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Refactored dendrogram to new graphics submodule
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| # -*- encoding: utf-8 -*- | ||
| """ | ||
| Various visualization tools. | ||
| """ | ||
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| import logging | ||
| logger = logging.getLogger(__name__) | ||
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| import scipy.cluster.hierarchy as sch | ||
| import matplotlib as mpl | ||
| import matplotlib.pyplot as plt | ||
| # from scipy import linalg | ||
| # from scipy.misc import comb | ||
| # from itertools import combinations | ||
| # from functools import update_wrapper | ||
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| class Dendrogram: | ||
| """ | ||
| Creates a dendrogram representation from a hierarchical clustering. | ||
| This is a wrapper around, and an improvement to, :func:`sch.dendrogram`, | ||
| tailored for the use in pydelta. | ||
| Args: | ||
| clustering (Clustering): A hierarchical clustering. | ||
| describer (DocumentDescriber): Document describer used for determining | ||
| the groups and the labels for the documents used (optional). By | ||
| default, the document describer inherited from the clustering is | ||
| used. | ||
| ax (mpl.axes.Axes): Axes object to draw on. Uses pyplot default axes if | ||
| not provided. | ||
| orientation (str): Orientation of the dendrogram. Currently, only | ||
| "right" is supported (default). | ||
| font_size: Font size for the label, in points. If not provided, | ||
| :func:`sch.dendrogram` calculates a default. | ||
| link_color (str): The color used for the links in the dendrogram, by | ||
| default ``k`` (for black). | ||
| title (str): a title that will be printed on the plot. The string may | ||
| be a template string as supported by :meth:`str.format_map` with | ||
| metadata field names in curly braces, it will be evaluated against | ||
| the clustering's metadata. If you pass ``None`` here, no title will | ||
| be added. | ||
| Notes: | ||
| The dendrogram will be painted by matplotlib / pyplot using the default | ||
| styles, which means you can use, e.g., :module:`seaborn` to influence | ||
| the overall design of the image. | ||
| :class:`Dendrogram` handles coloring differently than | ||
| :func:`sch.dendrogram`: It will color the document labels according to | ||
| the pre-assigned grouping (e.g., by author). To do so, it will build on | ||
| matplotlib's default color_cycle, and it will rotate, so if you need | ||
| more colors, adjust the color_cycle accordingly. | ||
| """ | ||
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| def __init__(self, clustering, describer=None, ax=None, | ||
| orientation="left", font_size=None, link_color="k", | ||
| title="Corpus: {corpus}", | ||
| xlabel="Delta: {delta_title}, {words} most frequent {features}"): | ||
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| self.clustering = clustering | ||
| self.linkage = clustering.linkage | ||
| self.metadata = clustering.metadata | ||
| self.describer = clustering.describer \ | ||
| if describer is None else describer | ||
| self.documents = list(clustering.distance_matrix.index) | ||
| self.orientation = orientation | ||
| self._init_colormap() | ||
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| plt.clf() | ||
| self.dendro_data = sch.dendrogram(self.linkage, | ||
| orientation=orientation, | ||
| labels=self.documents, | ||
| leaf_rotation = 0 if orientation == 'left' else 90, | ||
| ax=ax, | ||
| link_color_func=lambda k: link_color) | ||
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| # Now redo the author labels. To do so, we map a color to each author | ||
| # (using the describer) and then | ||
| self.ax = plt.gca() if ax is None else ax | ||
| self.fig = plt.gcf() | ||
| self._relabel_axis() | ||
| if title is not None: | ||
| plt.title(title.format_map(self.metadata)) | ||
| if xlabel is not None: | ||
| plt.xlabel(xlabel.format_map(self.metadata)) | ||
| plt.tight_layout(2) | ||
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| def link_color_func(self, k): | ||
| print(k) | ||
| return "k" | ||
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| def _init_colormap(self): | ||
| groups = self.describer.groups(self.documents) | ||
| props = mpl.rcParams['axes.prop_cycle'] | ||
| self.colormap = {x: y['color'] for x,y in zip(groups, props())} | ||
| self.colorlist = [self.colormap[self.describer.group_name(doc)] | ||
| for doc in self.documents] | ||
| return self.colormap | ||
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| def _relabel_axis(self): | ||
| if self.orientation == 'left': | ||
| labels = self.ax.get_ymajorticklabels() | ||
| else: | ||
| labels = self.ax.get_xmajorticklabels() | ||
| display_labels = [] | ||
| for label in labels: | ||
| group = self.describer.group_name(label.get_text()) | ||
| label.set_color(self.colormap[group]) | ||
| display_label = self.describer.label(label.get_text()) | ||
| label.set_text(display_label) # doesn't really set the labels | ||
| display_labels.append(display_label) | ||
| if self.orientation == 'left': | ||
| self.ax.set_yticklabels(display_labels) | ||
| else: | ||
| self.ax.set_xticklabels(display_labels) | ||
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| def show(self): | ||
| plt.show() | ||
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| def save(self, fname, **kwargs): | ||
| self.fig.savefig(fname, **kwargs) |