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Optional BNGsim integration: in-process simulation + multi-format input #102

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Optional BNGsim integration: in-process simulation + multi-format input #102

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ef4b928
Add optional BNGsim integration bridge
wshlavacek May 26, 2026
2bf86aa
Add optional bngsim extra; bump version floor to 0.9.10
wshlavacek May 26, 2026
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3 changes: 3 additions & 0 deletions bionetgen/__init__.py
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Original file line number Diff line number Diff line change
@@ -1,4 +1,5 @@
from .core.defaults import defaults
from .core.tools.bngsim_bridge import BNGSIM_AVAILABLE, BNGSIM_VERSION
from .modelapi import bngmodel
from .modelapi.runner import run
from .simulator import sim_getter
Expand All @@ -8,6 +9,8 @@

__all__ = [
"defaults",
"BNGSIM_AVAILABLE",
"BNGSIM_VERSION",
"bngmodel",
"run",
"sim_getter",
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13 changes: 13 additions & 0 deletions bionetgen/core/tools/__init__.py
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Expand Up @@ -7,3 +7,16 @@
from .cli import BNGCLI
from .visualize import BNGVisualize
from .gdiff import BNGGdiff
from .bngsim_bridge import (
BNGSIM_AVAILABLE,
BNGSIM_HAS_NFSIM,
BNGSIM_VERSION,
detect_input_format,
run_bngl_with_bngsim,
run_bngl_with_bngsim_backend_hook,
run_nfsim,
run_with_bngsim,
)
from .bngsim_backend_helper import (
execute_backend_payload as execute_bngsim_backend_payload,
)
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