]       [db1e5760]
     <v0.6.0>                   
!        67.7±2ms           failed      n/a  BenchmarkOptimize.time_optimize(False, False, False)
!        146±30ms           failed      n/a  BenchmarkOptimize.time_optimize(False, False, True)
!        69.7±1ms           failed      n/a  BenchmarkOptimize.time_optimize(False, True, False)
!        161±10ms           failed      n/a  BenchmarkOptimize.time_optimize(False, True, True)
!        89.1±2ms           failed      n/a  BenchmarkOptimize.time_optimize(True, False, False)
!       96.0±30ms           failed      n/a  BenchmarkOptimize.time_optimize(True, False, True)
!      89.2±0.7ms           failed      n/a  BenchmarkOptimize.time_optimize(True, True, False)
!        109±30ms           failed      n/a  BenchmarkOptimize.time_optimize(True, True, True)
             204M             213M     1.04  IntegrationTwoDatasets.peakmem_optimize
-      2.44±0.07s       1.73±0.03s     0.71  IntegrationTwoDatasets.time_optimize

Benchmark diff main vs. PR

Parametrized benchmark signatures:

BenchmarkOptimize.time_optimize(index_dependent, grouped, weight)

All benchmarks:

       before           after         ratio
     [db1e5760]       [e1f0456b]
           failed           failed      n/a  BenchmarkOptimize.time_optimize(False, False, False)
           failed           failed      n/a  BenchmarkOptimize.time_optimize(False, False, True)
           failed           failed      n/a  BenchmarkOptimize.time_optimize(False, True, False)
           failed           failed      n/a  BenchmarkOptimize.time_optimize(False, True, True)
           failed           failed      n/a  BenchmarkOptimize.time_optimize(True, False, False)
           failed           failed      n/a  BenchmarkOptimize.time_optimize(True, False, True)
           failed           failed      n/a  BenchmarkOptimize.time_optimize(True, True, False)
           failed           failed      n/a  BenchmarkOptimize.time_optimize(True, True, True)
             213M             210M     0.99  IntegrationTwoDatasets.peakmem_optimize
       1.73±0.03s       1.72±0.05s     1.00  IntegrationTwoDatasets.time_optimize

[codecov]

Codecov Report

Base: 87.6% // Head: 87.6% // No change to project coverage 👍

Coverage data is based on head (e1f0456) compared to base (db1e576).
Patch has no changes to coverable lines.

Additional details and impacted files

@@          Coverage Diff          @@
##            main   #1166   +/-   ##
=====================================
  Coverage   87.6%   87.6%           
=====================================
  Files        103     103           
  Lines       4899    4899           
  Branches     807     807           
=====================================
  Hits        4292    4292           
  Misses       489     489           
  Partials     118     118           

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[sonarqubecloud]

Kudos, SonarCloud Quality Gate passed!   

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[s-weigand]

Ooops initially wanted to open the PR against my fork for testing 😅
Anyway I checked on my fork that the oxygen workflow works and this PR shows that the benchmark comments also work