 Adam Husar
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7848dee479
Added examples to fwd_rate
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3 年之前 |
|
Adam Husar
|
e35bae5d3b
Added option config.use_bn_units
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3 年之前 |
|
Adam Husar
|
a8e250d5ce
Support for examples in documentation, added links to example files to
|
3 年之前 |
|
Adam Husar
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4a18687a54
Finalized documentation in sybsystem.yaml, the first pass of adding API
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3 年之前 |
|
Adam Husar
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28544edbc7
Improved doc in subsystem.yaml, not finished yet
|
3 年之前 |
|
Adam Husar
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878b225c0c
Added support for setting variable rate for BNGL reactions and also for
|
3 年之前 |
|
Adam Husar
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c71ad493ed
API documentation improvements
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3 年之前 |
|
Adam Husar
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e70edb861b
Fixed conversion of complexes from BNG to API and back for complexes
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3 年之前 |
|
Adam Husar
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032fdadd02
Initial support for compartments for elementary molecules in API
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3 年之前 |
|
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 |
|
Adam Husar
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1b289bcadb
Initial support for intermembrane surf-surf reactions
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3 年之前 |
|
Adam Husar
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e262948d5e
Preparation for intermembrane surf-surf reactions
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3 年之前 |
|
Adam Husar
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22172f9565
Renamed API ComponentInstance to Component, ElementaryMoleculeInstance
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4 年之前 |
|
Adam Husar
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d5b2895f94
Changed rxn rate update - using ReactionRule setters instead of a method
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4 年之前 |
|
Adam Husar
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ab723c1035
Fixed __eq__ operator for molecule and component types and instances
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4 年之前 |
|
Adam Husar
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735e65f686
Added method to_bngl_str to ElementaryMoleculeType and ComponentType
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4 年之前 |
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Adam Husar
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2d5679e6c6
Added __eq__ to all API classes and makde Complex use canonical form for
|
4 年之前 |
|
Adam Husar
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79bb63a4c2
Added ReactionRule.to_bngl_str()
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4 年之前 |
|
Adam Husar
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61340ac276
Support for flux clamp in MCell4 and in converters
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4 年之前 |
|
Adam Husar
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4a122cdc8b
Conversion of clamp concentration from mcell4 API
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4 年之前 |
|
Adam Husar
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4c5e82f2a3
Initial API support and generation for concentration clamps
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4 年之前 |
|
Adam Husar
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d838be6b4d
Unified SurfaceProperty to use complex instead of species
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4 年之前 |
|
Adam Husar
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eb5fc8339d
Finished support for compartments in rxns for python/bngl generation
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4 年之前 |
|
Adam Husar
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306a69419a
Rename API::ComplexInstance to API::Complex
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4 年之前 |
|
Adam Husar
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5a2c87b3c1
Introduced default orientation for complexes, compartment improvements
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4 年之前 |
|
Adam Husar
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6e0a9d1d4e
Added API class VolumeCompartment and conversion from BNG
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4 年之前 |
|
Adam Husar
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b44f5b9985
Rework of compartments handling
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4 年之前 |
|
Adam Husar
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3bd6bfca63
Descibed usages of the API::Species class, fixed semantic checks and
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4 年之前 |
|
Adam Husar
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1054952833
Renamed ComplexInstance.bngl_string to name and updated gen.py to
|
4 年之前 |
|
Adam Husar
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429a3c97b4
Added ComplexInstance.as_species and fixed VizOutput.species_list
|
4 年之前 |
