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Augment Bayesian inference results with fitness metrics #102

Merged
merged 52 commits into from
Mar 30, 2024
Merged

Augment Bayesian inference results with fitness metrics #102

merged 52 commits into from
Mar 30, 2024

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ma-sadeghi
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@ma-sadeghi ma-sadeghi commented Mar 26, 2024 •
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Fixes #82
Fixes #103
Fixes #53

ma-sadeghi added 30 commits March 26, 2024 12:53
@ma-sadeghi
multiprocess bug was due to uv, no longer need to pin version
bcb63d4
@ma-sadeghi
Remove redundant columns from test circuits dataframe
01129ea
@ma-sadeghi
Add unit tests for loading test circuits
962ed59
@ma-sadeghi
Add eval_posterior_predictive helper function
57c8309
@ma-sadeghi
Add unit test for eval_posterior_predictive
f36a640
@ma-sadeghi
Properly override matplotlib color names
fdcc9d2
@ma-sadeghi
Minor refactor of unit tests, account for API change when performing …
80b8646 
…single inference
@ma-sadeghi
Cycle over linestyle as well as colors
d6dfea1
@ma-sadeghi
Escape special characters in warnings regex
8512989
@ma-sadeghi
Add missing docstrings in io module
466766e
@ma-sadeghi
Add missing docstrings to visualization module
4c30109
@ma-sadeghi
Add missing docstrings to parser module
00c138b
@ma-sadeghi
Fix docstrings
a7d614e
@ma-sadeghi
Fix pep8
d8d5774
@ma-sadeghi
Move logging setup to pkg init
b8e9ee5
@ma-sadeghi
Hide get_runtime under is_notebook
db3397c
@ma-sadeghi
Remove the unused find_identical_rows helper
e83aff7
@ma-sadeghi
Remove unused timeout machinery
0bdf99c
@ma-sadeghi
Add missing docstrings to utils module + small fixes
0a42f0f
@ma-sadeghi
Augment metrics to accept axis
9a1172f
@ma-sadeghi
Ignore inline lambda lint
bfed91b
@ma-sadeghi
Refactor metrics module to follow DRY
cac5cab
@ma-sadeghi
Add missing type hints
c6d5115
@ma-sadeghi
Add print_inference_results function to pretty print a summary of i…
6115213 
…nference results
@ma-sadeghi
Fix pep8 in legacy code
9d7982f
@ma-sadeghi
Minor refactor
c7ab3b8
@ma-sadeghi
Properly import Styler from pandas
e8203d0
@ma-sadeghi
Add jinja2>=3.1.2 to deps to make pandas happy (required by DataFrame…
ff773a2 
….style)
@ma-sadeghi
Use pipe operator instead of Union for type hints
e287983
@ma-sadeghi
Refactor circuit regression models, rename `circuit_regression_wrappe…
6d5acd5 
…d` to `circuit_regression_complex`
ma-sadeghi added 22 commits March 29, 2024 06:47
@ma-sadeghi
Update docstrings with new function name
00bf98b
@ma-sadeghi
Replace Union with pipe operator for type hints
f826114
@ma-sadeghi
Compute fitness metrics as part of full analysis
867fc97
@ma-sadeghi
Don't perform BI twice when there's only one circuit (nasty bug!)
0bc58f9
@ma-sadeghi
Add missing type hints to io module
475c2d3
@ma-sadeghi
Add unit tests for parse_ec_output
2fc8ee0
@ma-sadeghi
Use circuit_regression_complex throughout the pkg
fb88b39
@ma-sadeghi
Instantiate logger using logging module (get_logger deprecated)
27eeb4d
@ma-sadeghi
Update annotations
7dc2163
@ma-sadeghi
Properly deprecate the old circuit finder
7224ef3
@ma-sadeghi
Update GEP functions to use (freq, Z) signature instead of (Z, freq) …
c3e397f 
…to be consistent with the rest of the pkg
@ma-sadeghi
Fix docstrings
479ea79
@ma-sadeghi
Add deprecated to dependencies
6d4e317
@ma-sadeghi
Apply (freq, Z) signature throughout the pkg
a5ffcb6
@ma-sadeghi
Fix (freq, Z) signature in docs
79fd4c0
@ma-sadeghi
Update pkg to use new function signature for preprocess_impedance_data
25adfb3
@ma-sadeghi
Fix arg name
8bc8254
@ma-sadeghi
Update preprocess_impedance_data to return a Box, not a tuple
2a58820
@ma-sadeghi
Add python-box to dependencies
4468e58
@ma-sadeghi
Update unit tests based on recent return type change
f819171
@ma-sadeghi
Rerun example notebook based on recent changes
fee4409
@ma-sadeghi
Fix undefined variable
39acbd8
@ma-sadeghi ma-sadeghi merged commit 25a078c into main Mar 30, 2024
6 checks passed
@ma-sadeghi ma-sadeghi deleted the augment-bi-output branch March 30, 2024 06:08
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