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Bump pyglotaran from 0.4.1 to 0.6.0 #60

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@dependabot dependabot bot commented on behalf of github Jun 10, 2022

Bumps pyglotaran from 0.4.1 to 0.6.0.

Release notes

Sourced from pyglotaran's releases.

v0.6.0

pyglotaran 0.6.0 Release Notes

Triple code name release: "K.I.S.S." (keep it short and sweet), Keiko (first teaching release), Z.O.E. (happy birthday)

pyglotaran is a library commonly used for the analysis of time-resolved spectroscopy measurements in the study of energy transfer pathways in photosynthesis, or the characterization of energy transfer (in-)efficiencies in photovoltaic systems.

This is the first version of the software used in teaching, specifically the Photosynthesis and Energy 2022 course found here: ism200\PE2022

✨ Features

  • ✨ Python 3.10 support (#977)
  • ✨ Add simple decay megacomplexes (#860)
  • ✨ Feature: Generators (#866)
  • ✨ Project Class (#869)
  • ✨ Add clp guidance megacomplex (#1029)

👌 Minor Improvements:

  • 👌🎨 Add proper repr for DatasetMapping (#957)
  • 👌 Add SavingOptions to save_result API (#966)
  • ✨ Add parameter IO support for more formats supported by pandas (#896)
  • 👌 Apply IRF shift in coherent artifact megacomplex (#992)
  • 👌 Added IRF shift to result dataset (#994)
  • 👌 Improve Result, Parameter and ParameterGroup markdown (#1012)
  • 👌🧹 Add suffix to rate and lifetime and guard for missing datasets (#1022)
  • ♻️ Move simulation to own module (#1041)
  • ♻️ Move optimization to new module glotaran.optimization (#1047)
  • 🩹 Fix missing installation of clp-guide megacomplex as plugin (#1066)

🩹 Bug fixes

  • 🩹 Fix Crash in optimization_group_calculator_linked when using guidance spectra (#950)
  • 🩹 ParameterGroup.get degrades full_label of nested Parameters with nesting over 2 (#1043)
  • 🩹 Show validation problem if parameters are missing values (default: NaN) (#1076)

📚 Documentation

🗑️ Deprecations (due in 0.8.0)

  • glotaran.io.save_result(result, result_path, format_name='legacy') -> glotaran.io.save_result(result, Path(result_path) / 'result.yml')
  • glotaran.analysis.simulation -> glotaran.simulation.simulation
  • glotaran.analysis.optimize -> glotaran.optimization.optimize

🗑️❌ Deprecated functionality removed in this release

  • glotaran.ParameterGroup -> glotaran.parameter.ParameterGroup

... (truncated)

Changelog

Sourced from pyglotaran's changelog.

🚀 0.6.0 (2022-06-06)

✨ Features

  • ✨ Python 3.10 support (#977)
  • ✨ Add simple decay megacomplexes (#860)
  • ✨ Feature: Generators (#866)
  • ✨ Project Class (#869)
  • ✨ Add clp guidance megacomplex (#1029)

👌 Minor Improvements:

  • 👌🎨 Add proper repr for DatasetMapping (#957)
  • 👌 Add SavingOptions to save_result API (#966)
  • ✨ Add parameter IO support for more formats supported by pandas (#896)
  • 👌 Apply IRF shift in coherent artifact megacomplex (#992)
  • 👌 Added IRF shift to result dataset (#994)
  • 👌 Improve Result, Parameter and ParameterGroup markdown (#1012)
  • 👌🧹 Add suffix to rate and lifetime and guard for missing datasets (#1022)
  • ♻️ Move simulation to own module (#1041)
  • ♻️ Move optimization to new module glotaran.optimization (#1047)
  • 🩹 Fix missing installation of clp-guide megacomplex as plugin (#1066)
  • 🚧🔧 Add 'extras' and 'full' extras_require installation options (#1089)

🩹 Bug fixes

  • 🩹 Fix Crash in optimization_group_calculator_linked when using guidance spectra (#950)
  • 🩹 ParameterGroup.get degrades full_label of nested Parameters with nesting over 2 (#1043)
  • 🩹 Show validation problem if parameters are missing values (default: NaN) (#1076)

📚 Documentation

🗑️ Deprecations (due in 0.8.0)

  • glotaran.io.save_result(result, result_path, format_name='legacy') -> glotaran.io.save_result(result, Path(result_path) / 'result.yml')
  • glotaran.analysis.simulation -> glotaran.simulation.simulation
  • glotaran.analysis.optimize -> glotaran.optimization.optimize

🗑️❌ Deprecated functionality removed in this release

  • glotaran.ParameterGroup -> glotaran.parameter.ParameterGroup
  • glotaran.read_model_from_yaml -> glotaran.io.load_model(..., format_name="yaml_str")
  • glotaran.read_model_from_yaml_file -> glotaran.io.load_model(..., format_name="yaml")
  • glotaran.read_parameters_from_csv_file -> glotaran.io.load_parameters(..., format_name="csv")
  • glotaran.read_parameters_from_yaml -> glotaran.io.load_parameters(..., format_name="yaml_str")
  • glotaran.read_parameters_from_yaml_file -> glotaran.io.load_parameters(..., format_name="yaml")
  • glotaran.io.read_data_file -> glotaran.io.load_dataset
  • result.get_dataset("<dataset_name>") -> result.data["<dataset_name>"]

... (truncated)

Commits

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Bumps [pyglotaran](https://github.com/glotaran/pyglotaran) from 0.4.1 to 0.6.0.
- [Release notes](https://github.com/glotaran/pyglotaran/releases)
- [Changelog](https://github.com/glotaran/pyglotaran/blob/main/changelog.md)
- [Commits](glotaran/pyglotaran@v0.4.1...v0.6.0)

---
updated-dependencies:
- dependency-name: pyglotaran
  dependency-type: direct:development
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot dependabot bot added dependencies Pull requests that update a dependency file python Pull requests that update Python code labels Jun 10, 2022
@dependabot dependabot bot requested a review from s-weigand as a code owner June 10, 2022 16:03
@dependabot dependabot bot requested a review from jsnel June 10, 2022 16:03
@dependabot dependabot bot requested a review from jsnel as a code owner June 10, 2022 16:03
@dependabot dependabot bot requested a review from s-weigand June 10, 2022 16:03
@jsnel
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jsnel commented Jun 21, 2023

@s-weigand ping

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dependabot bot commented on behalf of github Jul 28, 2023

Superseded by #63.

@dependabot dependabot bot closed this Jul 28, 2023
@dependabot dependabot bot deleted the dependabot/pip/pyglotaran-0.6.0 branch July 28, 2023 16:54
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