 Adam Husar
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c008bdacc1
Simplified Complex::to_bngl_str_w_custom_orientation
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3 年之前 |
|
Adam Husar
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8ee2221e52
Removed commented-out code.
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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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cd8ee15f20
Improved assert message
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3 年之前 |
|
Adam Husar
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2b9d6074fa
Fixed handling of complexes with multiple compartments in semantic
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3 年之前 |
|
Adam Husar
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3cc844ca3b
Fixed assertion in RxnContainer::remove_bimol_rxn_classes, all tests now
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3 年之前 |
|
Adam Husar
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16c6475d1a
Fixed handling of intramembrane rxns
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3 年之前 |
|
Adam Husar
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ea372e41a5
Fixed assertion in BNG parser after a semantic error, removed
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3 年之前 |
|
Adam Husar
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29853c5258
Fixed RxnContainer::remove_bimol_rxn_classes
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3 年之前 |
|
Adam Husar
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4a8befbcf6
Fixed handling of compartments in Cplx::matches_fully
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3 年之前 |
|
Adam Husar
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96e22e045c
Fixed debug check in reactant maps by ignoring the current molecule in
|
3 年之前 |
|
Adam Husar
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687818e7e9
Fixed debug check in SpeciesContainer::remove
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3 年之前 |
|
Adam Husar
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068de1970b
Fixed compartment check in Species, allowing compartments now
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3 年之前 |
|
Adam Husar
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b20998846c
Fixed matching for simple species with @IN/@OUT compartments
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3 年之前 |
|
Adam Husar
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7af732cc8a
Ignoring default_compartment in BNGL with a warning instead of error
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3 年之前 |
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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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ca1caf5ea5
Removed COMPARTMENT_ID_ANY, several fixes for @IN/@OUT compartments,
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3 年之前 |
|
Adam Husar
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bb07030d4d
Prepared SpeciesContainer::get_species_id_with_compartment, broken now
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3 年之前 |
|
Adam Husar
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3b7fcf8341
Prepared Partition::add_volume_molecule for compartment handling
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3 年之前 |
|
Adam Husar
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7ac455c806
Removed Molecule::reactant_compartment_id
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3 年之前 |
|
Adam Husar
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0c26bc8054
Removed support for compartments from RxnContainer
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3 年之前 |
|
Adam Husar
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394e617ea9
Removed debug check for compartments
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3 年之前 |
|
Adam Husar
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752ca1af00
Fixed compartment debug check
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3 年之前 |
|
Adam Husar
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df4093bf47
Defiend a reserved comparmtnet name 'default_compartment', not exported
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3 年之前 |
|
Adam Husar
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74bb56582e
Removed previous compartments support, MDL tests pass but
|
3 年之前 |
|
Adam Husar
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34778a0b43
Moved compartment ids from complexes to elementary molecules, tests with
|
3 年之前 |
|
Adam Husar
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de4d3d03ce
Reordered molecule initialization in add_volume/surface_molecule as a
|
3 年之前 |
|
Adam Husar
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5f56f5a035
Removed flag SPECIES_FLAG_NEEDS_COUNTED_VOLUME and all related code
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3 年之前 |
|
Adam Husar
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b5304e5ff1
Removed Species::needs_compartment
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3 年之前 |
|
Adam Husar
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cc4215d609
Allowing surface comparments to have the same name as object's surface
|
3 年之前 |
