Issues

• PEtab v2 simulator: support parameter scales (ExpData.pscale) in ExperimentManager

  enhancementPEtabpython
  AMICI-dev/AMICI#3311 · Filter by author FFroehlich opened on Oct 7, 2026

• JAX backend: the second crossing of a root resets the entire state vector to its initial values

  eventsJAX
  Bug

  AMICI-dev/AMICI#3308 · Filter by author dweindl opened on Sep 30, 2026

• A NaN event priority is indistinguishable from "no priority"

  wontfix
  Bug

  AMICI-dev/AMICI#3307 · Filter by author dweindl opened on Sep 30, 2026
  1

• JAX code printer generates invalid code for And/Or

  JAX
  Bug

  AMICI-dev/AMICI#3306 · Filter by author dweindl opened on Sep 30, 2026

• petab.v1 mapping-table removal (PEtab-dev/libpetab-python#524) will break v1 condition-table import

  AMICI-dev/AMICI#3305 · Filter by author dweindl opened on Sep 30, 2026

• _parse_special_functions' function table doesn't match what BioNetGen actually emits

  Bug

  AMICI-dev/AMICI#3304 · Filter by author dweindl opened on Sep 30, 2026
  1

• PEtab SciML: clean up hybridization parsing, dead v1 code, and the petab_sciml pin

  AMICI-dev/AMICI#3303 · Filter by author dweindl opened on Sep 30, 2026

• Reconcile sundials and JAX symbolic event processing

  refactoring
  AMICI-dev/AMICI#3301 · Filter by author dweindl opened on Sep 30, 2026

• Consider collecting unreleased changelog entries as individual files

  AMICI-dev/AMICI#3300 · Filter by author dweindl opened on Sep 29, 2026

• amici.adapters.fiddy helpers leave the caller's solver and model mutated

  Bug

  AMICI-dev/AMICI#3299 · Filter by author dweindl opened on Sep 29, 2026

• Wrong sensitivities for piecewise conditions on variables that only change via event assignments

  Bug

  AMICI-dev/AMICI#3298 · Filter by author dweindl opened on Sep 29, 2026
  1

• Failed preequilibration leaves llh, y, res, sy, sllh, FIM at 0.0 instead of NaN

  AMICI-dev/AMICI#3297 · Filter by author dweindl opened on Sep 29, 2026

• PySB observation-model import overloads MeasurementChannel.sigma as both a formula and a component-name reference

  PySBrefactoring
  AMICI-dev/AMICI#3294 · Filter by author dweindl opened on Sep 24, 2026
  

• MeasurementChannel.formula/.sigma should always be sympy expressions after __init__

  python
  AMICI-dev/AMICI#3293 · Filter by author dweindl opened on Sep 24, 2026
  

• Formula-string grammar is inconsistent and partly undefined (MeasurementChannel, PEtab v1, splines, evaluate())

  AMICI-dev/AMICI#3281 · Filter by author dweindl opened on Sep 23, 2026
  2

  

• Adjoint sensitivities lose accuracy when a per-datapoint backward reinit lands close to an unrelated discontinuity

  c++events
  AMICI-dev/AMICI#3274 · Filter by author dweindl opened on Sep 22, 2026

• IDASolver never clears force_reinit_postprocess_F_ after an event, causing redundant post-reinit probing for the rest of the simulation

  c++DAEevents
  AMICI-dev/AMICI#3267 · Filter by author dweindl opened on Sep 10, 2026
  1

• Remove ASA sensitivity warning

  events
  AMICI-dev/AMICI#3265 · Filter by author dweindl opened on Sep 10, 2026
  

• doc: Add fiddy example

  documentation
  AMICI-dev/AMICI#3264 · Filter by author dweindl opened on Sep 10, 2026

• Clean up SBML test suite code

  cirefactoring
  AMICI-dev/AMICI#3262 · Filter by author dweindl opened on Sep 10, 2026
  

• Improve sensitivity checks in test suite

  ci
  AMICI-dev/AMICI#3251 · Filter by author dweindl opened on Sep 6, 2026
  

• Forward sensitivities for AlgebraicRule models violate the rule's own constraint

  bug
  Bug

  AMICI-dev/AMICI#3250 · Filter by author dweindl opened on Sep 6, 2026

• Update plot_observable_trajectories

  enhancement
  AMICI-dev/AMICI#3157 · Filter by author dweindl opened on Mar 10, 2026

• Sympy cannot solve for t in PEtab v2 event expressions

  new
  AMICI-dev/AMICI#3126 · Filter by author BSnelling opened on Feb 13, 2026
  1

  

• Include model entity IDs in ExpData / ReturnData

  enhancement
  AMICI-dev/AMICI#3107 · Filter by author dweindl opened on Dec 12, 2025