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        "author": "Jeremy Maitin-Shepard",
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        "description": "# Neuroglancer Python Integration\n\nThis package provides a Python interface for controlling\n[Neuroglancer](https://github.com/google/neuroglancer), a web-based 3-d\nvolumetric data viewer.\n\nThe following features are supported:\n - Viewing in-memory NumPy arrays (or any other array type with a similar\n   interface, including HDF5 arrays loaded through h5py)\n - Reading and writing the Neuroglancer viewer state from Python\n - Changing Neuroglancer key and mouse bindings\n - Defining actions (to be triggered by key or mouse bindings) that cause a\n   Python callback to be invoked.\n\nIt starts a local web server for communicating state changes using sockjs,\nserving a copy of the Neuroglancer client code, and for serving data to the\nNeuroglancer client if Python data sources are used.\n\n## Installation\n\nIt is recommended that you activate a suitable Python virtual environment before installing.\n\nPython 3.5 or later is required.\n\nYou can install the latest published package from [PyPI](https://pypi.org/project/neuroglancer)\nwith:\n\n```shell\npip install neuroglancer\n```\n\nIn most cases, this will use a prebuilt binary wheel, which requires neither node.js (to build the\nNeuroglancer client) nor a C++ compiler.  If no binary wheel is available for your platform, a\nsource distribution (sdist) will be used instead, which requires a C++ compiler to build but does\nnot require node.js (the source distribution includes a prebuilt copy of the Neuroglancer client).\n\n### Direct installation from remote git repository\n\nTo install the latest version from the Neuroglancer git repository, you can use:\n\n```shell\npip install git+https://github.com/google/neuroglancer\n```\n\nNote that installing from a git repository requires Node.js and a C++ compiler.\n\nTo install a specific commit `XXXXXXXXX`:\n\n```shell\npip install git+https://github.com/google/neuroglancer@XXXXXXXXX\n```\n\nIn another Python package, you can declare a dependency on a git version using the syntax:\n\n```python\nsetup(\n    name='<package>',\n    ...,\n    install_requires=[\n        ...,\n        'neuroglancer @ git+https://github.com/google/neuroglancer@XXXXXXXXX',\n    ],\n)\n```\n\n### Installation from local checkout of git repository\n\nYou can also install from a local checkout of the git repository.  Two forms of installation are\nsupported: normal installation, and an editable installation for development purposes.\n\nAs with installation from a remote git repository, installation from a local checkout requires\nNode.js to build the Neuroglancer client and a C++ compiler to build the C++ mesh generation\nextension module.\n\n#### Normal installation\n\nFor normal installation, run the following from the root of the repository:\n\n```shell\npython setup.py install\n```\n\nThat will automatically build the Neuroglancer client using Node.js if it has not already been built\n(i.e. if `neuroglancer/static/index.html` does not exist).  To rebuild the Neuroglancer client\nexplicitly, you can use:\n\n```shell\npython setup.py bundle_client\n```\n\nor\n\n```shell\nnpm run build-python\n```\n\nNote: Installing from a local checkout using `pip install .` also works, but it may be slower\nbecause it makes a full copy of the local directory (https://github.com/pypa/pip/pull/7882),\nincluding the possibly-large `.git` and `node_modules` directories.\n\n#### Editable installation (for development purposes)\n\nDuring development, an *editable* installation allows the package to be imported directly from the\nlocal checkout directory:\n\n```shell\npip install -e .\n```\n\nAny changes you make to the .py source files take effect the next time the package is imported,\nwithout the need to reinstall.  If you make changes to the Neuroglancer client, you still need to\nrebuild it with `npm run build-python`.  You can also keep the Neuroglancer client continuously\nup-to-date by running `npm run dev-server-python`.\n\n## Examples\n\nSee the example programs in the [examples/](examples/) directory.  Run them\nusing the Python interpreter in interactive mode, e.g.\n\n```shell\npython -i example.py\n```\n\nor using the IPython magic command\n\n```\n%run -i python.py\n```\n\nDo not run an example non-interactively as\n\n```shell\npython example.py\n```\nbecause then the server will exit immediately.\n\n## Mesh generation\n\nFor in-memory segmentation volumes, mesh representations of the surface of each\nobject can be generated on-demand as they are requested by the client (e.g. due\nto the user selecting a segment)\n\n## Security\n\nBy default the server binds only to the `127.0.0.1` address, and for protection\nagainst cross-site scripting attacks only accepts requests that include a valid\nrandomly-generated 160-bit secret key.\n\n## Test suite\n\nThe test suite can be run using the `tox` command.  Some of the tests require a WebGL2-enabled web\nbrowser in order to test interaction with the Neuroglancer client.  Both Chrome and Firefox are\nsupported, but currently due to bugs in Swiftshader, Chrome Headless does not work.  Firefox\nHeadless also currently does not support WebGL at all.  On Linux, you can successfully run the tests\nheadlessly on Firefox using `xvfb-run`.  On other platforms, tests can't be run headlessly.\n\n```shell\n# For headless using Firefox on xvfb (Linux only)\nsudo apt-get instrall xvfb # On Debian-based systems\ntox -e firefox-xvfb  # Run tests using non-headless Firefox\n\n# For non-headless using Chrome\ntox -e chrome\n\n# For non-headless using Firefox\ntox -e firefox\n\n# To run only tests that do not require a browser\ntox -e skip-browser-tests\n```\n\nRefer to [tox.ini](../tox.ini) for details of the test procedure.\n\n\n",
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