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PEtab v2 import via amici#1634

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dweindl:amici_petab_v2
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PEtab v2 import via amici#1634
dweindl wants to merge 5 commits into
ICB-DCM:developfrom
dweindl:amici_petab_v2

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@dweindl

@dweindl dweindl commented Oct 29, 2025

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Support for PEtab v2 problems via amici.

WIP

@dweindl dweindl self-assigned this Oct 29, 2025
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codecov-commenter commented Oct 29, 2025

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⚠️ Please install the 'codecov app svg image' to ensure uploads and comments are reliably processed by Codecov.

Codecov Report

❌ Patch coverage is 26.06383% with 139 lines in your changes missing coverage. Please review.
✅ Project coverage is 82.06%. Comparing base (c1a20d2) to head (5b88d1f).
⚠️ Report is 9 commits behind head on develop.

Files with missing lines Patch % Lines
pypesto/petab/objective_creator.py 21.62% 58 Missing ⚠️
pypesto/objective/amici/amici_calculator.py 7.89% 35 Missing ⚠️
pypesto/petab/importer.py 39.53% 26 Missing ⚠️
pypesto/objective/amici/amici.py 26.92% 19 Missing ⚠️
pypesto/petab/util.py 85.71% 1 Missing ⚠️
❗ Your organization needs to install the Codecov GitHub app to enable full functionality.
Additional details and impacted files
@@             Coverage Diff             @@
##           develop    #1634      +/-   ##
===========================================
- Coverage    83.84%   82.06%   -1.79%     
===========================================
  Files          164      164              
  Lines        14346    14524     +178     
===========================================
- Hits         12029    11919     -110     
- Misses        2317     2605     +288     

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@dweindl dweindl added the enhancement New feature or request label Oct 29, 2025
@dweindl dweindl force-pushed the amici_petab_v2 branch 5 times, most recently from e02ee18 to fb8ee2c Compare November 5, 2025 11:51
@dweindl dweindl force-pushed the amici_petab_v2 branch 2 times, most recently from 848567d to 0d8d0d0 Compare March 4, 2026 15:26
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AMICI enhancement New feature or request PEtab

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