 Boris Kaminsky
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ecf119434e
Implemented revised model of the reaction between two surface molecules. Reaction probability is now calculated dynamically based on the number of tile neighbors that are connected by common edge or vertex. The reaction products are selected randomly to replace the reactants (if needed) and products are placed on randomly selected tiles.
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15 年之前 |
 Jed Wing
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51b775891b
Bugfix for memory allocation failure recovery.
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15 年之前 |
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Jed Wing
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02701baf1f
Added a Python module which can parse an MCell 3.1 checkpoint file. The module
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15 年之前 |
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Jed Wing
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57d467ae93
Fixes for several more memory allocation failure crashes.
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15 年之前 |
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Jed Wing
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91f01fdf15
Fix for bugs resulting from empty (i.e. length 0) hash tables, which can occur
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15 年之前 |
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Jed Wing
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513144e9f4
Changed debugging mode of the malloc fault injector to display gdb invocation
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15 年之前 |
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Jed Wing
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7af0a908ac
Fixed line-wrapping on member comment.
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15 年之前 |
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Jed Wing
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0e1df77908
Fix for a bug related to volume output when restoring from checkpoints.
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15 年之前 |
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Jed Wing
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9aa2dd12af
Fixing a few "failed malloc" checks.
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15 年之前 |
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Jed Wing
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0276cd2867
Regression test for mol-grid-grid crash.
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15 年之前 |
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Jed Wing
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b2f3d4f1ef
Added test case for the first bug found by the static analysis.
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15 年之前 |
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Jed Wing
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6410b3c972
Merged over test accidentally added in the wrong tree.
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15 年之前 |
 Jed Wing
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4c9f7b751d
Added test for omitted output timing definition in reaction data output.
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15 年之前 |
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Jed Wing
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b6263c6537
A few more minor cleanups and assertions from static analysis.
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15 年之前 |
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Jed Wing
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271be05a5d
Cleanup of init_effectors_by_number function suggested by static analysis.
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15 年之前 |
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Jed Wing
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8bf8ba16db
Fix for potential crash during volume molecule release. Code was added which
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15 年之前 |
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Jed Wing
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f9bdd2bffa
Static analysis indicates that if the void_list_sort* functions were called on
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15 年之前 |
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Jed Wing
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da20f0cd74
Fix for a 64-bit message-formatting issue. Added a cast for a length (.*)
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15 年之前 |
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Jed Wing
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38cff59e41
Fix for a potential crash located via static analysis.
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15 年之前 |
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Jed Wing
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2f65f3ca45
Fixing a segfault in the trimolecular code. The wrong variable was used to
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15 年之前 |
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Jed Wing
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7deaa74daf
Fixed compilation warning on 64-bit architecture.
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15 年之前 |
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Jed Wing
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8cc54ff2e3
Updated this test so that it doesn't fail now that REACTION_DATA_OUTPUT
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15 年之前 |
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Jed Wing
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3813e286f3
Some minor bugfixes or cleanups suggested by the Clang static analyzer.
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15 年之前 |
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Jed Wing
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25f5dbe8c4
Removing dead store caught by LLVM static analysis.
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15 年之前 |
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Jed Wing
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a1d16cf604
Made REACTION_DATA_OUTPUT require an output timing specification.
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15 年之前 |
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Jed Wing
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f613907a1f
Fixed bug in MCell parser which brings the behavior in line with the old MCell
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15 年之前 |
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Boris Kaminsky
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6501339743
Merged with trunk
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15 年之前 |
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Boris Kaminsky
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219d2844ab
Merged with trunk
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15 年之前 |
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Jed Wing
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1ef568e7f7
Oriented surface molecules are now properly counted, even if the simulation has
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15 年之前 |
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Jed Wing
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fe69a75518
Added test for recent counting error which Boris reported.
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15 年之前 |
