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Optimal Control extension #247
Commits on Jul 28, 2022
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Commits on Aug 5, 2022
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- docstrings according to Sphinx docstring format
- updated test cases according to changed default parameters - applied automated code formatting to all changed files and test-files
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Commits on Aug 9, 2022
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Merge branch 'documentation' into OCdev
# Conflicts: # neurolib/optimal_control/cost_functions.py # neurolib/optimal_control/oc_fhn/oc_fhn.py # neurolib/optimal_control/oc_fhn/oc_fhn_jit.py # neurolib/optimal_control/tests/test_fhn_noisy.py
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Commits on Aug 10, 2022
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Commits on Aug 16, 2022
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- fix dimensions and slices according to network-compatible dimension…
…alities (i.e. NxVxT)
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- added some description for noisy network example and made the setti…
…ng fully equivalent to deterministic model example (prec_mat & control_mat)
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Commits on Aug 18, 2022
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Commits on Aug 19, 2022
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- removed unused matplotlib import in test_fhn.py
- Cmat entries set to interval [0,1] in test_fhn.py and deterministic example
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Commits on Aug 22, 2022
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Commits on Aug 24, 2022
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- inherit from OC-baseclass for OC of fhn, passes all tests for fhn-OC - updated docstrings - use "isinstance(x, type(None))" for None-checks
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- skeleton for OC for Hopf model
- Jacobian for Hopf model - code formatting
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Commits on Aug 26, 2022
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- optimal control for Hopf model with quick visual evaluation of the …
…performance in the example files
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Commits on Sep 2, 2022
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- fix overwriting attributes of the neurolib-model that is passed to …
…OC -> 'self.model' is deepcopy of the passed 'model' - restructured: jit-functions into the file of derived OC class definition - updated comments & documentation - identified "compute_gradient" as model dependent in its current implementation - Dxdot is currently unused for Hopf & FHN - single test case for Hopf, rely on tests for FHN for shared methods for the moment - updated dt in example to avoid numerical inaccuracies
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Commits on Sep 13, 2022
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- add check for passed model in model specific OC
- place plotting functions of examples in oc-utility-folder - provide a single example (using the FHN), since completely analogous for Hopf
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Commits on Oct 15, 2022
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- improved performance of cost functions and derivatives (derivative_…
…precision_cost x7, precision_cost x2 with better readability), all tests passed
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- remove explicit passing of parameter "N" to precision_cost function
- update of docstrings
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- added function 'update_control_with_limit' to limit the absolute va…
…lue of the control strength at all points in time. Passes tests. - added new attribute 'maximum_control_strength' to the 'OC' class to set the absolute maximum value for the control strength - test cases for the new function 'update_control_with_limit'
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- fix: added missing 'maximum_control_strength' as parameter in the d…
…erived oc-classes
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Commits on Oct 21, 2022
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- fix: added scaling by time step of precision- and energy cost, adde…
…d parameter in function calls - adjusted corresponding test cases
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Commits on Oct 25, 2022
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- interval in which precision cost is now positional argument to avoi…
…d repeated checks of specification and allow notation with "negative indices" in Oc-object initialization - added 'convert_interval' to allow for the different ways of interval specification - updated function calls accordingly - changed test structure: separate tests for the interval-specification
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Commits on Oct 26, 2022
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- added: apply maximal-absolute-control-strength constraint even befo…
…re first optimization - added: new test cases; passes all tests - minor fixes
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Commits on Oct 28, 2022
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- additional assertions for interval specification
- checks for repeated calls of ".optimize()" - new test cases - removed unused variable and old comments
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Commits on Nov 3, 2022
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- adjusted to naming 'Duh' for Jacobian
- jit the compute_gradient-functions - added documentation & docstrings
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Commits on Dec 3, 2022
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- adaptive step size computation:
* adaptive step-size reduction or -increment, reduces relevance of hyperparameter for initial step size * memorize last step, heavily increases efficiency in many cases - added very generic test case for step-size computation based on derived OcWc-class - "convert_interval" not further numba-compiled - improved documentation, added type-description in model specific OC classes - added todo-hints for automated control-adjustments - set default of "precision_cost_interval" in OcWc to same values as for the the other models
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Commits on Dec 7, 2022
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- add counter=0 in case of zero gradient
- remove distinction (not-)noisy step within the noise-free step size computation, that is not required at this point - add test case for zero-step
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- combine the step-size combination for the noisy and the noise free …
…setting in the adaptive step-size algorithm
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Commits on Dec 8, 2022
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- shared "factor_down" for noisy and deterministic case
- "factor_down**2" in loop for finding numerically stable regime for faster exit of loop - call the new step-size function for noisy case and delete unused method -> passes all tests in test-oc and test-fhn-noisy - adjust parameters in test case to range [0,1] in Cmat
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Commits on Dec 16, 2022
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Commits on Dec 19, 2022
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- revision of docstrings for clean documentation build
- fix typos and add comments - rename variables and functions for clarity
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Revert "removed file accidentially imported from other branch"
This reverts commit 0543c8a.
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Commits on Feb 3, 2023
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- variable naming for clarity - remove unused code and comments - use fixed seed in test-cases for reproducibility in all cases
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- move the calculation of Jacobian matrices to neurolib core modules …
…and adjust imports in the OC submodule
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Commits on Feb 22, 2023
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- restore documentation-updates:
+ improved docstrings and comments + better aligned to PEP + clear variable naming
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delete check zero in cmat/ run model once at initilaization/ revise e…
…xample notebooks/ fix bugs in step_size and delay
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Commits on Mar 15, 2023
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Merge branch 'proj_restructure_bugfixes' into OCdev
# Conflicts: # neurolib/control/optimal_control/oc.py # neurolib/control/optimal_control/oc_wc/oc_wc.py
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Commits on Mar 17, 2023
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Merge branch 'restore_improved_docs' into OCdev
# Conflicts: # neurolib/control/optimal_control/oc.py # neurolib/control/optimal_control/oc_hopf/oc_hopf.py # neurolib/models/wc/timeIntegration.py
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Merge remote-tracking branch 'origin/cost_functionals_as_dict' into O…
…Cdev # Conflicts: # examples/example-5-optimal-control/example-5.3-oc-wc-model-deterministic.ipynb
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Rename example-5.3-oc-wc-model-deterministic.ipynb to example-5.2-oc-…
…wc-model-deterministic.ipynb
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Rename example-5.5-oc-aln-model-deterministic.ipynb to example-5.4-oc…
…-aln-model-deterministic.ipynb
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Co-authored-by: Caglar Cakan <[email protected]>
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