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1768 Commits (e5d4d3dc3d07780095cabda26b8777bd429637c6)

Author SHA1 Message Date
Dave Parker d528208cc7 Small GUI fixes: resets of warning counters.
14 years ago
Dave Parker 6b55d95ebe Strip comments (commencing #) from reactions files.
14 years ago
Dave Parker 90b49c3e64 Strip comments (commencing #) from reactions files.
14 years ago
Dave Parker 8ff31815ca Reactions-to-PRISM checks parameter values for valid doubles.
14 years ago
Dave Parker 5b9bc87bec Reactions-to-PRISM checks parameter values for valid doubles.
14 years ago
Dave Parker f412d3115e Graph chooser dialog defaults to last graph created for "existing graph".
14 years ago
Dave Parker e1e6267210 Move path plot thread to GUI to allow display of warnings/errors.
14 years ago
Dave Parker 502b6f1281 Support for reversible reactions in reactions-to-PRISM converter.
14 years ago
Dave Parker 06d0fe3c25 First version of reactions-to-PRISM converter.
14 years ago
Dave Parker 9684963804 Utility method: join/implode method for strings.
14 years ago
Dave Parker 2752fbb6d0 Re-factor SBML-to-PRISM translator.
14 years ago
Dave Parker 94dbe03ecb Re-factor SBML-to-PRISM translator.
14 years ago
Dave Parker f369c6599a Re-factor SBML-to-PRISM translator.
14 years ago
Dave Parker cdac320532 Fix in parser: make keyword list be created statically.
14 years ago
Dave Parker e6fa6b49f0 Re-factor SBML-to-PRISM translator.
14 years ago
Dave Parker 6d502769be GUI simulation path plot and can show vars and/or rewards.
14 years ago
Dave Parker a28c14715c Simulation path generation handles empty vars=().
14 years ago
Dave Parker 9dc7609982 Changed/all-steps option in Path Plot Display dialog now respected.
14 years ago
Dave Parker 6d9806ad16 PathToText respects new "change" option + bugfixes.
14 years ago
Dave Parker d1e4de5fb3 Make "rewards" option of simpath consistent with others.
14 years ago
Dave Parker 2a2bdf6220 Fixes in PathDisplayer classes.
14 years ago
Dave Parker 41ad029281 Default to "changes" in "plot path details" dialog.
14 years ago
Dave Parker 2b85d7307d Tidy/fix double click detection in GUI simulator.
14 years ago
Dave Parker af37dc9864 Tidy/fix double click detection in GUI simulator.
14 years ago
Dave Parker d0bf75014f Improved "Path Plot Details" dialog.
14 years ago
Dave Parker cadd9da282 GUI simulation path plotting handles non-integer variables.
14 years ago
Dave Parker f19c4238d3 Type conversion bug.
14 years ago
Dave Parker 5d37e99d57 Type tidying in castValueTo methods.
14 years ago
Dave Parker 1bd8b1c658 Remove un-needed code.
14 years ago
Dave Parker d960bf8020 Better handling of errors in simulator calls from GUI.
14 years ago
Dave Parker 992c0864dc New/improved simulation path plotting functionality.
14 years ago
Dave Parker 09f8b2b8d9 Utility array copy methods.
14 years ago
Dave Parker afd0696115 More (B)SCC computation for explicit engine.
14 years ago
Dave Parker 616ae77ff7 Explicit SCC computation returns BitSets.
14 years ago
Dave Parker 906052cb5b SCC computation using Tarjan for explicit engine (from Christian von Essen).
14 years ago
Dave Parker bdd579d85d New option in GUI simulator to plot path on a graph (all vars over time).
14 years ago
Dave Parker 681350864f Double click to zoom out in GUI graphs.
14 years ago
Dave Parker cf907acc07 GUI constant picker for graphs defaults to property constants first.
14 years ago
Dave Parker cf4798f961 Fix: undefined constants should be taken in the order they appear in the properties file (like they used to). And a small API tweak.
14 years ago
Dave Parker 94454a38c2 Errors/warning from sbml2prism go to stderr, not stdout where model goes.
14 years ago
Dave Parker 99d2139f55 Add getSuccessorsIterator to explicit Model interface.
14 years ago
Dave Parker e05cab0dab Static methods to create model checkers by type.
14 years ago
Dave Parker d60fcad479 Comment typo.
14 years ago
Dave Parker ad132e9f00 Explicit model exploration disallows empty (all zero) distributions. For now.
14 years ago
Dave Parker 9411d5f100 Typo in CHANGELOG.
14 years ago
Dave Parker b796a1045c Undo accidental part of last commit.
14 years ago
Dave Parker 614554325e Bug fix in output of path generated from simulation: last 2 times were duplicated.
14 years ago
Dave Parker b855754ae9 Set delay for intermittent num sol updates to 5 secs.
14 years ago
Dave Parker a955042131 Add intermittent progress updates to numerical solution (mtbdd engine).
14 years ago
Dave Parker 8c0f4f024d Fix for last commit.
14 years ago