hallmodel-py
Python interface to the Hall adult- and child- body-weight dynamics models, backed by the C++ kernel in hallmodel-core (vendored here as a git submodule).
The kernel is the same math the R package INSP-RH/bw
compiles. Compiled in matched toolchains with -ffp-contract=off, the
outputs are byte-for-byte reproducible against the upstream parity contract;
under the contract's published tolerance (rtol=1e-9, atol=1e-12), all 18
contract cases pass.
This is the first reference consumer of hallmodel-core — it is also the
worked example for "here is how you write a new language binding against the
core."
Install
git clone --recurse-submodules <repo-url> hallmodel-py
cd hallmodel-py
python3 -m venv .venv && source .venv/bin/activate
pip install -e .
Build needs a C++17 compiler and pybind11 (declared in pyproject.toml).
If you cloned without --recurse-submodules:
git submodule update --init --recursive
Use
import bw_cpp
# Adult model — single individual, baseline EI from Mifflin-St Jeor
res = bw_cpp.adult_weight(bw=76, ht=1.73, age=36, sex="male")
print(res["Body_Weight"].shape) # (1, 366)
# Adult with a 500-kcal deficit over 365 days
import numpy as np
res = bw_cpp.adult_weight(
bw=90, ht=1.80, age=40, sex="male",
EIchange=np.full((1, 365), -500.0),
)
# Child model — auto FFM/FM/EI defaults from age + sex
res = bw_cpp.child_weight(age=6, sex="male", days=365)
# Energy interpolation
out = bw_cpp.EnergyBuilder().build(
energy=np.array([[2000, 2200, 1800]]),
time=np.array([0, 5, 10]),
method="Linear",
)
See the docstrings in bw_cpp/__init__.py for the full
API, and the upstream R wrappers
for the semantics of each parameter — they are the same.
Parity proof
./proof/verify.sh builds the binding against the pinned hallmodel-core
submodule, drives all 18 contract cases through bw_cpp, and asserts the
contract's tolerance via contract/compare.py. Exit 0 = parity holds.
./proof/verify.sh
The committed proof/last_run.log and
proof/outputs/ are the frozen evidence of the most
recent green run. CI re-runs them on every PR. The pinned submodule sha is
the version contract: bumping it triggers a re-verify.
The one excluded field is BMI_Category — the contract's generate.R
coerces character matrices through as.numeric(), producing a column of
literal "NA" strings in every adult golden. See
hallmodel-core/proof/verify.sh
for the full explanation.
How this maps to upstream
| upstream R | here |
|---|---|
INSP-RH/bw::adult_weight() |
bw_cpp.adult_weight() |
INSP-RH/bw::child_weight() |
bw_cpp.child_weight() |
INSP-RH/bw::child_reference_EI() |
bw_cpp.child_reference_EI() |
INSP-RH/bw::child_reference_FFMandFM() |
bw_cpp.child_reference_FFMandFM() |
INSP-RH/bw::EnergyBuilder() |
bw_cpp.EnergyBuilder().build() |
Argument names, semantics, and defaults all match INSP-RH/bw's R wrappers
because this Python shim was deliberately written as a direct port of those
wrappers. The contract gate enforces it.
License
MIT, carried forward from INSP-RH/bw.
Citing
Cite the original bw package and Hall et al.'s underlying papers. See the
README of INSP-RH/bw and
hallmodel-core/docs/ATTRIBUTION.md.
1 maintainer
Metadata
1 maintainer
Release files for hallmodel 2026.10.21.15
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