1a29b95782
Added/modified few plot functions. Cleaned up simulation/plotting scripts regarding Thresh-LP.
290 lines
11 KiB
Python
290 lines
11 KiB
Python
import string
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import numpy as np
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import matplotlib.pyplot as plt
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from matplotlib.transforms import Bbox, BboxTransformTo, TransformedBbox
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def hide_ticks(ax, side='bottom', ticks=True):
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axis = 'x' if side in ['top', 'bottom'] else 'y'
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params = {side: ticks, 'label' + side: False}
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ax.tick_params(axis=axis, which='both', **params)
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return None
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def hide_axis(ax, side='bottom'):
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ax.spines[side].set_visible(False)
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params = {side: False, 'label' + side: False}
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ax.tick_params(axis='x' if side in ['top', 'bottom'] else 'y',
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which='both', **params)
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return None
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def get_trans_artist(artist):
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artist_type = type(artist).__name__
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if artist_type == 'Axes':
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return artist.transAxes
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elif artist_type == 'Figure':
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return artist.transFigure
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elif artist_type == 'Subfigure':
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return artist.transSubfigure
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elif hasattr(artist, 'bbox'):
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return BboxTransformTo(artist.bbox)
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renderer = artist.get_figure(root=True).canvas.get_renderer()
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if hasattr(artist, 'get_window_extent'):
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return BboxTransformTo(artist.get_window_extent(renderer))
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elif hasattr(artist, 'get_tightbbox'):
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return BboxTransformTo(artist.get_tightbbox(renderer))
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raise ValueError('Artist does not have a bounding box to use as transform.')
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def shift_subplot(ax, dx=0, dy=0, ref=None):
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if ref is not None:
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transform = get_trans_artist(ref) + get_trans_artist(ax.figure).inverted()
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dx, dy = transform.transform((dx, dy)) - transform.transform((0, 0))
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pos = ax.get_position()
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ax.set_position([pos.x0 + dx, pos.y0 + dy, pos.width, pos.height])
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return None
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def title_subplot(artist, title, x=0.5, y=1.0, xref=None, yref=None, ref=None,
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ha='center', va='bottom', fontsize=16, fontweight='normal', **kwargs):
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trans_artist = get_trans_artist(artist)
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if xref is not None or yref is not None:
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transform = get_trans_artist(ref) + trans_artist.inverted()
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if xref is not None:
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x = transform.transform((xref, 0))[0]
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if yref is not None:
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y = transform.transform((0, yref))[1]
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return artist.text(x, y, title, transform=trans_artist, ha=ha, va=va,
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fontsize=fontsize, fontweight=fontweight, **kwargs)
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def letter_subplot(artist, label, x=None, y=None, xref=None, yref=None, ref=None,
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ha='left', va='bottom', fontsize=16, fontweight='bold', **kwargs):
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trans_artist = get_trans_artist(artist)
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if x is None or y is None:
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transform = get_trans_artist(ref) + trans_artist.inverted()
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if x is None:
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x = transform.transform([xref, 0])[0]
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if y is None:
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y = transform.transform([0, yref])[1]
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return artist.text(x, y, label, transform=trans_artist, ha=ha, va=va,
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fontsize=fontsize, fontweight=fontweight, **kwargs)
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def letter_subplots(artists, labels=None, x=None, y=None, xref=None, yref=None, ref=None,
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ha='left', va='bottom', fontsize=16, fontweight='bold', **kwargs):
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if labels is None:
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labels = string.ascii_lowercase
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handles = []
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for artist, label in zip(artists, labels):
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handles.append(letter_subplot(artist, label, x, y, xref, yref, ref,
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ha=ha, va=va, fontsize=fontsize, fontweight=fontweight, **kwargs))
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return handles
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def xlimits(time, ax=None, minval=None, maxval=None, pad=0.05):
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if minval is not None and maxval is not None:
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if ax is not None:
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return ax.set_xlim([minval, maxval])
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return [minval, maxval]
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limits = [minval, maxval]
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if minval is None:
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limits[0] = time[0]
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if maxval is None:
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limits[1] = time[-1]
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span = limits[1] - limits[0]
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if pad and minval is None:
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limits[0] -= span * pad
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if pad and maxval is None:
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limits[1] += span * pad
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if ax is not None:
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return ax.set_xlim(limits)
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return limits
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def ylimits(signal, ax=None, minval=None, maxval=None, pad=0.05):
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if minval is not None and maxval is not None:
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if ax is not None:
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return ax.set_ylim([minval, maxval])
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return [minval, maxval]
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limits = [minval, maxval]
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if minval is None:
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limits[0] = signal.min()
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if maxval is None:
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limits[1] = signal.max()
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span = limits[1] - limits[0]
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if pad and minval is None:
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limits[0] -= span * pad
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if pad and maxval is None:
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limits[1] += span * pad
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if ax is not None:
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return ax.set_ylim(limits)
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return limits
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def xlabel(ax, label, x=None, y=-0.1, fontsize=20, transform=None, **kwargs):
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if x is None:
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x = 0.5
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if transform is not None:
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x = (ax.transAxes + transform.inverted()).transform((x, 0))[0]
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ax.xaxis.set_label_coords(x, y, transform=transform)
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return ax.set_xlabel(label, fontsize=fontsize, **kwargs)
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def ylabel(ax, label, x=-0.2, y=None, fontsize=20, transform=None, **kwargs):
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if y is None:
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y = 0.5
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if transform is not None:
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y = (ax.transAxes + transform.inverted()).transform((0, y))[1]
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ax.yaxis.set_label_coords(x, y, transform=transform)
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return ax.set_ylabel(label, fontsize=fontsize, **kwargs)
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def super_xlabel(label, fig, left_ax, right_ax, y=0.005,
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left_fig=None, right_fig=None, **kwargs):
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left_x = left_ax.get_position().x0
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right_x = right_ax.get_position().x1
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if left_fig is not None or right_fig is not None:
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trans_fig = get_trans_artist(fig)
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if left_fig is not None:
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transform = get_trans_artist(left_fig) + trans_fig.inverted()
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left_x = transform.transform((left_x, 0))[0]
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if right_fig is not None:
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transform = get_trans_artist(right_fig) + trans_fig.inverted()
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right_x = transform.transform((right_x, 0))[0]
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return fig.supxlabel(label, x=(left_x + right_x) / 2, y=y, **kwargs)
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def super_ylabel(label, fig, low_ax, high_ax, x=0.005,
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high_fig=None, low_fig=None, **kwargs):
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low_y = high_ax.get_position().y0
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high_y = low_ax.get_position().y1
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if low_fig is not None or high_fig is not None:
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trans_fig = get_trans_artist(fig)
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if low_fig is not None:
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transform = get_trans_artist(low_fig) + trans_fig.inverted()
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low_y = transform.transform((0, low_y))[1]
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if high_fig is not None:
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transform = get_trans_artist(high_fig) + trans_fig.inverted()
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high_y = transform.transform((0, high_y))[1]
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return fig.supylabel(label, x=x, y=(low_y + high_y) / 2, **kwargs)
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def plot_line(ax, time, signal, ymin=None, ymax=None, xmin=None, xmax=None,
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xpad=None, ypad=0.05, yloc=None, xloc=None, **kwargs):
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handles = ax.plot(time, signal, **kwargs)
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xlimits(time, ax=ax, minval=xmin, maxval=xmax, pad=xpad)
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ylimits(signal, ax=ax, minval=ymin, maxval=ymax, pad=ypad)
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if xloc is not None:
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ax.xaxis.set_major_locator(plt.MultipleLocator(xloc))
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if yloc is not None:
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ax.yaxis.set_major_locator(plt.MultipleLocator(yloc))
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return handles
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def plot_barcode(ax, time, binary, offset=0.5, xmin=None, xmax=None, **kwargs):
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if binary.ndim == 1:
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binary = binary[:, None]
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lower, upper, handles = 0, 1, []
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for i in range(binary.shape[1]):
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h = ax.fill_between(time, lower, upper, where=binary[:, i], **kwargs)
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handles.append(h)
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if i < binary.shape[1] - 1:
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lower += offset + 1
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upper += offset + 1
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xlimits(time, ax=ax, minval=xmin, maxval=xmax, pad=0)
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ax.set_ylim(0, upper)
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hide_axis(ax, 'bottom')
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hide_axis(ax, 'left')
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return handles
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def indicate_zoom(fig, high_ax, low_ax, zoom_abs, **kwargs):
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y0 = low_ax.get_position().y0
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y1 = high_ax.get_position().y1
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transform = low_ax.transData + fig.transFigure.inverted()
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x0 = transform.transform((zoom_abs[0], 0))[0]
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x1 = transform.transform((zoom_abs[1], 0))[0]
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return fig.add_artist(plt.Rectangle((x0, y0), x1 - x0, y1 - y0,
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transform=fig.transFigure, **kwargs))
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def assign_colors(handles, types, colors):
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for handle, type_id in zip(handles, types):
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handle.set_color(colors[str(int(type_id))])
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return None
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def reorder_traces(handles, signal, zlow=2, zhigh=2.5):
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inds = np.argsort(signal.std(axis=0))
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zorders = np.linspace(zlow, zhigh, len(inds))[::-1]
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for ind, z in zip(inds, zorders):
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handles[ind].set_zorder(z)
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return None
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def strip_zeros(num, right_digits=5):
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if isinstance(num, int):
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return num
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num = f'{num:.{right_digits}f}'
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left, right = num.split('.')
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right = right.rstrip('0')
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if right:
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return f'{left}.{right}'
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return left
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def time_bar(ax, dur, y0=0.9, y1=0.95, xshift=0.5, parent=None,
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text_pos=None, text_str=None, text_kwargs={}, **kwargs):
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if parent is None:
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parent = ax
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trans_parent = get_trans_artist(parent)
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transform = ax.transData + trans_parent.inverted()
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t0 = ax.get_xlim()[0]
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x0 = transform.transform((t0, 0))[0]
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x1 = transform.transform((t0 + dur, 0))[0]
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dur = x1 - x0
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x0 = (1 - dur) * xshift
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rect = parent.add_artist(plt.Rectangle((x0, y0), dur, y1 - y0,
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transform=trans_parent, **kwargs))
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if text_pos is not None:
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trans_bar = get_trans_artist(rect)
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text_pos = (trans_bar + trans_parent.inverted()).transform(text_pos)
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if text_str is None:
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text_str = f'{dur:.2f} s'
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t = parent.text(*text_pos, text_str, transform=trans_parent, **text_kwargs)
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return rect, t
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return rect
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def zoom_inset(ax, inset, handle, x0=None, x1=None, y0=None, y1=None, ref='x',
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transform=None,
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low_left=False, up_left=False, low_right=False, up_right=False,
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props=['c', 'lw', 'ls', 'zorder', 'alpha'], **kwargs):
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if not kwargs:
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kwargs = dict(edgecolor='k', alpha=1, lw=2)
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if transform is not None:
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transform = transform + ax.transData.inverted()
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xlims = ax.get_xlim()
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ylims = ax.get_ylim()
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if x0 is None:
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x0 = xlims[0]
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elif transform is not None:
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x0 = transform.transform((x0, 0))[0]
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if x1 is None:
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x1 = xlims[1]
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elif transform is not None:
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x1 = transform.transform((x1, 0))[0]
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if y0 is None:
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y0 = ylims[0]
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elif transform is not None:
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y0 = transform.transform((0, y0))[1]
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if y1 is None:
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y1 = ylims[1]
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elif transform is not None:
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y1 = transform.transform((0, y1))[1]
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inset.set_xlim(x0, x1)
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inset.set_ylim(y0, y1)
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x = handle.get_xdata()
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y = handle.get_ydata()
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if ref == 'x':
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zoom_inds = (x >= x0) & (x <= x1)
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elif ref == 'y':
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zoom_inds = (y >= y0) & (y <= y1)
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x = x[zoom_inds]
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y = y[zoom_inds]
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inset_handle = inset.plot(x, y)[0]
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inset_handle.set(**{prop: plt.getp(handle, prop) for prop in props})
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elements = ax.indicate_inset_zoom(inset, **kwargs)
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visibility = low_left, up_left, low_right, up_right
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[l.set_visible(v) for l, v in zip(elements.connectors, visibility)]
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return inset_handle, elements.rectangle, elements.connectors
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def set_clip_box(artist, ax, bounds=[[0, -0.05], [1, 1.05]]):
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artist.set_clip_box(TransformedBbox(Bbox(bounds), ax.transAxes))
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return None
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