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@FBumann FBumann commented Aug 13, 2025

Description

Brief description of the changes in this PR.

Type of Change

  • Bug fix
  • New feature
  • Documentation update
  • Code refactoring

Related Issues

Closes #(issue number)

Testing

  • I have tested my changes
  • Existing tests still pass

Checklist

  • My code follows the project style
  • I have updated documentation if needed
  • I have added tests for new functionality (if applicable)

@FBumann FBumann requested review from PStange and baumbude August 13, 2025 18:10
@FBumann FBumann merged commit 1474af6 into v3.0.0/main Aug 13, 2025
FBumann added a commit that referenced this pull request Sep 13, 2025
* Bugfix plot_node_balance_pie()

* Scenarios/fixes (#252)

* BUGFIX missing conversion to TimeSeries

* BUGFIX missing conversion to TimeSeries

* Bugfix node_balance with flow_hours: Negate correctly

* Scenarios/filter (#253)

* Add containts and startswith to filter_solution

* Scenarios/drop suffix (#251)

Drop suffixes in plots and add the option to drop suffixes to sanitize_dataset()

* Scenarios/bar plot (#254)

* Add stacked bar style to plotting methods
* Rename mode to style  (line, bar, area, ...)

* Bugfix plotting

* Fix example_calculation_types.py

* Scenarios/fixes (#255)

* Fix indexing issue with only one scenario

* Bugfix Cooling Tower

* Add option for balanced Storage Flows (equalize size of charging and discharging)

* Add option for balanced Storage Flows

* Change error to warning (non-fixed size with piecewise conversion AND fixed_flow_rate with OnOff)

* Bugfix in DataConverter

* BUGFIX: Typo (total_max/total_min in Effect)

* Bugfix in node_balance() (negating did not work when using flow_hours mode

* Scenarios/effects (#256)

* Add methods to track effect shares of components and Flows

* Add option to include flows when retrieving effects

* Add properties and methods to store effect results in a dataset

* Reorder methods

* Rename and improve docs

* Bugfix test class name

* Fix the Network algorithm to calculate the sum of parallel paths, and be independent on nr of nodes and complexity of the network

* Add tests for the newtork chaining and the results of effect shares

* Add methods to check for circular references

* Add test to check for circular references

* Update cycle checker to return the found cycles

* Add checks in results to confirm effects are computed correctly

* BUGFIX: Remove +1 from prior testing

* Add option for grouped bars to plotting.with_plotly() and make lines of stacked bar plots invisible

* Reconstruct FlowSystem in CalculationResults on demand. DEPRECATION in CalculationResults

* ruff check

* Bugfix: save flow_system data, not the flow_system

* Update tests

* Scenarios/datasets results (#257)

* Use dataarray instead of dataset

* Change effects dataset to dataarray and use nan when no share was found

* Add method for flow_rates dataset

* Add methods to get flow_rates and flow_hours as datasets

* Rename the dataarrays to the flow

* Preserve index order

* Improve filter_edges_dataset()

* Simplify _create_flow_rates_dataarray()

* Add dataset for sizes of Flows

* Extend results structure to contain flows AND start/end infos

* Add FlowResults Object

* BUGFIX:Typo in _ElementResults.constraints

* Add flows to results of Nodes

* Simplify dataarray creation and improve FlowResults

* Add nice docstrings

* Improve filtering of flow results

* Improve filtering of flow results. Add attribute of component

* Add big dataarray with all variables but indexed

* Revert "Add big dataarray with all variables but indexed"

This reverts commit 08cd8a1.

* Improve filtering method for coords filter and add error handling for restoring the flow system

* Remove unnecessary methods in results .from_json()

* Ensure consistent coord ordering in Effects dataarray

* Rename get_effects_per_component()

* Make effects_per_component() a dataset instead of a dataarray

* Improve backwards compatability

* ruff check

* ruff check

* Scenarios/deprecation (#258)

* Deprecate .active_timesteps

* Improve logger warning

* Starting release notes

* Bugfix in plausibility_check: Index 0

* Set bargap to 0 in stacked bars

* Ensure the size is always properly indexed in results.

* ruff check

* BUGFIX in extract data, that causes coords in linopy to be incorrect (scalar xarray.DataArrays)

* Improve yaml formatting for model documentation (#259)

* Make the size/capacity a TimeSeries (#260)

* Scenarios/plot network (#262)

* Catch bug in plot_network with 2D arrays

* Add plot_network() to test_io.py

* Update deploy-docs.yaml:
Run on Release publishing instead of creation
and
only run for stable releases (vx.y.z)

* Bugfix DataConverter and add tests (#263)

* Fix doc deployment to not publish on non stable releases

* Remove unused code

* Remove legend placing for better auto placing in plotly

* Fix plotly dependency

* Improve validation when adding new effects

* Moved release notes to CHANGELOG.md

* Try to add to_dataset to Elements

* Remove TimeSeries

* Remove TimeSeries

* Rename conversion method to pattern: to_...

* Move methods to FlowSystem

* Drop nan values across time dimension if present

* Allow lists of values to create DataArray

* Update resolving of FlowSystem

* Simplify TimeSeriesData

* Move TImeSeriesData to Structure and simplyfy to inherrit from xarray.DataArray

* Adjust IO

* Move TimeSeriesData back to core.py and fix Conversion

* Adjust IO to account for attrs of DataArrays in a Dataset

* Rename transforming and connection methods in FlowSystem

* Compacted IO methods

* Remove infos()

* remove from_dict() and to_dict()

* Update __str__ of Interface

* Improve str and repr

* Improve str and repr

* Add docstring

* Unify IO stuff in Interface class

* Improve test tu utilize __eq__ method

* Make Interface class more robust and improve exceptions

* Add option to copy Interfaces (And the FlowSystem)

* Make a copy of a FLowSytsem that gets reused in a second Calculation

* Remove test_timeseries.py

* Reorganizing Datatypes

* Remove TImeSeries and TimeSeriesCollection entirely

* Remove old method

* Add option to get structure with stats of dataarrays

* Change __str__ method

* Remove old methods

* remove old imports

* Add isel, sel and resample methods to FlowSystem

* Remove need for timeseries with extra timestep

* Simplify IO of FLowSystem

* Remove parameter timesteps from IO

* Improve Exceptions and Docstrings

* Improve isel sel and resample methods

* Change test

* Bugfix

* Improve

* Improve

* Add test for Storage Bounds

* Add test for Storage Bounds

* CHANGELOG.md

* ruff check

* Improve types

* CHANGELOG.md

* Bugfix in Storage

* Revert changes in example_calculation_types.py

* Revert changes in simple_example.py

* Add convenient access to Elements in FlowSystem

* Get Aggregated Calculation Working

* Segmented running with wrong results

* Use new persistent FLowSystem to create Calculations upfront

* Improve SegmentedCalcualtion

* Improve SegmentedCalcualtion

* Fix SegmentedResults IO

* ruff check

* Update example

* Updated logger essages to use .label_full instead of .label

* Re-add parameters. Use deprecation warning instead

* Update changelog

* Improve warning message

* Merge

* Merge

* Fit scenario weights to model coords when transforming

* Merge

* Removing logic between minimum, maximum and fixed size from InvestParameters

* Remove selected_timesteps

* Improve TypeHints

* New property on InvestParameters for min/max/fixed size

* Move logic for InvestParameters in Transmission to from Model to Interface

* Make transformation of data more hierarchical (Flows after Components)

* Add scenario validation

* Change Transmission to have a "balanced" attribute. Change Tests accordingly

* Improve index validations

* rename method in tests

* Update DataConverter

* Add DataFrame Support back

* Add copy() to DataConverter

* Update fit_to_model_coords to take a list of coords

* Make the DataConverter more universal by accepting a list of coords/dims

* Update DataConverter for n-d arrays

* Update DataConverter for n-d arrays

* Add extra tests for 3-dims

* Add FLowSystemDimension Type

* Revert some logic about the fit_to_model coords

* Adjust FLowSystem IO for scenarios

* BUGFIX: Raise Exception instead of logging

* Change usage of TimeSeriesData

* Adjust logic to handle non scalars

* Adjust logic to _resolve_dataarray_reference into separate method

* Update IO of FlowSystem

* Improve get_coords()

* Adjust FlowSystem init for correct IO

* Add scenario to sel and isel methods, and dont normalize scenario weights

* Improve scenario_weights_handling

* Add warning for not scaled weights

* Update test_scenarios.py

* Improve util method

* Add objective to solution dataset.

* Update handling of scenario_weights update tests

* Ruff check. Fix type hints

* Fix type hints and improve None handling

* Fix coords in AggregatedCalculation

* Improve Error Messages of DataConversion

* Allow multi dim data conversion and broadcasting by length

* Improve DataConverter to handle multi-dim arrays

* Rename methods and remove unused code

* Improve DataConverter by better splitting handling per datatype. Series only matches index (for one dim). Numpy matches shape

* Add test for error handling

* Update scenario example

* Fix Handling of TimeSeriesData

* Improve DataConverter

* Fix resampling of the FlowSystem

* Improve Warning Message

* Add example that leverages resampling

* Add example that leverages resampling adn fixing of Investments

* Add flag to Calculation if its modeled

* Make flag for connected_and_transformed FLowSystem public

* Make Calcualtion Methods return themselfes to make them chainable

* Improve example

* Improve Unreleased CHANGELOG.md

* Add year coord to FlowSystem

* Improve dimension handling

* Change plotting to use an indexer instead

* Change plotting to use an indexer instead

* Use tuples to set dimensions in Models

* Bugfix in validation logic and test

* Improve Errors

* Improve weights handling and rescaling if None

* Fix typehint

* Update Broadcasting in Storage Bounds and improve type hints

* Make .get_model_coords() return an actual xr.Coordinates Object

* Improve get_coords()

* Rename SystemModel to FlowSystemModel

* First steps

* Improve Feature Patterns

* Improve acess to variables via short names

* Improve

* Add naming options to big_m_binary_bounds()

* Fix and improve FLowModeling with Investment

* Improve

* Tyring to improve the Methods for bounding variables in different scenarios

* Improve BoundingPatterns

* Improve BoundingPatterns

* Improve BoundingPatterns

* Fix duration Modeling

* Fix On + Size

* Fix InvestmentModel

* Fix Models

* Update constraint names in test

* Fix OnOffModel for multiple Flows

* Update constraint names in tests

* Simplify

* Improve handling of vars/cons and models

* Revising the basic structure of a class Model

* Revising the basic structure of a class Model

* Simplify and focus more on own Model class

* Update tests

* Improve state computation in ModelingUtilities

* Improve handling of previous flowrates

* Imropove repr and submodel acess

* Update access pattern in tests

* Fix PiecewiseEffects and StorageModel

* Fix StorageModel and Remove PreventSimultaniousUseModel

* Fix Aggregation and SegmentedCalculation

* Update tests

* Loosen precision in tests

* Update test_on_hours_computation.py and some types

* Rename class Model to Submodel

* rename sub_model to submodel everywhere

* rename self.model to self.submodel everywhere

* Rename .model with .submodel if its only a submodel

* Rename .sub_models with .submodels

* Improve repr

* Improve repr

* Include def  do_modeling() into __init__() of models

* Make properties private

* Improve Inheritance of Models

* V3.0.0/plotting (#285)

* Use indexer to reliably plot solutions with and wihtout scenarios/years

* ruff check

* Improve typehints

* Update CHANGELOG.md

* Bugfix from renaming to .submodel

* Bugfix from renaming to .submodel

* Improve indexer in results plotting

* rename register_submodel() to .add_submodels() adn add SUbmodels collection class

* Add nice repr to FlowSystemModel and Submodel

* Bugfix .variables and .constraints

* Add type checks to modeling.py

* Improve assertion in tests

* Improve docstrings and register ElementModels directly in FlowSystemModel

* Improve __repr__()

* ruff check

* Use new method to compare sets in tests

* ruff check

* Update Contribute.md, some dependencies and add pre-commit

* Pre commit hook

* Run Pre-Commit Hook for the first time

* Fix link in README.md

* Update Effect name in tests to be 'costs' instead of 'Costs' Everywhere
Simplify testing by creating a Element Library

* Improve some of the modeling and coord handling

* Add tests with years and scenarios

* Update tests to run with multiple coords

* Fix Effects dataset computation in case of empty effects

* Update Test for multiple dims
Fix Dim order in scaled_bounds_with_state
Bugfix logic in .use_switch_on

* Fix test with multiple dims

* Fix test with multiple dims

* New test

* New test for previous flow_rates

* V3.0.0/main fit to model coords improve (#295)

* Change fit_to_model_coords to work with a Collection of dims

* Improve fit_to_model_coords

* Improve CHANGELOG.md
@FBumann FBumann mentioned this pull request Sep 13, 2025
9 tasks
@FBumann FBumann deleted the v3.0.0/main-fit-to-model-coords-improve branch September 13, 2025 08:59
FBumann added a commit that referenced this pull request Sep 24, 2025
* Remove need for timeseries with extra timestep

* Simplify IO of FLowSystem

* Remove parameter timesteps from IO

* Improve Exceptions and Docstrings

* Improve isel sel and resample methods

* Change test

* Bugfix

* Improve

* Improve

* Add test for Storage Bounds

* Add test for Storage Bounds

* CHANGELOG.md

* ruff check

* Improve types

* CHANGELOG.md

* Bugfix in Storage

* Revert changes in example_calculation_types.py

* Revert changes in simple_example.py

* Add convenient access to Elements in FlowSystem

* Get Aggregated Calculation Working

* Segmented running with wrong results

* Use new persistent FLowSystem to create Calculations upfront

* Improve SegmentedCalcualtion

* Improve SegmentedCalcualtion

* Fix SegmentedResults IO

* ruff check

* Update example

* Updated logger essages to use .label_full instead of .label

* Re-add parameters. Use deprecation warning instead

* Update changelog

* Improve warning message

* Merge

* Merge

* Fit scenario weights to model coords when transforming

* Merge

* Removing logic between minimum, maximum and fixed size from InvestParameters

* Remove selected_timesteps

* Improve TypeHints

* New property on InvestParameters for min/max/fixed size

* Move logic for InvestParameters in Transmission to from Model to Interface

* Make transformation of data more hierarchical (Flows after Components)

* Add scenario validation

* Change Transmission to have a "balanced" attribute. Change Tests accordingly

* Improve index validations

* rename method in tests

* Update DataConverter

* Add DataFrame Support back

* Add copy() to DataConverter

* Update fit_to_model_coords to take a list of coords

* Make the DataConverter more universal by accepting a list of coords/dims

* Update DataConverter for n-d arrays

* Update DataConverter for n-d arrays

* Add extra tests for 3-dims

* Add FLowSystemDimension Type

* Revert some logic about the fit_to_model coords

* Adjust FLowSystem IO for scenarios

* BUGFIX: Raise Exception instead of logging

* Change usage of TimeSeriesData

* Adjust logic to handle non scalars

* Adjust logic to _resolve_dataarray_reference into separate method

* Update IO of FlowSystem

* Improve get_coords()

* Adjust FlowSystem init for correct IO

* Add scenario to sel and isel methods, and dont normalize scenario weights

* Improve scenario_weights_handling

* Add warning for not scaled weights

* Update test_scenarios.py

* Improve util method

* Add objective to solution dataset.

* Update handling of scenario_weights update tests

* Ruff check. Fix type hints

* Fix type hints and improve None handling

* Fix coords in AggregatedCalculation

* Improve Error Messages of DataConversion

* Allow multi dim data conversion and broadcasting by length

* Improve DataConverter to handle multi-dim arrays

* Rename methods and remove unused code

* Improve DataConverter by better splitting handling per datatype. Series only matches index (for one dim). Numpy matches shape

* Add test for error handling

* Update scenario example

* Fix Handling of TimeSeriesData

* Improve DataConverter

* Fix resampling of the FlowSystem

* Improve Warning Message

* Add example that leverages resampling

* Add example that leverages resampling adn fixing of Investments

* Add flag to Calculation if its modeled

* Make flag for connected_and_transformed FLowSystem public

* Make Calcualtion Methods return themselfes to make them chainable

* Improve example

* Improve Unreleased CHANGELOG.md

* Add year coord to FlowSystem

* Improve dimension handling

* Change plotting to use an indexer instead

* Change plotting to use an indexer instead

* Use tuples to set dimensions in Models

* Bugfix in validation logic and test

* Improve Errors

* Improve weights handling and rescaling if None

* Fix typehint

* Update Broadcasting in Storage Bounds and improve type hints

* Make .get_model_coords() return an actual xr.Coordinates Object

* Improve get_coords()

* Rename SystemModel to FlowSystemModel

* First steps

* Improve Feature Patterns

* Improve acess to variables via short names

* Improve

* Add naming options to big_m_binary_bounds()

* Fix and improve FLowModeling with Investment

* Improve

* Tyring to improve the Methods for bounding variables in different scenarios

* Improve BoundingPatterns

* Improve BoundingPatterns

* Improve BoundingPatterns

* Fix duration Modeling

* Fix On + Size

* Fix InvestmentModel

* Fix Models

* Update constraint names in test

* Fix OnOffModel for multiple Flows

* Update constraint names in tests

* Simplify

* Improve handling of vars/cons and models

* Revising the basic structure of a class Model

* Revising the basic structure of a class Model

* Simplify and focus more on own Model class

* Update tests

* Improve state computation in ModelingUtilities

* Improve handling of previous flowrates

* Imropove repr and submodel acess

* Update access pattern in tests

* Fix PiecewiseEffects and StorageModel

* Fix StorageModel and Remove PreventSimultaniousUseModel

* Fix Aggregation and SegmentedCalculation

* Update tests

* Loosen precision in tests

* Update test_on_hours_computation.py and some types

* Rename class Model to Submodel

* rename sub_model to submodel everywhere

* rename self.model to self.submodel everywhere

* Rename .model with .submodel if its only a submodel

* Rename .sub_models with .submodels

* Improve repr

* Improve repr

* Include def  do_modeling() into __init__() of models

* Make properties private

* Improve Inheritance of Models

* V3.0.0/plotting (#285)

* Use indexer to reliably plot solutions with and wihtout scenarios/years

* ruff check

* Improve typehints

* Update CHANGELOG.md

* Bugfix from renaming to .submodel

* Bugfix from renaming to .submodel

* Improve indexer in results plotting

* rename register_submodel() to .add_submodels() adn add SUbmodels collection class

* Add nice repr to FlowSystemModel and Submodel

* Bugfix .variables and .constraints

* Add type checks to modeling.py

* Improve assertion in tests

* Improve docstrings and register ElementModels directly in FlowSystemModel

* Improve __repr__()

* ruff check

* Use new method to compare sets in tests

* ruff check

* Update Contribute.md, some dependencies and add pre-commit

* Pre commit hook

* Run Pre-Commit Hook for the first time

* Fix link in README.md

* Update Effect name in tests to be 'costs' instead of 'Costs' Everywhere
Simplify testing by creating a Element Library

* Improve some of the modeling and coord handling

* Add tests with years and scenarios

* Update tests to run with multiple coords

* Fix Effects dataset computation in case of empty effects

* Update Test for multiple dims
Fix Dim order in scaled_bounds_with_state
Bugfix logic in .use_switch_on

* Fix test with multiple dims

* Fix test with multiple dims

* New test

* New test for previous flow_rates

* Add Model for YearAwareInvestments

* Add FlowSystem.years_per_year attribute and "years_of_last_year" parameter to FlowSystem()

* Add YearAwareInvestmentModel

* Add new Interface

* Improve YearAwareInvestmentModel

* Rename and improve

* Move piecewise_effects

* COmbine TImingInvestment into a single interface

* Add model tests for investment

* Add size_changes variables

* Add size_changes variables

* Improve InvestmentModel

* Improve InvestmentModel

* Rename parameters

* remove old code

* Add a duration_in_years to the InvestTimingParameters

* Improve handling of fixed_duration

* Improve validation and make Investment/divestment optional by default

* Rename some vars and improve previous handling

* Add validation for previous size

* Change fit_to_model_coords to work with a Collection of dims

* Improve fit_to_model_coords

* Improve test

* Update transform_data()

* Add new "year of investment" coord to FlowSystem

* Add 'year_of_investment' dimension to FlowSystem

* Improve InvestmentTiming

* Improve InvestmentTiming

* Add specific_effect back

* add effects_by_investment_year back

* Add year_of_investment to FLowSystem.sel()

* Improve Interface

* Handle selection of years properly again

* Temp

* Make ModelingPrimitives.consecutive_duration_tracking() dim-agnostic

* Use new lifetime variable and constraining methods

* Improve Plausibility check

* Improve InvestmentTImingParameters

* Improve weights

* Adjust test

* Remove old classes

* V3.0.0/main fit to model coords improve (#295)

* Change fit_to_model_coords to work with a Collection of dims

* Improve fit_to_model_coords

* ruff format

* Revert changes

* Update type hints

* Revert changes introduced by new Multiperiod Invest parameters

* Improve CHnagelog and docstring of Storage

* Improve Changelog

* Improve InvestmentModel

* Improve InvestmentModel to have 2 cases. One without years and one with

* Improve InvestmentModel to have 2 cases. One without years and one with years. Further, remove investment_scenarios parameter

* Revert some changes regarding Investments

* Typo

* Remove Investment test file (only local testing)

* More reverted changes

* More reverted changes

* Add years_of_last_year to docstring

* Revert change from Investment

* Revert change from Investment

* Remove old todos.txt file

* Fix typos in CHANGELOG.md

* Improve usage of name_prefix to intelligently join with the label

* Ensure IO of years_of_last_year

* Typo

* Typo
FBumann added a commit that referenced this pull request Oct 13, 2025
* V3.0.0/main (#284)

* Bugfix plot_node_balance_pie()

* Scenarios/fixes (#252)

* BUGFIX missing conversion to TimeSeries

* BUGFIX missing conversion to TimeSeries

* Bugfix node_balance with flow_hours: Negate correctly

* Scenarios/filter (#253)

* Add containts and startswith to filter_solution

* Scenarios/drop suffix (#251)

Drop suffixes in plots and add the option to drop suffixes to sanitize_dataset()

* Scenarios/bar plot (#254)

* Add stacked bar style to plotting methods
* Rename mode to style  (line, bar, area, ...)

* Bugfix plotting

* Fix example_calculation_types.py

* Scenarios/fixes (#255)

* Fix indexing issue with only one scenario

* Bugfix Cooling Tower

* Add option for balanced Storage Flows (equalize size of charging and discharging)

* Add option for balanced Storage Flows

* Change error to warning (non-fixed size with piecewise conversion AND fixed_flow_rate with OnOff)

* Bugfix in DataConverter

* BUGFIX: Typo (total_max/total_min in Effect)

* Bugfix in node_balance() (negating did not work when using flow_hours mode

* Scenarios/effects (#256)

* Add methods to track effect shares of components and Flows

* Add option to include flows when retrieving effects

* Add properties and methods to store effect results in a dataset

* Reorder methods

* Rename and improve docs

* Bugfix test class name

* Fix the Network algorithm to calculate the sum of parallel paths, and be independent on nr of nodes and complexity of the network

* Add tests for the newtork chaining and the results of effect shares

* Add methods to check for circular references

* Add test to check for circular references

* Update cycle checker to return the found cycles

* Add checks in results to confirm effects are computed correctly

* BUGFIX: Remove +1 from prior testing

* Add option for grouped bars to plotting.with_plotly() and make lines of stacked bar plots invisible

* Reconstruct FlowSystem in CalculationResults on demand. DEPRECATION in CalculationResults

* ruff check

* Bugfix: save flow_system data, not the flow_system

* Update tests

* Scenarios/datasets results (#257)

* Use dataarray instead of dataset

* Change effects dataset to dataarray and use nan when no share was found

* Add method for flow_rates dataset

* Add methods to get flow_rates and flow_hours as datasets

* Rename the dataarrays to the flow

* Preserve index order

* Improve filter_edges_dataset()

* Simplify _create_flow_rates_dataarray()

* Add dataset for sizes of Flows

* Extend results structure to contain flows AND start/end infos

* Add FlowResults Object

* BUGFIX:Typo in _ElementResults.constraints

* Add flows to results of Nodes

* Simplify dataarray creation and improve FlowResults

* Add nice docstrings

* Improve filtering of flow results

* Improve filtering of flow results. Add attribute of component

* Add big dataarray with all variables but indexed

* Revert "Add big dataarray with all variables but indexed"

This reverts commit 08cd8a1.

* Improve filtering method for coords filter and add error handling for restoring the flow system

* Remove unnecessary methods in results .from_json()

* Ensure consistent coord ordering in Effects dataarray

* Rename get_effects_per_component()

* Make effects_per_component() a dataset instead of a dataarray

* Improve backwards compatability

* ruff check

* ruff check

* Scenarios/deprecation (#258)

* Deprecate .active_timesteps

* Improve logger warning

* Starting release notes

* Bugfix in plausibility_check: Index 0

* Set bargap to 0 in stacked bars

* Ensure the size is always properly indexed in results.

* ruff check

* BUGFIX in extract data, that causes coords in linopy to be incorrect (scalar xarray.DataArrays)

* Improve yaml formatting for model documentation (#259)

* Make the size/capacity a TimeSeries (#260)

* Scenarios/plot network (#262)

* Catch bug in plot_network with 2D arrays

* Add plot_network() to test_io.py

* Update deploy-docs.yaml:
Run on Release publishing instead of creation
and
only run for stable releases (vx.y.z)

* Bugfix DataConverter and add tests (#263)

* Fix doc deployment to not publish on non stable releases

* Remove unused code

* Remove legend placing for better auto placing in plotly

* Fix plotly dependency

* Improve validation when adding new effects

* Moved release notes to CHANGELOG.md

* Try to add to_dataset to Elements

* Remove TimeSeries

* Remove TimeSeries

* Rename conversion method to pattern: to_...

* Move methods to FlowSystem

* Drop nan values across time dimension if present

* Allow lists of values to create DataArray

* Update resolving of FlowSystem

* Simplify TimeSeriesData

* Move TImeSeriesData to Structure and simplyfy to inherrit from xarray.DataArray

* Adjust IO

* Move TimeSeriesData back to core.py and fix Conversion

* Adjust IO to account for attrs of DataArrays in a Dataset

* Rename transforming and connection methods in FlowSystem

* Compacted IO methods

* Remove infos()

* remove from_dict() and to_dict()

* Update __str__ of Interface

* Improve str and repr

* Improve str and repr

* Add docstring

* Unify IO stuff in Interface class

* Improve test tu utilize __eq__ method

* Make Interface class more robust and improve exceptions

* Add option to copy Interfaces (And the FlowSystem)

* Make a copy of a FLowSytsem that gets reused in a second Calculation

* Remove test_timeseries.py

* Reorganizing Datatypes

* Remove TImeSeries and TimeSeriesCollection entirely

* Remove old method

* Add option to get structure with stats of dataarrays

* Change __str__ method

* Remove old methods

* remove old imports

* Add isel, sel and resample methods to FlowSystem

* Remove need for timeseries with extra timestep

* Simplify IO of FLowSystem

* Remove parameter timesteps from IO

* Improve Exceptions and Docstrings

* Improve isel sel and resample methods

* Change test

* Bugfix

* Improve

* Improve

* Add test for Storage Bounds

* Add test for Storage Bounds

* CHANGELOG.md

* ruff check

* Improve types

* CHANGELOG.md

* Bugfix in Storage

* Revert changes in example_calculation_types.py

* Revert changes in simple_example.py

* Add convenient access to Elements in FlowSystem

* Get Aggregated Calculation Working

* Segmented running with wrong results

* Use new persistent FLowSystem to create Calculations upfront

* Improve SegmentedCalcualtion

* Improve SegmentedCalcualtion

* Fix SegmentedResults IO

* ruff check

* Update example

* Updated logger essages to use .label_full instead of .label

* Re-add parameters. Use deprecation warning instead

* Update changelog

* Improve warning message

* Merge

* Merge

* Fit scenario weights to model coords when transforming

* Merge

* Removing logic between minimum, maximum and fixed size from InvestParameters

* Remove selected_timesteps

* Improve TypeHints

* New property on InvestParameters for min/max/fixed size

* Move logic for InvestParameters in Transmission to from Model to Interface

* Make transformation of data more hierarchical (Flows after Components)

* Add scenario validation

* Change Transmission to have a "balanced" attribute. Change Tests accordingly

* Improve index validations

* rename method in tests

* Update DataConverter

* Add DataFrame Support back

* Add copy() to DataConverter

* Update fit_to_model_coords to take a list of coords

* Make the DataConverter more universal by accepting a list of coords/dims

* Update DataConverter for n-d arrays

* Update DataConverter for n-d arrays

* Add extra tests for 3-dims

* Add FLowSystemDimension Type

* Revert some logic about the fit_to_model coords

* Adjust FLowSystem IO for scenarios

* BUGFIX: Raise Exception instead of logging

* Change usage of TimeSeriesData

* Adjust logic to handle non scalars

* Adjust logic to _resolve_dataarray_reference into separate method

* Update IO of FlowSystem

* Improve get_coords()

* Adjust FlowSystem init for correct IO

* Add scenario to sel and isel methods, and dont normalize scenario weights

* Improve scenario_weights_handling

* Add warning for not scaled weights

* Update test_scenarios.py

* Improve util method

* Add objective to solution dataset.

* Update handling of scenario_weights update tests

* Ruff check. Fix type hints

* Fix type hints and improve None handling

* Fix coords in AggregatedCalculation

* Improve Error Messages of DataConversion

* Allow multi dim data conversion and broadcasting by length

* Improve DataConverter to handle multi-dim arrays

* Rename methods and remove unused code

* Improve DataConverter by better splitting handling per datatype. Series only matches index (for one dim). Numpy matches shape

* Add test for error handling

* Update scenario example

* Fix Handling of TimeSeriesData

* Improve DataConverter

* Fix resampling of the FlowSystem

* Improve Warning Message

* Add example that leverages resampling

* Add example that leverages resampling adn fixing of Investments

* Add flag to Calculation if its modeled

* Make flag for connected_and_transformed FLowSystem public

* Make Calcualtion Methods return themselfes to make them chainable

* Improve example

* Improve Unreleased CHANGELOG.md

* Add year coord to FlowSystem

* Improve dimension handling

* Change plotting to use an indexer instead

* Change plotting to use an indexer instead

* Use tuples to set dimensions in Models

* Bugfix in validation logic and test

* Improve Errors

* Improve weights handling and rescaling if None

* Fix typehint

* Update Broadcasting in Storage Bounds and improve type hints

* Make .get_model_coords() return an actual xr.Coordinates Object

* Improve get_coords()

* Rename SystemModel to FlowSystemModel

* First steps

* Improve Feature Patterns

* Improve acess to variables via short names

* Improve

* Add naming options to big_m_binary_bounds()

* Fix and improve FLowModeling with Investment

* Improve

* Tyring to improve the Methods for bounding variables in different scenarios

* Improve BoundingPatterns

* Improve BoundingPatterns

* Improve BoundingPatterns

* Fix duration Modeling

* Fix On + Size

* Fix InvestmentModel

* Fix Models

* Update constraint names in test

* Fix OnOffModel for multiple Flows

* Update constraint names in tests

* Simplify

* Improve handling of vars/cons and models

* Revising the basic structure of a class Model

* Revising the basic structure of a class Model

* Simplify and focus more on own Model class

* Update tests

* Improve state computation in ModelingUtilities

* Improve handling of previous flowrates

* Imropove repr and submodel acess

* Update access pattern in tests

* Fix PiecewiseEffects and StorageModel

* Fix StorageModel and Remove PreventSimultaniousUseModel

* Fix Aggregation and SegmentedCalculation

* Update tests

* Loosen precision in tests

* Update test_on_hours_computation.py and some types

* Rename class Model to Submodel

* rename sub_model to submodel everywhere

* rename self.model to self.submodel everywhere

* Rename .model with .submodel if its only a submodel

* Rename .sub_models with .submodels

* Improve repr

* Improve repr

* Include def  do_modeling() into __init__() of models

* Make properties private

* Improve Inheritance of Models

* V3.0.0/plotting (#285)

* Use indexer to reliably plot solutions with and wihtout scenarios/years

* ruff check

* Improve typehints

* Update CHANGELOG.md

* Bugfix from renaming to .submodel

* Bugfix from renaming to .submodel

* Improve indexer in results plotting

* rename register_submodel() to .add_submodels() adn add SUbmodels collection class

* Add nice repr to FlowSystemModel and Submodel

* Bugfix .variables and .constraints

* Add type checks to modeling.py

* Improve assertion in tests

* Improve docstrings and register ElementModels directly in FlowSystemModel

* Improve __repr__()

* ruff check

* Use new method to compare sets in tests

* ruff check

* Update Contribute.md, some dependencies and add pre-commit

* Pre commit hook

* Run Pre-Commit Hook for the first time

* Fix link in README.md

* Update Effect name in tests to be 'costs' instead of 'Costs' Everywhere
Simplify testing by creating a Element Library

* Improve some of the modeling and coord handling

* Add tests with years and scenarios

* Update tests to run with multiple coords

* Fix Effects dataset computation in case of empty effects

* Update Test for multiple dims
Fix Dim order in scaled_bounds_with_state
Bugfix logic in .use_switch_on

* Fix test with multiple dims

* Fix test with multiple dims

* New test

* New test for previous flow_rates

* V3.0.0/main fit to model coords improve (#295)

* Change fit_to_model_coords to work with a Collection of dims

* Improve fit_to_model_coords

* Improve CHANGELOG.md

* Update pyproject.toml

* new ruff check

* Merge branch 'main' into dev

# Conflicts:
#	CHANGELOG.md
#	flixopt/network_app.py

* Update CHANGELOG.md

* Fix Error message

* Revert changes

* Feature/v3/update (#352)

* Remove need for timeseries with extra timestep

* Simplify IO of FLowSystem

* Remove parameter timesteps from IO

* Improve Exceptions and Docstrings

* Improve isel sel and resample methods

* Change test

* Bugfix

* Improve

* Improve

* Add test for Storage Bounds

* Add test for Storage Bounds

* CHANGELOG.md

* ruff check

* Improve types

* CHANGELOG.md

* Bugfix in Storage

* Revert changes in example_calculation_types.py

* Revert changes in simple_example.py

* Add convenient access to Elements in FlowSystem

* Get Aggregated Calculation Working

* Segmented running with wrong results

* Use new persistent FLowSystem to create Calculations upfront

* Improve SegmentedCalcualtion

* Improve SegmentedCalcualtion

* Fix SegmentedResults IO

* ruff check

* Update example

* Updated logger essages to use .label_full instead of .label

* Re-add parameters. Use deprecation warning instead

* Update changelog

* Improve warning message

* Merge

* Merge

* Fit scenario weights to model coords when transforming

* Merge

* Removing logic between minimum, maximum and fixed size from InvestParameters

* Remove selected_timesteps

* Improve TypeHints

* New property on InvestParameters for min/max/fixed size

* Move logic for InvestParameters in Transmission to from Model to Interface

* Make transformation of data more hierarchical (Flows after Components)

* Add scenario validation

* Change Transmission to have a "balanced" attribute. Change Tests accordingly

* Improve index validations

* rename method in tests

* Update DataConverter

* Add DataFrame Support back

* Add copy() to DataConverter

* Update fit_to_model_coords to take a list of coords

* Make the DataConverter more universal by accepting a list of coords/dims

* Update DataConverter for n-d arrays

* Update DataConverter for n-d arrays

* Add extra tests for 3-dims

* Add FLowSystemDimension Type

* Revert some logic about the fit_to_model coords

* Adjust FLowSystem IO for scenarios

* BUGFIX: Raise Exception instead of logging

* Change usage of TimeSeriesData

* Adjust logic to handle non scalars

* Adjust logic to _resolve_dataarray_reference into separate method

* Update IO of FlowSystem

* Improve get_coords()

* Adjust FlowSystem init for correct IO

* Add scenario to sel and isel methods, and dont normalize scenario weights

* Improve scenario_weights_handling

* Add warning for not scaled weights

* Update test_scenarios.py

* Improve util method

* Add objective to solution dataset.

* Update handling of scenario_weights update tests

* Ruff check. Fix type hints

* Fix type hints and improve None handling

* Fix coords in AggregatedCalculation

* Improve Error Messages of DataConversion

* Allow multi dim data conversion and broadcasting by length

* Improve DataConverter to handle multi-dim arrays

* Rename methods and remove unused code

* Improve DataConverter by better splitting handling per datatype. Series only matches index (for one dim). Numpy matches shape

* Add test for error handling

* Update scenario example

* Fix Handling of TimeSeriesData

* Improve DataConverter

* Fix resampling of the FlowSystem

* Improve Warning Message

* Add example that leverages resampling

* Add example that leverages resampling adn fixing of Investments

* Add flag to Calculation if its modeled

* Make flag for connected_and_transformed FLowSystem public

* Make Calcualtion Methods return themselfes to make them chainable

* Improve example

* Improve Unreleased CHANGELOG.md

* Add year coord to FlowSystem

* Improve dimension handling

* Change plotting to use an indexer instead

* Change plotting to use an indexer instead

* Use tuples to set dimensions in Models

* Bugfix in validation logic and test

* Improve Errors

* Improve weights handling and rescaling if None

* Fix typehint

* Update Broadcasting in Storage Bounds and improve type hints

* Make .get_model_coords() return an actual xr.Coordinates Object

* Improve get_coords()

* Rename SystemModel to FlowSystemModel

* First steps

* Improve Feature Patterns

* Improve acess to variables via short names

* Improve

* Add naming options to big_m_binary_bounds()

* Fix and improve FLowModeling with Investment

* Improve

* Tyring to improve the Methods for bounding variables in different scenarios

* Improve BoundingPatterns

* Improve BoundingPatterns

* Improve BoundingPatterns

* Fix duration Modeling

* Fix On + Size

* Fix InvestmentModel

* Fix Models

* Update constraint names in test

* Fix OnOffModel for multiple Flows

* Update constraint names in tests

* Simplify

* Improve handling of vars/cons and models

* Revising the basic structure of a class Model

* Revising the basic structure of a class Model

* Simplify and focus more on own Model class

* Update tests

* Improve state computation in ModelingUtilities

* Improve handling of previous flowrates

* Imropove repr and submodel acess

* Update access pattern in tests

* Fix PiecewiseEffects and StorageModel

* Fix StorageModel and Remove PreventSimultaniousUseModel

* Fix Aggregation and SegmentedCalculation

* Update tests

* Loosen precision in tests

* Update test_on_hours_computation.py and some types

* Rename class Model to Submodel

* rename sub_model to submodel everywhere

* rename self.model to self.submodel everywhere

* Rename .model with .submodel if its only a submodel

* Rename .sub_models with .submodels

* Improve repr

* Improve repr

* Include def  do_modeling() into __init__() of models

* Make properties private

* Improve Inheritance of Models

* V3.0.0/plotting (#285)

* Use indexer to reliably plot solutions with and wihtout scenarios/years

* ruff check

* Improve typehints

* Update CHANGELOG.md

* Bugfix from renaming to .submodel

* Bugfix from renaming to .submodel

* Improve indexer in results plotting

* rename register_submodel() to .add_submodels() adn add SUbmodels collection class

* Add nice repr to FlowSystemModel and Submodel

* Bugfix .variables and .constraints

* Add type checks to modeling.py

* Improve assertion in tests

* Improve docstrings and register ElementModels directly in FlowSystemModel

* Improve __repr__()

* ruff check

* Use new method to compare sets in tests

* ruff check

* Update Contribute.md, some dependencies and add pre-commit

* Pre commit hook

* Run Pre-Commit Hook for the first time

* Fix link in README.md

* Update Effect name in tests to be 'costs' instead of 'Costs' Everywhere
Simplify testing by creating a Element Library

* Improve some of the modeling and coord handling

* Add tests with years and scenarios

* Update tests to run with multiple coords

* Fix Effects dataset computation in case of empty effects

* Update Test for multiple dims
Fix Dim order in scaled_bounds_with_state
Bugfix logic in .use_switch_on

* Fix test with multiple dims

* Fix test with multiple dims

* New test

* New test for previous flow_rates

* Add Model for YearAwareInvestments

* Add FlowSystem.years_per_year attribute and "years_of_last_year" parameter to FlowSystem()

* Add YearAwareInvestmentModel

* Add new Interface

* Improve YearAwareInvestmentModel

* Rename and improve

* Move piecewise_effects

* COmbine TImingInvestment into a single interface

* Add model tests for investment

* Add size_changes variables

* Add size_changes variables

* Improve InvestmentModel

* Improve InvestmentModel

* Rename parameters

* remove old code

* Add a duration_in_years to the InvestTimingParameters

* Improve handling of fixed_duration

* Improve validation and make Investment/divestment optional by default

* Rename some vars and improve previous handling

* Add validation for previous size

* Change fit_to_model_coords to work with a Collection of dims

* Improve fit_to_model_coords

* Improve test

* Update transform_data()

* Add new "year of investment" coord to FlowSystem

* Add 'year_of_investment' dimension to FlowSystem

* Improve InvestmentTiming

* Improve InvestmentTiming

* Add specific_effect back

* add effects_by_investment_year back

* Add year_of_investment to FLowSystem.sel()

* Improve Interface

* Handle selection of years properly again

* Temp

* Make ModelingPrimitives.consecutive_duration_tracking() dim-agnostic

* Use new lifetime variable and constraining methods

* Improve Plausibility check

* Improve InvestmentTImingParameters

* Improve weights

* Adjust test

* Remove old classes

* V3.0.0/main fit to model coords improve (#295)

* Change fit_to_model_coords to work with a Collection of dims

* Improve fit_to_model_coords

* ruff format

* Revert changes

* Update type hints

* Revert changes introduced by new Multiperiod Invest parameters

* Improve CHnagelog and docstring of Storage

* Improve Changelog

* Improve InvestmentModel

* Improve InvestmentModel to have 2 cases. One without years and one with

* Improve InvestmentModel to have 2 cases. One without years and one with years. Further, remove investment_scenarios parameter

* Revert some changes regarding Investments

* Typo

* Remove Investment test file (only local testing)

* More reverted changes

* More reverted changes

* Add years_of_last_year to docstring

* Revert change from Investment

* Revert change from Investment

* Remove old todos.txt file

* Fix typos in CHANGELOG.md

* Improve usage of name_prefix to intelligently join with the label

* Ensure IO of years_of_last_year

* Typo

* Typo

* activat tests on pulls to feature/v3

* activat tests on pulls to feature/v3/main

* Feature/v3/low-impact-improvements (#355)

* Fix typo

* Prefer robust scalar extraction for timestep sizes in aggregation

* Improve docs and error messages

* Update examples

* Use validated timesteps

* Remove unnessesary import

* Use FlowSystem.model instead of FlowSystem.submodel

* Fix Error message

* Improve CHANGELOG.md

* Use self.standard_effect instead of provate self._standard_effect and update docstring

* in calculate_all_conversion_paths, use `collections.deque` for efficiency on large graphs

* Make aggregation_parameters.hours_per_period more robust by using rounding

* Improve import and typos

* Improve docstring

* Use validated timesteps

* Improve error

* Improve warning

* Improve type hint

* Improve CHANGELOG.md: typos, wording and duplicate entries

* Improve CI (#357)

Separate example testing from other tests by marking them. By default, purest doesn't run the example tests

* Feature/v3/data converter (#356)

* Update DataConverter

* Update tests of error messages

* Update tests of error messages

* Update Dataconverter to allow bool values

* fix tests

* Improve code order of prefix in transform_data()

* Move pytest-xdist to dev deps

* Fix transform_data to not pass a prefix to flow

* Move to unreleased

Add emojis to CHANGELOG.md

* Feature/v3/feature/308 rename effect domains (#365)

* Rename effect domains

* Rename effect domains

* Ensure backwards compatability

* Improve

* Improve

* Bugfix IO with deprectaed params

* Add guards for extra kwargs

* Add guards for extra kwargs

* centralize logic for deprectaed params

* Move handlign from centralized back to classes in a dedicated method

* Improce property handling

* Move handling to Interface class

* Getting lost

* Revert "Getting lost"

This reverts commit 3c0db76.

* Revert "Move handling to Interface class"

This reverts commit 09bdeec.

* Revert "Improce property handling"

This reverts commit 5fe2c64.

* Revert "Move handlign from centralized back to classes in a dedicated method"

This reverts commit 9f4c1f6.

* Revert "centralize logic for deprectaed params"

This reverts commit 4a82574.

* Add "" to warnings

* Revert change in examples

* Improve BackwardsCompatibleDataset

* Add unit tests for backwards compatability

* Remove backwards compatible dataset

* Renamed maximum_temporal_per_hour to maximum_per_hour and minimum_temporal_per_hour to minimum_per_hour

* Add entires to CHANGELOG.md

* Remove backwards compatible dataset

* Remove unused imports

* Move to unreleased

* Catch up on missed renamings from merge

* Catch up on missed renamings from merge

* Typo

* Typo

* Several small improvements or potential future bug preventions

* Feature/v3/feature/305 rename specific share to other effects  to specific share from effect (#366)

* Step 1

* Bugfix

* Make fit_effects_to_model_coords() more flexible

* Fix dims

* Update conftest.py

* Typos

* Improve Effect examples

* Add extra validation for Effect Shares

* Feature/v3/feature/367 rename year dimension to period (#370)

* The framework now uses "period" instead of "year" as the dimension name and "periodic" instead of "nontemporal" for the effect domain

* Update CHANGELOG.md

* Remove periods_of_last_period parameter and adjust weights calculation

* Bugfix

* Bugfix

* Switch from "as_time_series": bool to "dims": [time, period, scenario] arguments

* Improve normalization of weights

* Update tests

* Typos in docs

* Improve docstrings

* Improve docstrings

* Update CHANGELOG.md

* Improved tests: added extra time+scenarios combination

* Add rename and improve CHANGELOG.md

* Made CHANGELOG.md more concise

* Simplify array summation and improve `np.isclose` usage in `modeling` and `aggregation` modules.

* Make storage and load profile methods flexible by introducing `timesteps_length` parameter; update test configurations accordingly.

* Refine error messages in `ModelingPrimitives` to correctly reference updated method names.

* Enhance test fixtures by adding `ids` for parameterized tests, improve input flexibility with dynamic timestep length, and refine error message sorting logic.

* Refactor variable selection and constraint logic in `aggregation.py` for handling more than only a time dimension

* Adjust constraint in `aggregation.py` to enforce stricter summation limit (1 instead of 1.1)

* Reverse transition constraint inequality for consistency in `modeling.py`.

* Update dependency to use h5netcdf instead of netcdf4

* Feature/v3/several improvements (#372)

* Update deprecated properties to use new aggregation attributes in `core.py`.

* Refactor `drop_constant_arrays` in `core.py` to improve clarity, add type hints, and enhance logging for dropped variables.

* Bugfix example_calculation_types.py and two_stage_optimization.py

* Use time selection more explicitly

* Refactor plausibility checks in `components.py` to handle string-based `initial_charge_state` more robustly and simplify capacity bounds retrieval using `InvestParameters`.

* Refactor `create_transmission_equation` in `components.py` to handle `relative_losses` gracefully when unset and simplify the constraint definition.

* Update pytest `addopts` formatting in `pyproject.toml` to work with both unix and windows

* Refine null value handling when resolving dataarrays` to check for 'time' dimension before dropping all-null values.

* Refactor flow system restoration to improve exception handling and ensure logger state resets.

* Refactor imports in `elements.py` to remove unused `ModelingPrimitives` from `features` and include it from `modeling` instead.

* Refactor `count_consecutive_states` in `modeling.py` to enhance documentation, improve edge case handling, and simplify array processing.

* Refactor `drop_constant_arrays` to handle NaN cases with `skipna` and sort dropped variables for better logging; streamline logger state restoration in `results.py`.

* Temp

* Improve NAN handling in count_consecutive_states()

* Refactor plausibility checks in `components.py` to prevent initial capacity from constraining investment decisions and improve error messaging.

* Feature/v3/feature/no warnings in tests (#373)

* Refactor examples to not use deprectaed patterns

* Refactor tests to replace deprecated `sink`/`source` properties with `inputs`/`outputs` in component definitions.

* Use 'h' instead of deprectaed 'H' in coordinate freq in tests; adjust `xr.concat` in `results.py` to use `join='outer'` for safer merging.

* Refactor plot tests to use non-interactive backends, save plots as files, and close figures to prevent memory leaks.

* Refactor plot tests to use non-interactive Plotly renderer (`json`), add cleanup with `tearDown`, and ensure compatibility with non-interactive Matplotlib backends.

* Configure pytest filters to treat most warnings as errors, ignore specific third-party warnings, and display all warnings from internal code.

* Revert "Configure pytest filters to treat most warnings as errors, ignore specific third-party warnings, and display all warnings from internal code."

This reverts commit 0928b26.

* Refactor plotting logic to prevent memory leaks, improve backend handling, and add test fixtures for cleanup and non-interactive configurations.

* Update pytest filterwarnings to treat most warnings as errors, ignore specific third-party warnings, and display all internal warnings.

* Suppress specific third-party warnings in `__init__.py` to reduce noise for end users.

* Update pytest warning filters: treat internal warnings as errors, revert treating most third-party warnings as errors.

* Suppress additional third-party warnings in `__init__.py` to minimize runtime noise.

* Update pytest warning filters: suppress specific third-party warnings and add detailed context for `__init__.py` filters.

* Sync and consolidate third-party warning filters in `__init__.py` and `pyproject.toml` to suppress runtime noise effectively.

* Expand and clarify third-party warning filters in `__init__.py` and `pyproject.toml` for improved runtime consistency and reduced noise.

* Update deprecated code in tests

* Refactor backend checks in `plotting.py` and streamline test fixtures for consistency in handling non-interactive backends.

* Refactor plotting logic to handle test environments explicitly, remove unused Plotly configuration, and improve figure cleanup in tests.

* Add entry to CHANGELOG.md

* Typos in example

* Reogranize Docs (#377)

* Improve effects parameter naming in InvestParameters (#389)

* FIrst Try

* Improve deprecation

* Update usage of deprectated parameters

* Improve None handling

* Add extra kwargs handling

* Improve deprecation

* Use custom method for kwargs

* Add deprecation method

* Apply deprecation method to other classes

* Apply to effects.py as well

* Update usage of deprectaed parameters

* Update CHANGELOG.md

* Update Docs

* Feature/v3/feature/test examples dependent (#390)

* Update example test to run dependent examples in order

* Update example test to run dependent examples in order

* Update CHANGELOG.md

* Improve test directory handling

* Improve test directory handling

* Typo

* Feature/v3/feature/rename investparameter optional to mandatory (#392)

* Change .optional to .mandatory

* Change .optional to .mandatory

* Remove not needed properties

* Improve deprectation warnings

* Improve deprectation of "optional"

* Remove all usages of old "optional" parameter in code

* Typo

* Imrpove readability

* Adjust some logging levels

* Add scenarios and periods to repr and str of FlowSystem

* Feature/v3/feature/386 use better default logging colors and dont log to file by default (#394)

* Fix `charge_state` Constraint in `Storage` leading to incorrect losses in discharge and therefore incorrect charge states and discharge values (#347)

* Fix equation in Storage

* Fix test for equation in Storage

* Update CHANGELOG.md

* Improve Changelog Message

* Fix CHANGELOG.md

* Simplify changes from next release

* Update CHANGELOG.md

* Fix CHANGELOG.md

* chore(deps): update dependency mkdocs-material to v9.6.20 (#369)

Co-authored-by: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com>

* Improve renovate.json to automerge ruff despite 0.x version

* chore(deps): update dependency tsam to v2.3.9 (#379)

Co-authored-by: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com>

* chore(deps): update dependency ruff to v0.13.2 (#378)

Co-authored-by: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com>

* Feature/Improve Configuration options and handling (#385)

* Refactor configuration management: remove dataclass-based schema and simplify CONFIG structure.

* Refactor configuration loading: switch from `os` to `pathlib`, streamline YAML loading logic.

* Refactor logging setup: split handler creation into dedicated functions, simplify configuration logic.

* Improve logging configurability and safety

- Add support for `RotatingFileHandler` to prevent large log files.
- Introduce `console` flag for optional console logging.
- Default to `NullHandler` when no handlers are configured for better library behavior.

* Temp

* Temp

* Temp

* Temp

* Temp

* Temp

* Refactor configuration and logging: remove unused `merge_configs` function, streamline logging setup, and encapsulate `_setup_logging` as an internal function.

* Remove unused `change_logging_level` import and export.

* Add tests for config.py

* Expand `config.py` test coverage: add tests for custom config loading, logging setup, dict roundtrip, and attribute modification.

* Expand `test_config.py` coverage: add modeling config persistence test, refine logging reset, and improve partial config load assertions.

* Expand `test_config.py` coverage: add teardown for state cleanup and reset modeling config in setup.

* Add `CONFIG.reset()` method and expand test coverage to verify default restoration

* Refactor `CONFIG` to centralize defaults in `_DEFAULTS` and ensure `reset()` aligns with them; add test to verify consistency.

* Refactor `_DEFAULTS` to use `MappingProxyType` for immutability, restructure config hierarchy, and simplify `reset()` implementation for maintainability; update tests accordingly.

* Mark `TestConfigModule` tests to run in a single worker with `@pytest.mark.xdist_group` to prevent global config interference.

* Add default log file

* Update CHANGELOG.md

* Readd change_logging_level() for backwards compatability

* Add more options to config.py

* Add a docstring to config.y

* Add a docstring to config.y

* rename parameter message_format

* Improve color config

* Improve color config

* Update CHANGELOG.md

* Improve color handling

* Improve color handling

* Remove console Logging explicityl from examples

* Make log to console the default

* Make log to console the default

* Add individual level parameters for console and file

* Add extra Handler section

* Use dedicated levels for both handlers

* Switch back to not use Handlers

* Revert "Switch back to not use Handlers"

This reverts commit 05bbccb.

* Revert "Use dedicated levels for both handlers"

This reverts commit ed0542b.

* Revert "Add extra Handler section"

This reverts commit a133cc8.

* Revert "Add individual level parameters for console and file"

This reverts commit 19f81c9.

* Fix CHANGELOG.md

* Update CHANGELOG.md

* Fix CHANGELOG.md

* Allow blank issues

* Change default logging behaviour to other colors and no file logging

* Use white for INFO

* Use terminal default for INFO

* Explicitly use stdout for StreamHandler

* Use terminal default for Logging color

* Add option for loggger name

* Update CHANGELOG.md

* Ensure custom formats are being applied

* Catch empty config files

* Update test to match new defaults

---------

Co-authored-by: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com>

* Fix warnings filter

* Remove config file (#391)

* Remove config file

* Remove yaml in MANIFEST.in

* Improve config console logger: Allow stderr and improve multiline format (#395)

* Add some validation to config.py

* Improve file Permission handling in config.py

* Remove unwanted return

* Improve Docstrings in config.py

* Improve Docstrings in config.py

* Typo

* Use code block in docstring

* Allow stderr for console logging

* Make docstrings more compact

* Make docstrings more compact

* Updated to actually use stderr

* Simplify format()

* Improve format

* Add extra validation

* Update CHANGELOG.md

* Feature/v3/feature/381 feature equalize sizes and or flow rates between scenarios (#396)

* First try

* Centralize in FlowSystem

* Add centralized handling

* Logical Bug

* Add to IO

* Add test

* Add some error handling and logging

* Rename variable

* Change parameter naming

* Remove not needed method

* Refactor to reduce duplication

* Change defaults

* Change defaults

* Change defaults

* Update docs

* Update docs

* Update docs

* Update docs

* Feature/v3/feature/Linked investments over multiple periods

* Reorganize InvestmentParameters to always create the binary investment variable

* Add new variable that indicates wether investment was taken, independent of period and allow linked periods

* Improve Handling of linked periods

* Improve Handling of linked periods

* Add examples

* Typos

* Fix: reference invested only after it exists

* Improve readbility of equation

* Update from Merge

* Improve InvestmentModel

* Improve readability

* Improve readability and reorder methods

* Improve logging

* Improve InvestmentModel

* Rename to "invested"

* Update CHANGELOG.md

* Bugfix

* Improve docstring

* Improve InvestmentModel to be more inline with the previous Version

* Improve Exceptions and add a meaningfull comment in InvestParameters

* Typo

* Feature/v3/feature/common resources in examples (#401)

* Typo

* Typos in scenario_example.py

* Improve data files in examples

* Improve data files in examples

* Handle local install more gracefully with __version__

* Remove bad example

* Increase timeout in examples

* Improve test_examples.py

* Improve example

* Fixx Error message in test

* Fix: Dependecy issue with python 3.10

* run ci on more branches if there are prs

* Minor improvements and Update to the CHANGELOG.md

* Feature/v3/feature/last minute improvements (#403)

* Typos oin CHANGELOG.md

* Add error handling in exmaple

* Surface warnings during tests (avoid hiding deprecations)

* Add missing docs file

* Imrpve Releasnotes of v2.2.0

* Improve docs

* Remove some filterwarnings from tsam

---------

Co-authored-by: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com>
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