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@luciansmith luciansmith released this 15 Apr 06:57
· 316 commits to release since this release
v2.4.0
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Learn about vigilant mode.

BEHAVIOR CHANGE: This version of roadrunner now treats the 'absolute tolerance' setting for CVODE simulation differently! We now treat the absolute tolerance the same way that COPASI does.

  • If set to a scalar value (the default), that value is now transformed into a vector internally by multiplying the scalar by every value in the state vector. This allows automatic scaling between concentrations and amounts: a small compartment will no longer require an equally-small absolute tolerance value to be set.
    • However, if the value in the state vector is zero, the corresponding value in the absolute tolerance vector is either used as-is, or, if the value is from a species in a non-zero compartment, multiplied by that compartment volume.

The documentation was updated to reflect this, and a few other inaccuracies in the documentation were also fixed.

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