7.3.0.02

Add Install4J uninstall previous VCell version during update

7.3.0.01

Include vcml file into OMEX archive for VCell-CLI

7.3.0.0

1. Multiple trajectories with statistical analysis for non-spatial stochastic simulations
2. Export/Import deterministic models into Open Modeling Exchange (.omex) Standard file format, which encodes both model and simulation specifications. Support for OMEX complements VCell’s ongoing commitment to support the SBML and SEDML standards.
3. Default behavior of reaction (RX connection) tool for multiple compartments simplifies units and optimizes compatibility with spatial geometries.
4. User alerts icon for scheduled maintenance and system messages.
5. Species that modulate a rate expression but are not created or consumed (e.g., catalysts) are automatically denoted in the reaction diagram with a dotted line to the yellow reaction icon.
6. Redesigned internally consistent BioModel and VCellDB info panels.
7. Numerous miscellaneous improvements and bug fixes.

Alpha_7.2.0.64

New Features, improvements and bug fixes

• Database tree improvements, properties panel improvements
• BioModel Info Panel looks and feels consistent with the Database Info Panel, redesigned both
• Refactoring catalyst behaviour and automatic drawing
• Added qualifiers support for annotations, annotations sorted, properties bugs fixing (hasPart)
• New default behaviour of reaction (RX connection) tool for multiple compartments

Bug fixes

• UI improvements: more helpful hints, warnings and error messages (in object properties and annotations panels)
• General bug fixing - null pointer exceptions, eliminated obsolete features (BIOPAX obj for annotations).
• Redocking the reaction diagram to last known window manager.
• Exporting events fixes (missing attributes), event panel UI
• Focus management fixes (lost focus), Assignment Rule fixes (duplicates)
• SBML fixes for older model (numeric meta ID), units support (kind) and Copasi compatibility
• SED-ML maintenance (Kisao terms added, solver description initialized properly at import)

sbml

Detection and warning when a brick has more than one version.

Each brick must have exactly one version.

pre-beta release following initial math testing framework run

pre-release (to beta site) of vcell. Following a complete pass at math testing framework. corrected expression binding for fast systems.