 Adam Husar
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d3eb588875
Support for generation of description fields from DM into python&bngl
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3 年之前 |
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Adam Husar
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3d0b420bb4
Added computation of compartment area and volume when converting data
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3 年之前 |
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Adam Husar
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73fed511a3
Support for handling of use_bng_units in data model
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3 年之前 |
|
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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f9ab653f7f
Workaround for possible macos clang compiler issue
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3 年之前 |
|
Adam Husar
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2b7c83270c
Removed support for product "Null" that is not supported by BNG2.pl
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3 年之前 |
|
Adam Husar
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48e8a91060
Added support for division in MDLString counts,improved checks of counts
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3 年之前 |
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Adam Husar
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6c01d9ae7e
Passing shared.parameter_overrides to BNGL load functions
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3 年之前 |
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Adam Husar
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ebff8f662b
Initial support for functions in data model parameters, these functions
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3 年之前 |
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Adam Husar
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5b056b55f4
Support for conversion of release sites into BNGL's seed species
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3 年之前 |
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Adam Husar
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ef9d049b7d
Fixed Cplx::matches_complex_fully_ignore_orientation - checking that
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3 年之前 |
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Adam Husar
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d8263b6a85
Initial step towards rework of observables with compartments, test that
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3 年之前 |
|
Adam Husar
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7f6b553a40
Skipping definition of BNGL MCELL_REDEFINE parameters in parameters.py
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3 年之前 |
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Adam Husar
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aa26811328
Added check for duplicate names of generated objects, few related fixes
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3 年之前 |
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Adam Husar
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75deee8b0b
Several fixes in customization module name and using MODEL_PATH when
|
3 年之前 |
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Adam Husar
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b970a27f18
Generating hooks for generated model customization and a customization
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4 年之前 |
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Adam Husar
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73e06d7e06
Generation of observables into BNGL
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4 年之前 |
|
Adam Husar
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480d57f823
Created file bngl_names.h with BNGL keywords
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4 年之前 |
|
Adam Husar
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f259c6acd1
Not generating spaces in BNG molecule types
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4 年之前 |
|
Adam Husar
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1e98ed451a
Fixed conversions of params startin with '_' and also fixes in
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4 年之前 |
|
Adam Husar
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5b212b5eae
Fixed generation of compartment info when only surface compartments are
|
4 年之前 |
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Adam Husar
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533c9c962b
Generating rxns with @IN and @OUT into BNGL
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4 年之前 |
|
Adam Husar
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657f4e423d
Overriding release region in python generation if compartment for
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4 年之前 |
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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 |
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Adam Husar
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d753978564
Base code for compartment generation from DM into BNGL and Python
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4 年之前 |
|
Adam Husar
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97094b975e
Reorganization and fixes of reaction name handling
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4 年之前 |
|
Adam Husar
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5e59a15e9e
Fixed generation of python+bngl case when there are no species
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4 年之前 |
|
Adam Husar
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58a337a505
Improved parse_rxn_rule_side to handle BNGL syntax
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4 年之前 |
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Adam Husar
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91f32b334e
Fixed generation of ComplexInstance with simple species containing dot
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4 年之前 |
|
Adam Husar
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5725fd0bf8
Cehcking that simple species must not contain '.' in their name, fixed
|
4 年之前 |
