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Change History | COPASI 4.30 (Build 240)

COPASI 4.30 (Build 240)

Version 4.30.240

Release Date: February 24, 20201

New Features since COPASI 4.29 (Build 228)

  • Graphical User Interface (CopasiUI)
    • Added intensive reaction flux to the steady-state results relevant for small compartments.
  • Simulation Engine
    • Added Just In Time compilation of all user defined mathematical expression to assembler code significantly improving COPASI's performance.
  • Language Bindings
    • It is now possible to capture data generated from tasks directly without using a temporary file.

Bug Fixes since COPASI 4.29 (Build 228)

  • Graphical User Interface (CopasiUI)
    • Loading a model parameter set with a name already in the model is no longer silently ignored. Instead a new unique name is generated.
    • Fixed dragging an dropping of report items which may cause a crash in certain situations.
    • Improved layout of parameter estimation result widgets to better display Eigenvalues of the Fisher Information Matrix.
    • Fixed problem where the deletion of a just created parameter set could cause a crash.
    • Fixed update of local reaction parameters in the parameter overview, which was not correctly refreshed.
    • Fixed problem updating the separator when editing a report definition.
    • Improved display of Elementary Flux Mode results where some table rows were not correctly adjusted.
    • Improved object selection for Time Course Sensitivity task to include only and all relevant objects.
    • Fixed loading of XHTML comments including entities like π (π).
    • Updated MIRIAM resources to correctly handle identifiers using https://.
  • Simulation Engine
    • Temporary Files for user with special characters in the name is now correctly handled.
    • Fixed issue with Hybrid LSODA integration method which was not correctly initialized on its initial use.
    • Fixed an issue where it was not possible to read extremely old COPASI files using user defined functions with recent versions.
    • Fixed file permissions for COPASI files which in some situation under Linux did not respect umask settings.
    • Fixed report output of Elementary Flux Mode task.
    • Fixed tracking of wall clock and CPU time in the Sensitivities Task.
  • Standards
    • SED-ML export of plots may have used non-unique IDs for a variable if that variable occurred in multiple curves.
    • SBML import no longer crashes if an event without a name and an id is encountered.
    • SBML unit import and export preserve the user specified volume unit instead of converting to liter.
    • SBML improved import of reactions with undefined stoichiometry which could crash COPASI.
  • Language Bindings
    • Fixed problem where bindings terminated if the environment variable HOME was not set.
    • Language bindings no longer crash when calling getStringValue from a non existing variable.
    • It is now possible to create parameters of type Common Name (CN) in language bindings.