nuSQuIDS 1.13.3

Neutrino propagation library with pybind11 bindings for reference see

nuSQuIDS

nuSQuIDS is a neutrino oscillation library that solves the neutrino evolution equations in a variety of environments (vacuum, constant density, Earth, Sun, etc.) and supports non-standard interactions.

Try it Online

No installation required! Run an interactive Jupyter notebook example:

Installation (Python)

From PyPI (Recommended)

The easiest way to install nuSQuIDS is from PyPI:

pip install nusquids

This installs pre-built wheels with all dependencies bundled - no need to install GSL, HDF5, or SQuIDS separately.

Supported platforms:

• Linux (x86_64, aarch64) - Python 3.9+
• macOS (arm64) - Python 3.10+

From Source

To build from source (e.g., for development or unsupported platforms):

pip install .

Prerequisites for source builds: GSL, HDF5, and SQuIDS must be installed on your system (see Prerequisites section below).

After installation:

import nuSQuIDS as nsq
print("nuSQuIDS imported successfully!")

Prerequisites

The following system libraries are required:

• GSL (>= 1.15): http://www.gnu.org/software/gsl/
• HDF5 with C bindings: http://www.hdfgroup.org/HDF5/
• SQuIDS (> 1.2): https://github.com/jsalvado/SQuIDS/

For Python bindings, you also need:

• numpy: http://www.numpy.org/

Optional (recommended for interactive use):

• matplotlib: http://matplotlib.org/
• ipython: http://ipython.org/

Documentation

The LaTeX and PDF user manual is included in the doc/ folder. To generate documentation from source: make docs

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Installation from Source (C++ Library)

The following instructions are for building the C++ library from source. If you only need the Python interface, pip install . is sufficient.

Configuration

The path for the GSL libraries can be specified by running:

./configure --with-gsl-incdir=GSL_include_path --with-gsl-libdir=GSL_library_path

or, assuming a standard installation into 'include' and 'lib' subdirectories within a common prefix:

./configure --with-gsl=GSL_prefix

The path for the HDF5 libraries can be specified by running:

./configure --with-hdf5-incdir=HDF5_include_path --with-hdf5-libdir=HDF5_library_path

or more simply:

./configure --with-hdf5=HDF5_prefix

Finally, the path for SQuIDS can be specified by:

./configure --with-squids-incdir=SQuIDS_include_path --with-squids-libdir=SQuIDS_library_path

or commonly just:

./configure --with-squids=SQuIDS_prefix

Building

Once configuration is complete, compile the library:

make

Run unit tests to verify correct behavior:

make test

Compile example programs:

make examples

The resulting example executables can be found in the various subdirectories of examples/.

Examples

The examples/ directory contains both C++ and Python versions of example programs:

Directory	Description
Single_energy/	Single energy mode oscillations
Multiple_energy/	Multiple energy mode with power-law spectrum
Bodies/	Various body types (Earth, EarthAtm, Vacuum, etc.)
Constant_density_layers/	Multi-layer propagation
Atm_default/	Atmospheric neutrino propagation (nuSQUIDSAtm)
HDF5_Write_Read/	State serialization to HDF5
Astrophysical_neutrino_flavor_ratio/	Astrophysical flavor ratio calculation
NSI/	Non-standard interactions (C++ only)
LV/	Lorentz violation (C++ only)
Xsections/	Custom cross-sections (C++ only)

Run C++ examples after building:

./examples/Single_energy/single_energy

Run Python examples:

python examples/Single_energy/main.py

Benchmarks

nuSQuIDS includes a benchmark suite to measure performance:

make benchmark       # Full benchmark (more iterations)
make benchmark-quick # Quick benchmark

The benchmark tests single energy, multiple energy, and atmospheric modes with various physics configurations (with/without interactions, Glashow resonance, tau regeneration).

Installing

Install the library (default location: /usr/local):

make install

To change the installation prefix:

./configure --prefix=$HOME

This installs:

• Headers to $PREFIX/include/nuSQuIDS/
• Libraries to $PREFIX/lib/
• The nusquids-config script to $PREFIX/bin/
• Physics data to $PREFIX/share/nuSQuIDS/

Using nusquids-config

After installation, use nusquids-config to get compiler and linker flags for your own programs:

# Get compiler flags
nusquids-config --cflags

# Get linker flags
nusquids-config --libs

# Compile your own program
g++ $(nusquids-config --cflags) -c myprogram.cpp
g++ myprogram.o $(nusquids-config --libs) -o myprogram

# Or in one step
g++ $(nusquids-config --cflags) myprogram.cpp $(nusquids-config --libs) -o myprogram

Available options: --prefix, --incdir, --libdir, --cflags, --libs, --version

Python Bindings (Manual Build)

To build Python bindings manually (instead of using pip install .), pass the --with-python-bindings option to configure:

./configure --with-python-bindings

By default this uses pybind11. To use Boost.Python instead:

./configure --with-boost-python-bindings

Additional options:

# Specify pybind11 headers location
./configure --with-pybind-incdir=location_of_pybind11

# Specify Boost location (for Boost.Python)
./configure --with-boost=boost_prefix

# Specify Python executable
./configure --python-bin=PYTHON_EXECUTABLE

# Specify python-config for compilation flags
./configure --python-config=PYTHON_CONFIG_EXECUTABLE

# Specify installation directory for Python module
./configure --python-module-dir=PYTHON_MODULE_INSTALLATION

Build and install the Python bindings:

make python
make python-install

Alternatively, add the bindings to your PYTHONPATH:

export PYTHONPATH=$(PATH_TO_nuSQUIDS)/resources/python/bindings/:$PYTHONPATH

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Citation

If you use nuSQuIDS in your research, please cite our paper:

@article{Arguelles:2021twb,
    author = {Arg{\"u}elles, Carlos A. and Salvado, Jordi and Weaver, Christopher N.},
    title = "{nuSQuIDS: A toolbox for neutrino propagation}",
    eprint = "2112.13804",
    archivePrefix = "arXiv",
    primaryClass = "hep-ph",
    doi = "10.1016/j.cpc.2022.108346",
    journal = "Comput. Phys. Commun.",
    volume = "277",
    pages = "108346",
    year = "2022"
}

nuSQuIDS is built on top of the SQuIDS library. If appropriate, please also consider citing the SQuIDS papers:

@article{Arguelles:2020hss,
    author = {Arg{\"u}elles, Carlos A. and Salvado, Jordi and Weaver, Christopher N.},
    title = "{A Simple Quantum Integro-Differential Solver (SQuIDS)}",
    doi = "10.1016/j.cpc.2020.107405",
    journal = "Comput. Phys. Commun.",
    volume = "255",
    pages = "107405",
    year = "2020"
}

@article{Delgado:2014lyt,
    author = "Arguelles, Carlos and Salvado, Jordi and Weaver, Christopher N.",
    title = "{A Simple Quantum Integro-Differential Solver (SQuIDS)}",
    eprint = "1412.3832",
    archivePrefix = "arXiv",
    primaryClass = "hep-ph",
    doi = "10.1016/j.cpc.2015.06.022",
    journal = "Comput. Phys. Commun.",
    volume = "196",
    pages = "569--591",
    year = "2015"
}