 Jose Juan Tapia
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f1f78b5a60
adding functions to calculate space and time step from graph derived diffusion
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8 年之前 |
|
Jose Juan Tapia
|
a5753dfdb5
adding the initialize_diffusion_function directive to all places where an abstract_molecule is craeted in mcell
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8 年之前 |
|
Jose Juan Tapia
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8c871d2d99
changing diffusion referencs
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8 年之前 |
|
Jose Juan Tapia
|
5ae69e5ef7
adding missing const quals, return value in lhash
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8 年之前 |
|
Jose Juan Tapia
|
0dc9a06895
removing debugging print statements
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8 年之前 |
|
Jose Juan Tapia
|
a8b610abc7
adding fallback in case diffusion is not found
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8 年之前 |
|
Jose Juan Tapia
|
4711159f8a
adding property querying, prototypes for graph hashmap
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8 年之前 |
|
Jose Juan Tapia
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19b996a58a
separating particle graph information to its own structure
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8 年之前 |
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Jose Juan Tapia
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9414f5c73f
switching to new version of the libNfSim API
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8 年之前 |
|
Jose Juan Tapia
|
eca5b2d20d
end of implementation about how compartment transport vector mapping
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8 年之前 |
|
Jose Juan Tapia
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b321f6092d
adding proper alignment handling based
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8 年之前 |
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Jose Juan Tapia
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64e6548b40
adding compartment-geometry mapping information
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8 年之前 |
|
Jose Juan Tapia
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1003725b34
bugfix: making initialization condition for graph_pattern_hash more strict
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8 年之前 |
|
Jose Juan Tapia
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da8164a446
modified to subvolume hash species list to use the graph label for its key
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8 年之前 |
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Jose Juan Tapia
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8c96580357
optimizing how hashmap is handled
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8 年之前 |
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Jose Juan Tapia
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8a6286be72
adding hashmap libraries
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8 年之前 |
|
Jose Juan Tapia
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90c068b5d4
correcting error in interface header
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8 年之前 |
|
Jose Juan Tapia
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5953862cf6
adding nfsim_c interface header
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8 年之前 |
|
Jose Juan Tapia
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cb7beb57bc
setting nfsim output file to be "counts_%seed.gdat"
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8 年之前 |
|
Jose Juan Tapia
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bad58f5dd5
bugfix: corrected so that it ignores reactant order in bimolecular reactions
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8 年之前 |
|
Jose Juan Tapia
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8226f9dd0e
bugfix in pb_factor calculation for bimolecular reactions
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8 年之前 |
|
Jose Juan Tapia
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afb5bed022
first implementation of vol-surf and surf-surf nfsim reactions
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8 年之前 |
|
Jose Juan Tapia
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2b97a7e25f
Fixed v-v reaction rate calculation. more memory leak fixing.
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8 年之前 |
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Jose Juan Tapia
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c36d2f8c55
adding missing file
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8 年之前 |
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Jose Juan Tapia
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0b6b2c2186
refactoring. adding adj_rate calculation. fixing memory leaks
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8 年之前 |
|
Jose Juan Tapia
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2007c9751c
removing some memory invalid writes
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8 年之前 |
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Jose Juan Tapia
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9f65497eda
Adding mcell_nfsim vol-vol bimolecular reactions
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8 年之前 |
|
Jose Juan Tapia
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4640a65e92
added a "-n" flag for mcell that passes the bng-xml model definition that nfsim will be using
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8 年之前 |
|
Jose Juan Tapia
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0088d01d8e
refactoring bimolecular reactions
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8 年之前 |
|
Jose Juan Tapia
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66cb9b91b7
removing nfsim observables for now till i add a flag switch
|
8 年之前 |
