Source code for pymor.gui.jupyter

# This file is part of the pyMOR project (
# Copyright 2013-2019 pyMOR developers and contributors. All rights reserved.
# License: BSD 2-Clause License (

"""This module provides plotting support inside the Jupyter notebook.

To use these routines you first have to execute ::

        %matplotlib notebook

inside the given notebook.
import IPython
import numpy as np

from pymor.core import logger
from pymor.core.config import config
from pymor.core.logger import ColoredFormatter
from pymor.gui.matplotlib import MatplotlibPatchAxes
from pymor.vectorarrays.interfaces import VectorArrayInterface
from ipywidgets import IntProgress, HTML, VBox
import ipywidgets
import logging

[docs]def visualize_patch(grid, U, bounding_box=([0, 0], [1, 1]), codim=2, title=None, legend=None, separate_colorbars=False, rescale_colorbars=False, columns=2): """Visualize scalar data associated to a two-dimensional |Grid| as a patch plot. The grid's |ReferenceElement| must be the triangle or square. The data can either be attached to the faces or vertices of the grid. Parameters ---------- grid The underlying |Grid|. U |VectorArray| of the data to visualize. If `len(U) > 1`, the data is visualized as a time series of plots. Alternatively, a tuple of |VectorArrays| can be provided, in which case a subplot is created for each entry of the tuple. The lengths of all arrays have to agree. bounding_box A bounding box in which the grid is contained. codim The codimension of the entities the data in `U` is attached to (either 0 or 2). title Title of the plot. legend Description of the data that is plotted. Most useful if `U` is a tuple in which case `legend` has to be a tuple of strings of the same length. separate_colorbars If `True`, use separate colorbars for each subplot. rescale_colorbars If `True`, rescale colorbars to data in each frame. columns The number of columns in the visualizer GUI in case multiple plots are displayed at the same time. """ assert isinstance(U, VectorArrayInterface) \ or (isinstance(U, tuple) and all(isinstance(u, VectorArrayInterface) for u in U) and all(len(u) == len(U[0]) for u in U)) U = (U.to_numpy().astype(np.float64, copy=False),) if isinstance(U, VectorArrayInterface) else \ tuple(u.to_numpy().astype(np.float64, copy=False) for u in U) if not config.HAVE_MATPLOTLIB: raise ImportError('cannot visualize: import of matplotlib failed') if not config.HAVE_IPYWIDGETS and len(U[0]) > 1: raise ImportError('cannot visualize: import of ipywidgets failed') if isinstance(legend, str): legend = (legend,) assert legend is None or isinstance(legend, tuple) and len(legend) == len(U) if len(U) < 2: columns = 1 class Plot: def __init__(self): if separate_colorbars: if rescale_colorbars: self.vmins = tuple(np.min(u[0]) for u in U) self.vmaxs = tuple(np.max(u[0]) for u in U) else: self.vmins = tuple(np.min(u) for u in U) self.vmaxs = tuple(np.max(u) for u in U) else: if rescale_colorbars: self.vmins = (min(np.min(u[0]) for u in U),) * len(U) self.vmaxs = (max(np.max(u[0]) for u in U),) * len(U) else: self.vmins = (min(np.min(u) for u in U),) * len(U) self.vmaxs = (max(np.max(u) for u in U),) * len(U) import matplotlib.pyplot as plt rows = int(np.ceil(len(U) / columns)) self.figure = figure = plt.figure() self.plots = plots = [] axes = [] for i, (vmin, vmax) in enumerate(zip(self.vmins, self.vmaxs)): ax = figure.add_subplot(rows, columns, i+1) axes.append(ax) plots.append(MatplotlibPatchAxes(figure, grid, bounding_box=bounding_box, vmin=vmin, vmax=vmax, codim=codim, colorbar=separate_colorbars)) if legend: ax.set_title(legend[i]) plt.tight_layout() if not separate_colorbars: figure.colorbar(plots[0].p, ax=axes) def set(self, U, ind): if rescale_colorbars: if separate_colorbars: self.vmins = tuple(np.min(u[ind]) for u in U) self.vmaxs = tuple(np.max(u[ind]) for u in U) else: self.vmins = (min(np.min(u[ind]) for u in U),) * len(U) self.vmaxs = (max(np.max(u[ind]) for u in U),) * len(U) for u, plot, vmin, vmax in zip(U, self.plots, self.vmins, self.vmaxs): plot.set(u[ind], vmin=vmin, vmax=vmax) plot = Plot() plot.set(U, 0) if len(U[0]) > 1: from ipywidgets import interact, IntSlider def set_time(t): plot.set(U, t) interact(set_time, t=IntSlider(min=0, max=len(U[0])-1, step=1, value=0)) return plot
[docs]def progress_bar(sequence, every=None, size=None, name='Parameters'): # c&p from is_iterator = False if size is None: try: size = len(sequence) except TypeError: is_iterator = True if size is not None: if every is None: if size <= 200: every = 1 else: every = int(size / 200) # every 0.5% else: assert every is not None, 'sequence is iterator, set every' if is_iterator: progress = IntProgress(min=0, max=1, value=1) progress.bar_style = 'info' else: progress = IntProgress(min=0, max=size, value=0) label = HTML() box = VBox(children=[label, progress]) IPython.display.display(box) index = 0 try: for index, record in enumerate(sequence, 1): if index == 1 or index % every == 0: if is_iterator: label.value = '{name}: {index} / ?'.format( name=name, index=index ) else: progress.value = index label.value = u'{name}: {index} / {size}'.format( name=name, index=index, size=size ) yield record except: progress.bar_style = 'danger' raise else: progress.bar_style = 'success' progress.value = index label.value = f"{name}: {str(index or '?')}"
[docs]class LogViewer(logging.Handler): out = None def __init__(self, out, accordion=None): super().__init__() self.out = out self.accordion = accordion self.setFormatter(ColoredFormatter()) self.first_emit = True
[docs] def emit(self, record): if self.first_emit: if self.accordion: IPython.display.display(self.accordion) self.first_emit = False record = self.formatter.format_html(record) self.out.value += f'<p style="line-height:120%">{record}</p>'
@property def empty(self): return len(self.out.value) == 0
[docs] def close(self): if self.empty and self.accordion: self.accordion.close()
[docs] def __repr__(self): return '<%s %s>' % (self.__class__.__name__, self.out)
[docs]class LoggingRedirector(object): def __init__(self): self.old_handlers = None self.old_default = None self.new_handler = None self.accordion = None def __enter__(self): self.start() def __exit__(self, exc_type, exc_val, exc_tb): self.stop() def start(self): out = ipywidgets.HTML(layout=ipywidgets.Layout(width='100%', height='16em', overflow_y='auto')) self.accordion = ipywidgets.widgets.Accordion(children=[out]) self.accordion.set_title(0, 'Log Output') # start collapsed self.accordion.selected_index = None self.new_handler = LogViewer(out, self.accordion) def _new_default(_): return [self.new_handler] self.old_default = logger.default_handler logger.default_handler = _new_default self.old_handlers = {name: logging.getLogger(name).handlers for name in logging.root.manager.loggerDict} for name in logging.root.manager.loggerDict: logging.getLogger(name).handlers = [self.new_handler] def stop(self): if self.old_default is None: # %load_ext in the frist cell triggers a post_run_cell with no matching pre_run_cell event before return self.new_handler.close() logger.default_handler = self.old_default for name in logging.root.manager.loggerDict: try: logging.getLogger(name).handlers = self.old_handlers[name] except KeyError: # loggers that have been created during the redirect get a default handler logging.getLogger(name).handlers = logger.default_handler()
redirect_logging = LoggingRedirector()
[docs]def load_ipython_extension(ipython):'pre_run_cell', redirect_logging.start)'post_run_cell', redirect_logging.stop)
[docs]def unload_ipython_extension(ipython):'pre_run_cell', redirect_logging.start)'post_run_cell', redirect_logging.stop)