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update examples and improve 2D projections
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| Original file line number | Diff line number | Diff line change |
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| # -*- coding: utf-8 -*- | ||
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| """ | ||
| Function to plot quality control indicators. | ||
| """ | ||
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| import bigfish.stack as stack | ||
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| import matplotlib.pyplot as plt | ||
| import numpy as np | ||
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| from .utils import save_plot | ||
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| def plot_sharpness(focus_measures, labels=None, title=None, framesize=(5, 5), | ||
| size_title=20, size_axes=15, size_legend=15, | ||
| path_output=None, ext="png", show=True): | ||
| """ | ||
| Parameters | ||
| ---------- | ||
| focus_measures : np.ndarray or List[np.ndarray] | ||
| A list of 1-d array with the sharpness measure for each z-slices. | ||
| labels : List[str] | ||
| List of labels for the different measures to compare. | ||
| title : str | ||
| Title of the plot. | ||
| framesize : tuple | ||
| Size of the frame used to plot with 'plt.figure(figsize=framesize)'. | ||
| size_title : int | ||
| Size of the title. | ||
| size_axes : int | ||
| Size of the axes label. | ||
| size_legend : int | ||
| Size of the legend. | ||
| path_output : str | ||
| Path to save the image (without extension). | ||
| ext : str or List[str] | ||
| Extension used to save the plot. If it is a list of strings, the plot | ||
| will be saved several times. | ||
| show : bool | ||
| Show the figure or not. | ||
| Returns | ||
| ------- | ||
| """ | ||
| # enlist image if necessary | ||
| if isinstance(focus_measures, np.ndarray): | ||
| focus_measures = [focus_measures] | ||
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| # check parameters | ||
| stack.check_parameter(focus_measures=list, | ||
| labels=(list, type(None)), | ||
| title=(str, list, type(None)), | ||
| framesize=tuple, | ||
| size_title=int, | ||
| size_axes=int, | ||
| size_legend=int, | ||
| path_output=(str, type(None)), | ||
| ext=(str, list), | ||
| show=bool) | ||
| length = 0 | ||
| for focus_measure in focus_measures: | ||
| stack.check_array(focus_measure, | ||
| ndim=1, | ||
| dtype=[np.float32, np.float64]) | ||
| length = max(length, focus_measure.size) | ||
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| # plot | ||
| plt.figure(figsize=framesize) | ||
| y = np.array([i for i in range(length)]) | ||
| for i, focus_measure in enumerate(focus_measures): | ||
| if labels is not None: | ||
| plt.plot(focus_measure, y, label=labels[i]) | ||
| else: | ||
| plt.plot(focus_measure, y) | ||
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| # axes | ||
| if title is not None : | ||
| plt.title(title, fontweight="bold", fontsize=size_title) | ||
| plt.xlabel("sharpness measure", fontweight="bold", fontsize=size_axes) | ||
| plt.ylabel("z-slices", fontweight="bold", fontsize=size_axes) | ||
| if labels is not None: | ||
| plt.legend(prop={'size': size_legend}) | ||
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| plt.tight_layout() | ||
| if path_output is not None: | ||
| save_plot(path_output, ext) | ||
| if show: | ||
| plt.show() | ||
| else: | ||
| plt.close() | ||
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| return |
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