Muscle implicit dynamics

[aceglia]

No handle the fatigue and the activation dynamics.

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This change is 

[pariterre]

Reviewed 7 of 7 files at r1, all commit messages.
Reviewable status: all files reviewed, 2 unresolved discussions (waiting on @aceglia)

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bioptim/examples/acados/pendulum.py line 116 at r1 (raw file):

    # --- Show results --- #
    sol.print_cost()

Is there a reason to showcase only print_cost?

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bioptim/interfaces/solver_options.py line 569 at r1 (raw file):

            self.set_has_tolerance_changed(True)

        def set_convergence_tolerance(self, val):

val: Union[float, int, list, tuple]
Please add documentation for this method

[aceglia]

Reviewable status: 6 of 7 files reviewed, 2 unresolved discussions (waiting on @pariterre)

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bioptim/examples/acados/pendulum.py line 116 at r1 (raw file):

Previously, pariterre (Pariterre) wrote…

Is there a reason to showcase only print_cost?

there was a sol.print() before, to make the example work I simply replaced it with a sol.print_cost(). No deeper reason.

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bioptim/interfaces/solver_options.py line 569 at r1 (raw file):

Previously, pariterre (Pariterre) wrote…

val: Union[float, int, list, tuple]
Please add documentation for this method

Done.

[codecov]

Codecov Report

Merging #459 (617361f) into master (6aff2c1) will decrease coverage by 0.33%.
The diff coverage is 62.10%.

@@            Coverage Diff             @@
##           master     #459      +/-   ##
==========================================
- Coverage   80.56%   80.23%   -0.34%     
==========================================
  Files          85       85              
  Lines        9080     9257     +177     
==========================================
+ Hits         7315     7427     +112     
- Misses       1765     1830      +65     

Impacted Files	Coverage Δ
bioptim/examples/acados/pendulum.py	84.21% <0.00%> (+2.15%)	⬆️
bioptim/examples/acados/static_arm.py	42.85% <0.00%> (ø)
bioptim/examples/fatigue/pendulum_with_fatigue.py	82.60% <0.00%> (ø)
...ioptim/examples/fatigue/static_arm_with_fatigue.py	67.85% <0.00%> (ø)
...amples/getting_started/custom_phase_transitions.py	92.75% <0.00%> (ø)
...mples/getting_started/example_implicit_dynamics.py	44.92% <0.00%> (ø)
...s/getting_started/example_multinode_constraints.py	90.16% <0.00%> (ø)
.../examples/getting_started/example_save_and_load.py	64.10% <0.00%> (ø)
.../examples/moving_horizon_estimation/cyclic_nmpc.py	63.88% <0.00%> (ø)
...les/moving_horizon_estimation/multi_cyclic_nmpc.py	66.66% <0.00%> (ø)
... and 13 more

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[Ipuch]

@aceglia les tests passent en ligne :)

[aceglia]

@pariterre tests ok!

[pariterre]

Reviewed 1 of 1 files at r2, 5 of 5 files at r4, 1 of 1 files at r5, all commit messages.
Reviewable status: complete! all files reviewed, all discussions resolved (waiting on @aceglia)