Metadata-Version: 1.1
Name: ndex2
Version: 3.4.0a1
Summary: Nice CX Python includes a client and a data model.
Home-page: https://github.com/ndexbio/ndex2-client
Author: The NDEx Project
Author-email: contact@ndexbio.org
License: BSD
Description: **NDEx2 Python Client**
        =========================
        
        .. _NDEx: http://ndexbio.org
        .. _NDEx REST Server API: http://www.home.ndexbio.org/using-the-ndex-server-api
        
        .. image:: https://img.shields.io/travis/ndexbio/ndex2-client.svg
                :target: https://travis-ci.org/ndexbio/ndex2-client.svg?branch=master
        
        .. image:: https://img.shields.io/pypi/v/ndex2.svg
                :target: https://pypi.python.org/pypi/ndex2
        
        .. image:: https://coveralls.io/repos/github/ndexbio/ndex2-client/badge.svg?branch=master
                :target: https://coveralls.io/github/ndexbio/ndex2-client?branch=master
        
        .. image:: https://readthedocs.org/projects/ndex2/badge/?version=latest
                :target: https://ndex2.readthedocs.io/en/latest/?badge=latest
                :alt: Documentation Status
        
        
        **Overview**
        --------------
        
        The NDEx2 Python Client provides methods to access NDEx_ via
        the `NDEx REST Server API`_. As well as methods for common operations on
        networks via the NiceCXNetwork class.
        
        **Dependencies**
        ---------------------
        
        * `six <https://pypi.org/project/six>`__
        * `ijson <https://pypi.org/project/ijson>`__
        * `requests <https://pypi.org/project/requests>`__
        * `requests_toolbelt <https://pypi.org/project/requests_toolbelt>`__
        * `networkx <https://pypi.org/project/networkx>`__
        * `urllib3 <https://pypi.org/project/urllib3>`__
        * `pandas <https://pypi.org/project/pandas>`__
        * `enum34 <https://pypi.org/project/enum34>`__ (Python < 3.4)
        * `numpy <https://pypi.org/project/numpy>`__
        * `enum <https://pypi.org/project/enum>`__ (Python 2.6 & 2.7)
        
        **Compatibility**
        -----------------------
        
        Python 2.7+
        
        .. note::
        
            Python 2.7 may have some issues, Python 3.6+ is preferred
        
        **Installation**
        --------------------------------------
        
        The NDEx2 Python Client module can be installed from the Python Package
        Index (PyPI) repository using PIP:
        
        ::
        
            pip install ndex2
        
        If you already have an older version of the ndex2 module installed, you
        can use this command instead:
        
        ::
        
            pip install --upgrade ndex2
        
        
        **License**
        --------------------------------------
        
        See `LICENSE.txt <https://github.com/ndexbio/ndex2-client/blob/master/LICENSE.txt>`_
        
        
        
        
        =======
        History
        =======
        
        3.4.0 (2021-05-03)
        -------------------
        
        * Added `offset` and `limit` parameters to `Ndex2.get_network_ids_for_user()` to enable
          retrieval of all networks for a user.
          `Issue #78 <https://github.com/ndexbio/ndex2-client/issues/78>`__
        
        * Switched `NiceCXNetwork.upload_to()` to named arguments and added `client` parameter.
          `Issue #80 <https://github.com/ndexbio/ndex2-client/issues/80>`__
        
        * Switched `NiceCXNetwork.update_to()` to named arguments and added `client` parameter.
          `Issue #81 <https://github.com/ndexbio/ndex2-client/issues/81>`__
        
        * Fixed documentation `NiceCXNetwork.update_to()` to correctly state method returns empty
          string upon success.
          `Issue #82 <https://github.com/ndexbio/ndex2-client/issues/82>`__
        
        * Added `Ndex2.get_user_by_id()` method to get user information by NDEx user Id.
        
        * Added `Ndex2.get_id_for_user()` method to get NDEx user Id by username.
        
        * Added `Ndex2.get_networksets_for_user_id()` to get Network Sets for a given user Id.
          `Issue #61 <https://github.com/ndexbio/ndex2-client/issues/61>`__
        
        * Improved documentation by adding intersphinx to provide links to python documentation for
          python objects.
        
        3.3.3 (2021-04-22)
        -------------------
        
        * Fixed bug where `NiceCXNetwork.to_networkx()` fails with `ValueError` when installed
          networkx version has X.Y.Z format (example: 2.5.1)
          `Issue #79 <https://github.com/ndexbio/ndex2-client/issues/79>`_
        
        3.3.2 (2021-04-13)
        -------------------
        
        * Fixed bug where `NiceCXNetwork.create_node()` and `.create_edge()` overwrote existing nodes/edges.
          `Issue #60 <https://github.com/ndexbio/ndex2-client/issues/60>`_
        
        * Fixed bug where `enum34` package would be unnecessarily installed on versions of Python 3.4 and newer.
          `Issue #76 <https://github.com/ndexbio/ndex2-client/issues/76>`_
        
        * Improved documentation for `Ndex2.set_network_properties()` method.
          `Issue #77 <https://github.com/ndexbio/ndex2-client/issues/77>`_
        
        3.3.1 (2019-09-23)
        -------------------
        
        * Added `MANIFEST.in` file to include `README.rst, HISTORY.rst, and LICENSE.txt` files as well as documentation and tests so `python setup.py install` will work properly on distribution of this client on PyPI. Thanks to Ben G. for catching this. `Issue #62 <https://github.com/ndexbio/ndex2-client/pull/62>`_
        
        * Minor updates to `README.rst`
        
        3.3.0 (2019-09-11)
        ------------------
        
        * Fixed bug where if server version is not 2.0 exactly then Ndex2() object incorrectly falls back to version of 1.3 of REST calls
          `Issue #40 <https://github.com/ndexbio/ndex2-client/issues/40>`_
        
        * Fixed bug in NiceCXNetwork.add_network_attribute() method where type not properly reset when adding duplicate attribute
          `Issue #50 <https://github.com/ndexbio/ndex2-client/issues/50>`_
        
        * Added delete_networksets() method to Ndex2 client to allow deletion of networksets `Issue #59 <https://github.com/ndexbio/ndex2-client/issues/59>`_
        
        
        3.2.0 (2019-04-23)
        ------------------
        
        * Verify consistent conversion of cx for networkx 1.11 and 2.0+
          `Issue #30 <https://github.com/ndexbio/ndex2-client/issues/30>`_
        
        * NiceCXNetwork.get_nodes(), NiceCXNetwork.get_edges(), NiceCXNetwork.get_metadata() needs to make correct iterator call in Python 2
          `Issue #44 <https://github.com/ndexbio/ndex2-client/issues/44>`_
        
        * Add NiceCXNetwork.get_network_attribute_names() function enhancement
          `Issue #45 <https://github.com/ndexbio/ndex2-client/issues/45>`_
        
        * NiceCXNetwork.create_edge fails to correctly create edge when node dict passed in
          `Issue #46 <https://github.com/ndexbio/ndex2-client/issues/46>`_
        
        3.1.0a1 (2019-03-20)
        --------------------
        
        * Add method to ndex2 python client to apply style from one NiceCXNetwork 
          to another NiceCXNetwork
          `Issue #43 <https://github.com/ndexbio/ndex2-client/issues/43>`_
        
        3.0.0a1 (2019-02-11)
        --------------------
        
        * In NiceCXNetwork class ability to add to User-Agent for calls to NDEx service
          `Issue #36 <https://github.com/ndexbio/ndex2-client/issues/36>`_
        
        * Methods in `ndex2/client.py` should raise an NDExError for invalid credentials
          `Issue #39 <https://github.com/ndexbio/ndex2-client/issues/39>`_
        
        * Add timeout flag to all web request calls
          `Issue #33 <https://github.com/ndexbio/ndex2-client/issues/33>`_
        
        * Update `User-Agent` to reflect actual version of software
          `Issue #35 <https://github.com/ndexbio/ndex2-client/issues/35>`_
        
        * `NiceCXNetwork.set_node_attribute()` incorrectly handles duplicate attributes
          `Issue #41 <https://github.com/ndexbio/ndex2-client/issues/41>`_
        
        * `NiceCXNetwork.set_node_attribute()` fails if node object passed to it
          `Issue #42 <https://github.com/ndexbio/ndex2-client/issues/42>`_
        
        * Passing None to user_agent parameterin `Ndex2()` constructor raises TypeError
          `Issue #34 <https://github.com/ndexbio/ndex2-client/issues/34>`_
        
        * `Ndex2()` constructor does not properly handle invalid json from server
          `Issue #28 <https://github.com/ndexbio/ndex2-client/issues/28>`_
        
        * Eliminate circular import between ndex2 and ndex2cx/nice_cx_builder.py
          `Issue #31 <https://github.com/ndexbio/ndex2-client/issues/31>`_
        
        * Replace print statements with logging calls in `ndex2/client.py`
          `Issue #32 <https://github.com/ndexbio/ndex2-client/issues/32>`_
        
        
        2.0.1 (2019-01-03)
        ------------------
        
        * Fixed bug where logs directory is created within
          the package installation directory. 
          `Issue #26 <https://github.com/ndexbio/ndex2-client/issues/26>`_
        
Keywords: network analysis biology
Platform: UNKNOWN
Classifier: Development Status :: 5 - Production/Stable
Classifier: Intended Audience :: Science/Research
Classifier: Topic :: Scientific/Engineering :: Information Analysis
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Topic :: Scientific/Engineering :: Medical Science Apps.
Classifier: License :: OSI Approved :: BSD License
Classifier: Programming Language :: Python :: 3.6
