.. DO NOT EDIT.
.. THIS FILE WAS AUTOMATICALLY GENERATED BY SPHINX-GALLERY.
.. TO MAKE CHANGES, EDIT THE SOURCE PYTHON FILE:
.. "examples/read_files_neo_rawio.py"
.. LINE NUMBERS ARE GIVEN BELOW.

.. only:: html

    .. note::
        :class: sphx-glr-download-link-note

        :ref:`Go to the end <sphx_glr_download_examples_read_files_neo_rawio.py>`
        to download the full example code

.. rst-class:: sphx-glr-example-title

.. _sphx_glr_examples_read_files_neo_rawio.py:


Reading files with neo.rawio
============================

compare with read_files_neo_io.py

.. GENERATED FROM PYTHON SOURCE LINES 7-77

.. code-block:: Python


    import urllib
    from neo.rawio import PlexonRawIO

    url_repo = 'https://web.gin.g-node.org/NeuralEnsemble/ephy_testing_data/raw/master/'

    # Get Plexon files
    distantfile = url_repo + 'plexon/File_plexon_3.plx'
    localfile = 'File_plexon_3.plx'
    urllib.request.urlretrieve(distantfile, localfile)

    # create a reader
    reader = PlexonRawIO(filename='File_plexon_3.plx')
    reader.parse_header()
    print(reader)
    print(reader.header)

    # Read signal chunks
    channel_indexes = None  # could be channel_indexes = [0]
    raw_sigs = reader.get_analogsignal_chunk(block_index=0, seg_index=0, i_start=1024, i_stop=2048,
                                             channel_indexes=channel_indexes)
    float_sigs = reader.rescale_signal_raw_to_float(raw_sigs, dtype='float64')
    sampling_rate = reader.get_signal_sampling_rate()
    t_start = reader.get_signal_t_start(block_index=0, seg_index=0)
    units = reader.header['signal_channels'][0]['units']
    print(raw_sigs.shape, raw_sigs.dtype)
    print(float_sigs.shape, float_sigs.dtype)
    print(sampling_rate, t_start, units)

    # Count units and spikes per unit
    nb_unit = reader.spike_channels_count()
    print('nb_unit', nb_unit)
    for spike_channel_index in range(nb_unit):
        nb_spike = reader.spike_count(block_index=0, seg_index=0, spike_channel_index=spike_channel_index)
        print('spike_channel_index', spike_channel_index, 'nb_spike', nb_spike)

    # Read spike times
    spike_timestamps = reader.get_spike_timestamps(block_index=0, seg_index=0, spike_channel_index=0,
                                                   t_start=0., t_stop=10.)
    print(spike_timestamps.shape, spike_timestamps.dtype, spike_timestamps[:5])
    spike_times = reader.rescale_spike_timestamp(spike_timestamps, dtype='float64')
    print(spike_times.shape, spike_times.dtype, spike_times[:5])

    # Read spike waveforms
    raw_waveforms = reader.get_spike_raw_waveforms(block_index=0, seg_index=0, spike_channel_index=0,
                                                   t_start=0., t_stop=10.)
    print(raw_waveforms.shape, raw_waveforms.dtype, raw_waveforms[0, 0, :4])
    float_waveforms = reader.rescale_waveforms_to_float(raw_waveforms, dtype='float32', spike_channel_index=0)
    print(float_waveforms.shape, float_waveforms.dtype, float_waveforms[0, 0, :4])

    # Read event timestamps and times (take another file)
    distantfile = url_repo + 'plexon/File_plexon_2.plx'
    localfile = 'File_plexon_2.plx'
    urllib.request.urlretrieve(distantfile, localfile)

    # Count events per channel
    reader = PlexonRawIO(filename='File_plexon_2.plx')
    reader.parse_header()
    nb_event_channel = reader.event_channels_count()
    print('nb_event_channel', nb_event_channel)
    for chan_index in range(nb_event_channel):
        nb_event = reader.event_count(block_index=0, seg_index=0, event_channel_index=chan_index)
        print('chan_index', chan_index, 'nb_event', nb_event)

    ev_timestamps, ev_durations, ev_labels = reader.get_event_timestamps(block_index=0, seg_index=0,
                                                                         event_channel_index=0,
                                                                         t_start=None, t_stop=None)
    print(ev_timestamps, ev_durations, ev_labels)
    ev_times = reader.rescale_event_timestamp(ev_timestamps, dtype='float64')
    print(ev_times)


.. _sphx_glr_download_examples_read_files_neo_rawio.py:

.. only:: html

  .. container:: sphx-glr-footer sphx-glr-footer-example

    .. container:: sphx-glr-download sphx-glr-download-jupyter

      :download:`Download Jupyter notebook: read_files_neo_rawio.ipynb <read_files_neo_rawio.ipynb>`

    .. container:: sphx-glr-download sphx-glr-download-python

      :download:`Download Python source code: read_files_neo_rawio.py <read_files_neo_rawio.py>`


.. only:: html

 .. rst-class:: sphx-glr-signature

    `Gallery generated by Sphinx-Gallery <https://sphinx-gallery.github.io>`_