Fix PEtab observables for pysb models#1390
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Petablint previously failed if observableFormula or noiseFormula contained pysb observables or expressions
FFroehlich
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Jan 29, 2021
Codecov Report
@@ Coverage Diff @@
## develop #1390 +/- ##
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+ Coverage 78.65% 78.77% +0.11%
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Files 63 63
Lines 9920 9925 +5
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+ Hits 7803 7818 +15
+ Misses 2117 2107 -10
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dweindl
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Feb 20, 2021
….13) Breaking changes: * AMICI requires Python>=3.7 * Updated package installation (PEP517/518): Creating source distributions requires https://github.com/pypa/build (#1384) (but now handles all package building dependencies properly) Features: * More flexible state reinitialization (#1417) Updated dependencies: * Upgrade to sundials 5.7.0 (#1392) Fixes: * Python: account for heaviside functions in expressions (#1382) * Python: allow loading of existing models in import_petab_problem (#1383) * Python: Don't override user-provided compiler/linker flags (#1389) * Python: PEtab import reinitialization fixes (#1417) * Python: Fix PEtab observables for pysb models (#1390) * Python: Substitute expressions in event condition expressions (#1404) * Python: Unspecified initial states in PEtab conditions table default to SBML initial value (#1397) * C++: Fix timepoint out of bounds access (#1402) * C++: Fix exported CMake config (#1388) * Fixed Dockerfile: add python3-venv (#1398, #1408) Other: * Slim exported swig interface (#1425) * Updated documentation * Getting started tutorial (#1423) * List supported SBML test tags (#1428) * Add AMICI C++/Python/Matlab feature comparison (#1409) * ... * Various minor CI improvements * ...
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Petablint previously failed if observableFormula or noiseFormula contained pysb observables or expressions