 Adam Husar
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fcf1427724
Changed license from GPL to MIT, removed some empty/unused files
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3 年之前 |
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Adam Husar
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b878a858e0
Removed Count(bool) ctor, uninfied usage of default ctors
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3 年之前 |
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Adam Husar
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af9b27b795
Replaced all uses of float_t with double
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3 年之前 |
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Adam Husar
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23adc99547
Moved convert_cplx* and convert_elementary_molecule_type as static
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3 年之前 |
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Adam Husar
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6bfa479d0c
Parsing BNGL name directly in Complex ctor independently on subsystem
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3 年之前 |
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Adam Husar
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bd2928f2b4
Exporting molecules into simulation_state.py
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3 年之前 |
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Adam Husar
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fc7965d553
Fixed handling of flags inherited from species to el. molecule types
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3 年之前 |
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Adam Husar
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eb328e72cf
Added BaseExportClass to define export interface and polished subsystem
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3 年之前 |
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Adam Husar
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e126dd0187
Unified BNG naming with API by renaming MolType to ElemMolType,
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4 年之前 |
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Adam Husar
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22172f9565
Renamed API ComponentInstance to Component, ElementaryMoleculeInstance
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4 年之前 |
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Adam Husar
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dcae0e4fee
Intermediate commit towards comparison while adding rxn rules
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4 年之前 |
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Adam Husar
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c6aebc455c
Initial support for export of molecule types to BNGL
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4 年之前 |
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Adam Husar
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f0ca701939
Initial support for @IN and @OUT compartment classes, not validated,
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4 年之前 |
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Adam Husar
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306a69419a
Rename API::ComplexInstance to API::Complex
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4 年之前 |
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Adam Husar
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5a2c87b3c1
Introduced default orientation for complexes, compartment improvements
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4 年之前 |
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Adam Husar
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9d794f4c6c
Renamed BNG::CplxInstance to Cplx and removed all related uses of 'inst'
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4 年之前 |
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Adam Husar
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97094b975e
Reorganization and fixes of reaction name handling
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4 年之前 |
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Adam Husar
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80d97af7f7
Fixed creation of complex instances when bngl rxn is converted
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4 年之前 |
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Adam Husar
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3ba532fae3
Fixed initialization of ComplxInstance when BNGL string is used
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4 年之前 |
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Adam Husar
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81a6225a7a
BNGL surf rxn products have their resulting orientation set to 'up'
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4 年之前 |
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Adam Husar
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9892faaa52
Added support for releases of surface molecules read from BNGL seed
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4 年之前 |
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Adam Husar
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a681f40172
Added support for overriding BNG parameters from MCell4 model
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4 年之前 |
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Adam Husar
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283eb43991
Changed all occurences of 'filename' in API to 'file_name'
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4 年之前 |
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Adam Husar
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6f6f5199a3
Added API method Model.load_bngl
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4 年之前 |
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Adam Husar
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a0f90abeeb
Added method Observables::load_bngl_observables - not tested yet,
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4 年之前 |
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Adam Husar
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9e3db6dca2
Initial implementation of constant rate multiplier computation
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4 年之前 |
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Adam Husar
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a6312a4fe1
Added support for !? component bond specification
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4 年之前 |
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Adam Husar
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afb615bc19
Renamed bond pattern constants, added BOND_ANY that is not supported yet
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4 年之前 |
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Adam Husar
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d1d4e772e8
Added conversion of components to mcell4 converter
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4 年之前 |
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Adam Husar
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1d4288bff1
Silenced compiler warning
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4 年之前 |
