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        "author": "Martin Craig",
        "author_email": "martin.craig@eng.ox.ac.uk",
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        "classifiers": [
            "Development Status :: 3 - Alpha",
            "Intended Audience :: Science/Research",
            "License :: Free for non-commercial use",
            "Programming Language :: Python :: 2.7",
            "Programming Language :: Python :: 3",
            "Topic :: Scientific/Engineering :: Bio-Informatics"
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        "description": "# Quantiphyse\n\nViewer and data processing for 3D/4D medical imaging data\n\n## Overview\n\nQuantiphyse provides tools for modelling and analysis of 3D/4D volumetric data, principally MRI data. \n\nCore features:\n- Loading/Saving 3D/4D NIFTI files\n- Analysis tools including single/multiple voxel analysis and data comparison\n- Generic processing including smoothing, resampling, clustering\n\nFeatures available via plugins\n- Registration, motion correction\n- Modelling tools for DCE, ASL, DSC and CEST MRI\n- Integration of selected FSL tools\n\nSee: [http://quantiphyse.readthedocs.org/en/latest/](http://quantiphyse.readthedocs.org/en/latest/) for full documentation.\n\n## License\n\nQuantiphyse is available free under an academic (non-commercial) license. See the `LICENSE` file for\nfull details, and contact [OUI](https://process.innovation.ox.ac.uk/software) if interested in \ncommercial licensing.\n\n## Installation\n\nSee https://quantiphyse.readthedocs.io/en/latest/basics/install.html for current installation\ninstructions\n\n### Running from source code (for developers)\n\nRunning from source is recommended only if your are interested in developing the software further.\n\n1. Install the dependencies:\n\nThe list of Python dependencies is in `requirements.txt`\n\nFor example:\n\n    pip install -r requirements.txt\n\n2. Build extensions\n\n`python setup.py build_ext --inplace`\n\n3. Run from source directory\n\n`python qp.py`\n\n### Packaging\n\nThe scripts packaging/build.py is used to build a frozen distribution package in the form of a compressed archive (`tar.gz` or `.zip`) \nand a platform-dependent package (`deb`, `msi` or `dpg`). It should run autonomously, however you may need to input the sudo password \non Linux in order to build a `deb` package. \n\nThe `--snapshot` option removes the version number from package filenames so you can provided them for download without having to change the link URLs.\n\nThe `--maxi` option builds a package which includes selected plugins, assuming these are downloaded\n\n## To Do list\n\n### Issue tracker\n\nCurrent issues can be viewed on the GitHub issue tracker (https://github.com/ibme-qubic/quantiphyse/issues)\n\n### Roadmap\n\n#### v0.6 (Released June 2018)\n\n - ASL tools first version (preprocess, model fit, calibration, multiphase)\n - Improved viewer (full resolution, aligned)\n\n#### v0.8 (Target Mar 2019)\n\n - Integration of selected FSL tools (FLIRT, FAST, BET, FSL_ANAT?)      DONE\n - Improved registration support (apply transform)                      DONE\n - Improved ASL tools based on oxasl (inc. ENABLE, VEASL, DEBLUR)       DONE\n - Fabber T1                                                            DONE\n - Fabber DCE                                                           DONE\n - DSC widget                                                           DONE\n - Improvements to ROI builder - working 'paint' tool                   DONE\n - Motion simulation                                                    DONE\n - Add noise                                                            DONE\n\n#### v1.0 (Target June 2019)\n\n - Stable interface for QpWidget, QpData, Process\n - Python 3                                                             DONE needs testing\n - Support PySide and PySide2 - ideally the latter by default           pyside2 branch needs testing\n - Improved manual data alignment tools                                 PART DONE\n - Otherwise no firm plans yet - selection from 'Vague plans' below\n\n### Migration to PySide2\n\n - The current implementation uses PySide which is based on Qt4\n - Update to PySide2 when released which uses Qt5\n - Will provide support for HiDPI screens and proper scaling in OSx\n - PyQtgraph is currently the stumbling block as release version does not support Pyside2\n - Current git version has PySide2 modifications but not yet tested\n - Consider move to VisPy if this does not come to fruition\n\n#### Vague Plans for Future\n\n - Refactoring of view classes\n   - This is a mess at the moment. Need all view options to be stored as metadata\n     and cleaner separation between the ImageView widget and the individual OrthoView\n     widgets.\n\n - MoCo/Registration\n   - Bartek's MC method\n\n - 3D view\n   - Probably not that useful but fun and may be easy(?) with vispy. Reliant on good refactoring of ImageView\n   - Application to surfaces (Tom K?)\n\n - Add Jola's texture analysis which sounds cool, whatever it is\n\n - PK modelling validation\n   - QIBA in progress\n   - QIN\n\n - Simplify/rewrite generic Fabber interface\n\n - Improve memory usage by swapping out data which are not being displayed?\n\n - All widgets which process within ROI should work with the subimage within the bounding box of the\n   ROI, not the whole image. \n    - Supervoxels does this already with great performance improvement.\n\n - Support other file formats using NIBABEL.\n   - DICOM conversion included where DCMSTACK is available\n\n - Add semiquantitative measures\n   - Area under the curve\n   - Enhancing fraction\n\n - Simulation tools\n   - Fabber test data\n   - 'Simulated brain'",
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        "license": "License granted by University of Oxford for use by academics carrying out research and not for use by consumers or commercial businesses. See LICENSE file for more details",
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