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    "info": {
        "author": "Julien Lamy",
        "author_email": "lamy@unistra.fr",
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        "classifiers": [
            "Development Status :: 5 - Production/Stable",
            "Environment :: Console",
            "Intended Audience :: Education",
            "Intended Audience :: Healthcare Industry",
            "Intended Audience :: Science/Research",
            "License :: OSI Approved :: MIT License",
            "Programming Language :: Python :: 3",
            "Topic :: Scientific/Engineering :: Medical Science Apps.",
            "Topic :: Scientific/Engineering :: Physics"
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        "description": "# Sycomore — an MRI simulation toolkit\n\n[![PyPI - Wheel](https://img.shields.io/pypi/v/sycomore)](https://pypi.org/project/sycomore/)\n[![Conda Version](https://img.shields.io/conda/vn/conda-forge/sycomore.svg)](https://anaconda.org/conda-forge/sycomore)\n\nSycomore is an MRI simulation toolkit providing Bloch simulation, Extended Phase Graph (EPG) (both regular and discrete, including 3D), and Configuration Model. Sycomore is a Python packge in which all computationnaly-intensive operations are run by a C++ backend, providing a very fast runtime.\n\nSycomore is free software, released under the [MIT license][], and its source code is available on [GitHub][].\n\nA sample web application, using Sycomore paired with [Bokeh][] is available on [Heroku][]: it presents classical MRI experiments (RARE, RF-spoiling, slice profile with a selective sinc pulse), using the different simulation models of Sycomore.\n\n## Installation\n\nPackaged versions of Sycomore are available on [pypi][] and [Anaconda][] for Linux, macOS and Windows.\n\nTo install from [Anaconda][], type `conda install -c conda-forge sycomore`. To install from [pypi][], type `pip3 install sycomore` (or `pip install sycomore`). If you are installing from [pypi][] and no pre-compiled version is available for your platform, pip will try to install from the source archive.\n\nIf you need to install Sycomore from source, you will need a C++11 compiler, [CMake][], [xsimd][] and [pybind11][] to successfully build Sycomore. If you want to validate your build of Sycomore, you should run the unit tests, which require [Boost.Test][].\n\nAdditional details are provided in the [documentation][].\n\n## Usage\n\nThe following code simulates a single repetition of a simple [RARE sequence][] using [regular EPG][] and plots the transverse magnetization of each echo.\n\n```python\nimport matplotlib.pyplot\nimport numpy\nimport sycomore\nfrom sycomore.units import *\n\nspecies = sycomore.Species(1000*ms, 100*ms, 1*um**2/ms)\nTE = 4*ms\ntrain_length = 40\n\nmodel = sycomore.epg.Regular(species)\ndata = numpy.zeros(train_length, dtype=[(\"time\", sycomore.Quantity), (\"signal\", complex)])\n\nmodel.apply_pulse(90*deg)\nfor echo in range(train_length):\n    model.apply_time_interval(TE/2)\n    model.apply_pulse(180*deg)\n    model.apply_time_interval(TE/2)\n    \n    data[echo] = (((1+echo)*TE), model.echo)\n\ntimes = [x.convert_to(ms) for x in data[\"time\"]]\nmagnitude = numpy.abs(data[\"signal\"])\nmatplotlib.pyplot.plot(times, magnitude, \".\", label=\"Simulated\")\nmatplotlib.pyplot.plot(\n    times, [numpy.exp(-(x*species.R2).magnitude) for x in data[\"time\"]],\n    label=\"$T_2$ decay\")\n\nmatplotlib.pyplot.ylim(0,1)\nmatplotlib.pyplot.xlabel(\"Time (ms)\")\nmatplotlib.pyplot.ylabel(\"Magnitude\")\nmatplotlib.pyplot.legend()\nmatplotlib.pyplot.show()\n```\n\n![T2 decay in RARE](docs/rare.png \"T2 decay in RARE\")\n\nThe features and data structures are described in the documentation:\n\n- [Common features](https://sycomore.readthedocs.io/en/latest/common_features.html)\n- [Bloch simulation](https://sycomore.readthedocs.io/en/latest/bloch.html)\n- [Extended Phase Graph](https://sycomore.readthedocs.io/en/latest/epg/index.html)\n- [Configuration Model](https://sycomore.readthedocs.io/en/latest/como.html)\n\n[Anaconda]: https://anaconda.org/conda-forge/dicomifier\n[Bokeh]: https://bokeh.org\n[Boost.Test]: https://www.boost.org/doc/libs/release/libs/test/\n[CMake]: https://cmake.org/\n[documentation]: https://sycomore.readthedocs.io/en/latest/installation.html\n[GitHub]: https://github.com/lamyj/sycomore/\n[Heroku]: https://sycomore.herokuapp.com/\n[MIT license]: https://en.wikipedia.org/wiki/MIT_License\n[pybind11]: http://pybind11.readthedocs.io/\n[pypi]: https://pypi.org/project/sycomore/\n[RARE sequence]: https://doi.org/10.1002/mrm.1910030602\n[regular EPG]: https://sycomore.readthedocs.io/en/latest/epg/regular.html\n[xsimd]: https://xsimd.readthedocs.io/\n\n\n",
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