Cardiac tutorial

[aranas]

this PR is a work in progress on the tutorial showcasing how autoemulate can be embedded into an end-to-end cardiac modelling pipeline including sensitivity analysis.

This tutorial still requires some improvements

• add explanations to every step
• add plot that showcases value of autoemulate in the context of sensitivity analysis more specifically

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[blackfmt] _{reported by reviewdog 🐶}

autoemulate/autoemulate/simulations/flow_functions.py

Line 136 in 0f1382d

fig, ax = plt.subplots(ncols=2, figsize = (10, 5))

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[blackfmt] _{reported by reviewdog 🐶}

autoemulate/autoemulate/simulations/flow_functions.py

Lines 138 to 149 in 0f1382d

	ax[0].plot(self.res.t, self.res.y[2*i,:] , 'r', alpha=0.1 + (1.-i/self.ncomp) *0.9)
	ax[1].plot(self.res.t, self.res.y[2*i+1,:] , 'r', alpha=0.1 + (1.-i/self.ncomp) *0.9)
	ax[0].set_title('Pressure')
	ax[1].set_title('Flow rate')
	ax[0].set_xlabel('Time (s)')
	ax[1].set_xlabel('Time (s)')
	ax[0].set_ylabel('mmHg')
	ax[1].set_ylabel('$ml\cdot s^{-1}$')
	return (fig, ax)

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Coverage report

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File	Statements	Missing	Coverage	Coverage (new stmts)	Lines missing
autoemulate/emulators
gaussian_process.py
autoemulate/simulations
flow_functions.py					1-162
Project Total

This report was generated by python-coverage-comment-action

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Codecov Report

Attention: Patch coverage is 0% with 85 lines in your changes missing coverage. Please review.

Project coverage is 92.07%. Comparing base (d3e9a76) to head (557b6df).
Report is 17 commits behind head on main.

Files with missing lines	Patch %	Lines
autoemulate/simulations/flow_functions.py	0.00%	85 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #233      +/-   ##
==========================================
- Coverage   94.28%   92.07%   -2.21%     
==========================================
  Files          62       63       +1     
  Lines        3587     3672      +85     
==========================================
- Hits         3382     3381       -1     
- Misses        205      291      +86     

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[aranas]

@MaxBalmus I managed to transfer our original commits into the autoemulate repo, I think it makes more sense to work here directly, so that Martin can chip in where appropriate.
for example, I have now transferred Max's custom flow functions into the simulations file, but I realized that the other files contain functions, not classes @mastoffel, is this something we should adapt for consistency?

[mastoffel]

@MaxBalmus I managed to transfer our original commits into the autoemulate repo, I think it makes more sense to work here directly, so that Martin can chip in where appropriate. for example, I have now transferred Max's custom flow functions into the simulations file, but I realized that the other files contain functions, not classes @mastoffel, is this something we should adapt for consistency?

@MaxBalmus @aranas: This is great! It would be best to make the simulation a function to be consistent with the other simulations eventually, but this isn't urgent. Let me know when I should have a look at it!

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[blackfmt] _{reported by reviewdog 🐶}

Suggested change

	problem["names"] if problem is not None else [f"x{i+1}" for i in range(len(next(iter(results.values()))["S1"]))]
	problem["names"]
	if problem is not None
	else [f"x{i+1}" for i in range(len(next(iter(results.values()))["S1"]))]

[marjanfamili]

This should resolve #279

[github-actions]

[blackfmt] _{reported by reviewdog 🐶}

Suggested change

	# Vs represents the total variance associated with the observations, predictions, and potential discrepancies.
	# Vs represents the total variance associated with the observations, predictions, and potential discrepancies.