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# Copyright (c) 2012-2020 Jicamarca Radio Observatory
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# All rights reserved.
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#
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# Distributed under the terms of the BSD 3-clause license.
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"""Base class to create plot operations
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"""
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import os
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import sys
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import zmq
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import time
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import numpy
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import datetime
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from multiprocessing import Queue
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from functools import wraps
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from threading import Thread
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import matplotlib
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if 'BACKEND' in os.environ:
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matplotlib.use(os.environ['BACKEND'])
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elif 'linux' in sys.platform:
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matplotlib.use("TkAgg")
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elif 'darwin' in sys.platform:
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matplotlib.use('WxAgg')
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else:
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from schainpy.utils import log
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log.warning('Using default Backend="Agg"', 'INFO')
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matplotlib.use('Agg')
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import matplotlib.pyplot as plt
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from matplotlib.patches import Polygon
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from mpl_toolkits.axes_grid1 import make_axes_locatable
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from matplotlib.ticker import FuncFormatter, LinearLocator, MultipleLocator
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from schainpy.model.data.jrodata import PlotterData
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from schainpy.model.proc.jroproc_base import ProcessingUnit, Operation, MPDecorator
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from schainpy.utils import log
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jet_values = matplotlib.pyplot.get_cmap('jet', 100)(numpy.arange(100))[10:90]
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blu_values = matplotlib.pyplot.get_cmap(
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'seismic_r', 20)(numpy.arange(20))[10:15]
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ncmap = matplotlib.colors.LinearSegmentedColormap.from_list(
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'jro', numpy.vstack((blu_values, jet_values)))
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matplotlib.pyplot.register_cmap(cmap=ncmap)
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CMAPS = [plt.get_cmap(s) for s in ('jro', 'jet', 'viridis',
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'plasma', 'inferno', 'Greys', 'seismic', 'bwr', 'coolwarm')]
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EARTH_RADIUS = 6.3710e3
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def ll2xy(lat1, lon1, lat2, lon2):
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p = 0.017453292519943295
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a = 0.5 - numpy.cos((lat2 - lat1) * p)/2 + numpy.cos(lat1 * p) * \
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numpy.cos(lat2 * p) * (1 - numpy.cos((lon2 - lon1) * p)) / 2
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r = 12742 * numpy.arcsin(numpy.sqrt(a))
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theta = numpy.arctan2(numpy.sin((lon2-lon1)*p)*numpy.cos(lat2*p), numpy.cos(lat1*p)
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* numpy.sin(lat2*p)-numpy.sin(lat1*p)*numpy.cos(lat2*p)*numpy.cos((lon2-lon1)*p))
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theta = -theta + numpy.pi/2
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return r*numpy.cos(theta), r*numpy.sin(theta)
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def km2deg(km):
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'''
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Convert distance in km to degrees
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'''
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return numpy.rad2deg(km/EARTH_RADIUS)
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def figpause(interval):
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backend = plt.rcParams['backend']
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if backend in matplotlib.rcsetup.interactive_bk:
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figManager = matplotlib._pylab_helpers.Gcf.get_active()
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if figManager is not None:
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canvas = figManager.canvas
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if canvas.figure.stale:
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canvas.draw()
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try:
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canvas.start_event_loop(interval)
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except:
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pass
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return
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def popup(message):
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'''
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'''
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fig = plt.figure(figsize=(12, 8), facecolor='r')
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text = '\n'.join([s.strip() for s in message.split(':')])
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fig.text(0.01, 0.5, text, ha='left', va='center',
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size='20', weight='heavy', color='w')
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fig.show()
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figpause(1000)
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class Throttle(object):
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'''
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Decorator that prevents a function from being called more than once every
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time period.
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To create a function that cannot be called more than once a minute, but
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will sleep until it can be called:
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@Throttle(minutes=1)
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def foo():
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pass
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for i in range(10):
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foo()
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print "This function has run %s times." % i
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'''
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def __init__(self, seconds=0, minutes=0, hours=0):
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self.throttle_period = datetime.timedelta(
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seconds=seconds, minutes=minutes, hours=hours
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)
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self.time_of_last_call = datetime.datetime.min
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def __call__(self, fn):
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@wraps(fn)
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def wrapper(*args, **kwargs):
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coerce = kwargs.pop('coerce', None)
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if coerce:
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self.time_of_last_call = datetime.datetime.now()
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return fn(*args, **kwargs)
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else:
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now = datetime.datetime.now()
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time_since_last_call = now - self.time_of_last_call
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time_left = self.throttle_period - time_since_last_call
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if time_left > datetime.timedelta(seconds=0):
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return
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self.time_of_last_call = datetime.datetime.now()
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return fn(*args, **kwargs)
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return wrapper
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def apply_throttle(value):
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@Throttle(seconds=value)
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def fnThrottled(fn):
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fn()
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return fnThrottled
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@MPDecorator
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class Plot(Operation):
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"""Base class for Schain plotting operations
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This class should never be use directtly you must subclass a new operation,
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children classes must be defined as follow:
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ExamplePlot(Plot):
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CODE = 'code'
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colormap = 'jet'
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plot_type = 'pcolor' # options are ('pcolor', 'pcolorbuffer', 'scatter', 'scatterbuffer')
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def setup(self):
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pass
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def plot(self):
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pass
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"""
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CODE = 'Figure'
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colormap = 'jet'
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bgcolor = 'white'
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buffering = True
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__missing = 1E30
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__attrs__ = ['show', 'save', 'ymin', 'ymax', 'zmin', 'zmax', 'title',
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'showprofile']
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def __init__(self):
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Operation.__init__(self)
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self.isConfig = False
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self.isPlotConfig = False
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self.save_time = 0
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self.sender_time = 0
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self.data = None
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self.firsttime = True
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self.sender_queue = Queue(maxsize=60)
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self.plots_adjust = {'left': 0.125, 'right': 0.9, 'bottom': 0.15, 'top': 0.9, 'wspace': 0.2, 'hspace': 0.2}
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def __fmtTime(self, x, pos):
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'''
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'''
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return '{}'.format(self.getDateTime(x).strftime('%H:%M'))
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def __setup(self, **kwargs):
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'''
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Initialize variables
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'''
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self.figures = []
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self.axes = []
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self.cb_axes = []
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self.localtime = kwargs.pop('localtime', True)
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self.show = kwargs.get('show', True)
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self.save = kwargs.get('save', False)
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self.save_period = kwargs.get('save_period', 60)
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self.colormap = kwargs.get('colormap', self.colormap)
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self.colormap_coh = kwargs.get('colormap_coh', 'jet')
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self.colormap_phase = kwargs.get('colormap_phase', 'RdBu_r')
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self.colormaps = kwargs.get('colormaps', None)
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self.bgcolor = kwargs.get('bgcolor', self.bgcolor)
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self.showprofile = kwargs.get('showprofile', False)
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self.title = kwargs.get('wintitle', self.CODE.upper())
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self.cb_label = kwargs.get('cb_label', None)
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self.cb_labels = kwargs.get('cb_labels', None)
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self.labels = kwargs.get('labels', None)
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self.xaxis = kwargs.get('xaxis', 'frequency')
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self.zmin = kwargs.get('zmin', None)
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self.zmax = kwargs.get('zmax', None)
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self.zlimits = kwargs.get('zlimits', None)
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self.xmin = kwargs.get('xmin', None)
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self.xmax = kwargs.get('xmax', None)
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self.xrange = kwargs.get('xrange', 12)
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self.xscale = kwargs.get('xscale', None)
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self.ymin = kwargs.get('ymin', None)
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self.ymax = kwargs.get('ymax', None)
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self.yscale = kwargs.get('yscale', None)
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self.xlabel = kwargs.get('xlabel', None)
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self.attr_time = kwargs.get('attr_time', 'utctime')
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self.decimation = kwargs.get('decimation', None)
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self.showSNR = kwargs.get('showSNR', False)
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self.oneFigure = kwargs.get('oneFigure', True)
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self.width = kwargs.get('width', None)
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self.height = kwargs.get('height', None)
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self.colorbar = kwargs.get('colorbar', True)
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self.factors = kwargs.get('factors', [1, 1, 1, 1, 1, 1, 1, 1])
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self.channels = kwargs.get('channels', None)
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self.titles = kwargs.get('titles', [])
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self.polar = False
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self.type = kwargs.get('type', 'iq')
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self.grid = kwargs.get('grid', False)
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self.pause = kwargs.get('pause', False)
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self.save_code = kwargs.get('save_code', self.CODE)
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self.throttle = kwargs.get('throttle', 0)
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self.exp_code = kwargs.get('exp_code', None)
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self.plot_server = kwargs.get('plot_server', False)
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self.sender_period = kwargs.get('sender_period', 60)
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self.tag = kwargs.get('tag', '')
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self.height_index = kwargs.get('height_index', None)
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self.__throttle_plot = apply_throttle(self.throttle)
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self.data = PlotterData(
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self.CODE, self.throttle, self.exp_code, self.localtime, self.buffering, snr=self.showSNR)
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if self.plot_server:
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if not self.plot_server.startswith('tcp://'):
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self.plot_server = 'tcp://{}'.format(self.plot_server)
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log.success(
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'Sending to server: {}'.format(self.plot_server),
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self.name
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)
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def __setup_plot(self):
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'''
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Common setup for all figures, here figures and axes are created
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'''
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self.setup()
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self.time_label = 'LT' if self.localtime else 'UTC'
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if self.width is None:
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self.width = 8
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self.figures = []
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self.axes = []
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self.cb_axes = []
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self.pf_axes = []
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self.cmaps = []
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size = '15%' if self.ncols == 1 else '30%'
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pad = '4%' if self.ncols == 1 else '8%'
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if self.oneFigure:
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if self.height is None:
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self.height = 1.4 * self.nrows + 1
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fig = plt.figure(figsize=(self.width, self.height),
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edgecolor='k',
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facecolor='w')
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self.figures.append(fig)
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for n in range(self.nplots):
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ax = fig.add_subplot(self.nrows, self.ncols,
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n + 1, polar=self.polar)
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ax.tick_params(labelsize=8)
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ax.firsttime = True
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ax.index = 0
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ax.press = None
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self.axes.append(ax)
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if self.showprofile:
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cax = self.__add_axes(ax, size=size, pad=pad)
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cax.tick_params(labelsize=8)
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self.pf_axes.append(cax)
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else:
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if self.height is None:
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self.height = 3
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for n in range(self.nplots):
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fig = plt.figure(figsize=(self.width, self.height),
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edgecolor='k',
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facecolor='w')
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ax = fig.add_subplot(1, 1, 1, polar=self.polar)
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ax.tick_params(labelsize=8)
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ax.firsttime = True
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ax.index = 0
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ax.press = None
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self.figures.append(fig)
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self.axes.append(ax)
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if self.showprofile:
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cax = self.__add_axes(ax, size=size, pad=pad)
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cax.tick_params(labelsize=8)
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self.pf_axes.append(cax)
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for n in range(self.nrows):
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if self.colormaps is not None:
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cmap = plt.get_cmap(self.colormaps[n])
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else:
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cmap = plt.get_cmap(self.colormap)
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cmap.set_bad(self.bgcolor, 1.)
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self.cmaps.append(cmap)
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def __add_axes(self, ax, size='30%', pad='8%'):
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'''
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Add new axes to the given figure
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'''
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divider = make_axes_locatable(ax)
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nax = divider.new_horizontal(size=size, pad=pad)
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ax.figure.add_axes(nax)
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return nax
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def fill_gaps(self, x_buffer, y_buffer, z_buffer):
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'''
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Create a masked array for missing data
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'''
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if x_buffer.shape[0] < 2:
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return x_buffer, y_buffer, z_buffer
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deltas = x_buffer[1:] - x_buffer[0:-1]
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x_median = numpy.median(deltas)
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index = numpy.where(deltas > 5 * x_median)
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if len(index[0]) != 0:
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z_buffer[::, index[0], ::] = self.__missing
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z_buffer = numpy.ma.masked_inside(z_buffer,
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0.99 * self.__missing,
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1.01 * self.__missing)
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return x_buffer, y_buffer, z_buffer
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def decimate(self):
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# dx = int(len(self.x)/self.__MAXNUMX) + 1
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dy = int(len(self.y) / self.decimation) + 1
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# x = self.x[::dx]
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x = self.x
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y = self.y[::dy]
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z = self.z[::, ::, ::dy]
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return x, y, z
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def format(self):
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'''
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Set min and max values, labels, ticks and titles
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'''
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for n, ax in enumerate(self.axes):
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if ax.firsttime:
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if self.xaxis != 'time':
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xmin = self.xmin
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xmax = self.xmax
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else:
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xmin = self.tmin
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xmax = self.tmin + self.xrange*60*60
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ax.xaxis.set_major_formatter(FuncFormatter(self.__fmtTime))
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ax.xaxis.set_major_locator(LinearLocator(9))
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ymin = self.ymin if self.ymin else numpy.nanmin(self.y)
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ymax = self.ymax if self.ymax else numpy.nanmax(self.y)
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ax.set_facecolor(self.bgcolor)
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if self.xscale:
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ax.xaxis.set_major_formatter(FuncFormatter(
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lambda x, pos: '{0:g}'.format(x*self.xscale)))
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if self.yscale:
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ax.yaxis.set_major_formatter(FuncFormatter(
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lambda x, pos: '{0:g}'.format(x*self.yscale)))
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if self.xlabel is not None:
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ax.set_xlabel(self.xlabel)
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if self.ylabel is not None:
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ax.set_ylabel(self.ylabel)
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if self.showprofile:
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self.pf_axes[n].set_ylim(ymin, ymax)
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self.pf_axes[n].set_xlim(self.zmin, self.zmax)
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self.pf_axes[n].set_xlabel('dB')
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self.pf_axes[n].grid(b=True, axis='x')
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[tick.set_visible(False)
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for tick in self.pf_axes[n].get_yticklabels()]
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if self.colorbar:
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ax.cbar = plt.colorbar(
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ax.plt, ax=ax, fraction=0.05, pad=0.02, aspect=10)
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ax.cbar.ax.tick_params(labelsize=8)
|
|
|
ax.cbar.ax.press = None
|
|
|
if self.cb_label:
|
|
|
ax.cbar.set_label(self.cb_label, size=8)
|
|
|
elif self.cb_labels:
|
|
|
ax.cbar.set_label(self.cb_labels[n], size=8)
|
|
|
else:
|
|
|
ax.cbar = None
|
|
|
ax.set_xlim(xmin, xmax)
|
|
|
ax.set_ylim(ymin, ymax)
|
|
|
ax.firsttime = False
|
|
|
if self.grid:
|
|
|
ax.grid(True)
|
|
|
if not self.polar:
|
|
|
ax.set_title('{} {} {}'.format(
|
|
|
self.titles[n],
|
|
|
self.getDateTime(self.data.max_time).strftime(
|
|
|
'%Y-%m-%d %H:%M:%S'),
|
|
|
self.time_label),
|
|
|
size=8)
|
|
|
else:
|
|
|
ax.set_title('{}'.format(self.titles[n]), size=8)
|
|
|
ax.set_ylim(0, 90)
|
|
|
ax.set_yticks(numpy.arange(0, 90, 20))
|
|
|
ax.yaxis.labelpad = 40
|
|
|
|
|
|
if self.firsttime:
|
|
|
for n, fig in enumerate(self.figures):
|
|
|
fig.subplots_adjust(**self.plots_adjust)
|
|
|
self.firsttime = False
|
|
|
|
|
|
def clear_figures(self):
|
|
|
'''
|
|
|
Reset axes for redraw plots
|
|
|
'''
|
|
|
|
|
|
for ax in self.axes+self.pf_axes+self.cb_axes:
|
|
|
ax.clear()
|
|
|
ax.firsttime = True
|
|
|
if hasattr(ax, 'cbar') and ax.cbar:
|
|
|
ax.cbar.remove()
|
|
|
|
|
|
def __plot(self):
|
|
|
'''
|
|
|
Main function to plot, format and save figures
|
|
|
'''
|
|
|
|
|
|
self.plot()
|
|
|
self.format()
|
|
|
|
|
|
for n, fig in enumerate(self.figures):
|
|
|
if self.nrows == 0 or self.nplots == 0:
|
|
|
log.warning('No data', self.name)
|
|
|
fig.text(0.5, 0.5, 'No Data', fontsize='large', ha='center')
|
|
|
fig.canvas.manager.set_window_title(self.CODE)
|
|
|
continue
|
|
|
|
|
|
fig.canvas.manager.set_window_title('{} - {}'.format(self.title,
|
|
|
self.getDateTime(self.data.max_time).strftime('%Y/%m/%d')))
|
|
|
fig.canvas.draw()
|
|
|
if self.show:
|
|
|
fig.show()
|
|
|
figpause(0.01)
|
|
|
|
|
|
if self.save:
|
|
|
self.save_figure(n)
|
|
|
|
|
|
if self.plot_server:
|
|
|
self.send_to_server()
|
|
|
|
|
|
def save_figure(self, n):
|
|
|
'''
|
|
|
'''
|
|
|
|
|
|
if (self.data.tm - self.save_time) < self.sender_period:
|
|
|
return
|
|
|
|
|
|
self.save_time = self.data.tm
|
|
|
|
|
|
fig = self.figures[n]
|
|
|
|
|
|
figname = os.path.join(
|
|
|
self.save,
|
|
|
self.save_code,
|
|
|
'{}_{}.png'.format(
|
|
|
self.save_code,
|
|
|
self.getDateTime(self.data.max_time).strftime(
|
|
|
'%Y%m%d_%H%M%S'
|
|
|
),
|
|
|
)
|
|
|
)
|
|
|
log.log('Saving figure: {}'.format(figname), self.name)
|
|
|
if not os.path.isdir(os.path.dirname(figname)):
|
|
|
os.makedirs(os.path.dirname(figname))
|
|
|
fig.savefig(figname)
|
|
|
|
|
|
if self.throttle == 0:
|
|
|
figname = os.path.join(
|
|
|
self.save,
|
|
|
'{}_{}.png'.format(
|
|
|
self.save_code,
|
|
|
self.getDateTime(self.data.min_time).strftime(
|
|
|
'%Y%m%d'
|
|
|
),
|
|
|
)
|
|
|
)
|
|
|
fig.savefig(figname)
|
|
|
|
|
|
def send_to_server(self):
|
|
|
'''
|
|
|
'''
|
|
|
|
|
|
interval = self.data.tm - self.sender_time
|
|
|
if interval < self.sender_period:
|
|
|
return
|
|
|
|
|
|
self.sender_time = self.data.tm
|
|
|
|
|
|
attrs = ['titles', 'zmin', 'zmax', 'tag', 'ymin', 'ymax']
|
|
|
for attr in attrs:
|
|
|
value = getattr(self, attr)
|
|
|
if value:
|
|
|
if isinstance(value, (numpy.float32, numpy.float64)):
|
|
|
value = round(float(value), 2)
|
|
|
self.data.meta[attr] = value
|
|
|
if self.colormap == 'jet':
|
|
|
self.data.meta['colormap'] = 'Jet'
|
|
|
elif 'RdBu' in self.colormap:
|
|
|
self.data.meta['colormap'] = 'RdBu'
|
|
|
else:
|
|
|
self.data.meta['colormap'] = 'Viridis'
|
|
|
self.data.meta['interval'] = int(interval)
|
|
|
|
|
|
try:
|
|
|
self.sender_queue.put(self.data.tm, block=False)
|
|
|
except:
|
|
|
tm = self.sender_queue.get()
|
|
|
self.sender_queue.put(self.data.tm)
|
|
|
|
|
|
while True:
|
|
|
if self.sender_queue.empty():
|
|
|
break
|
|
|
tm = self.sender_queue.get()
|
|
|
try:
|
|
|
msg = self.data.jsonify(tm, self.save_code, self.plot_type)
|
|
|
except:
|
|
|
continue
|
|
|
self.socket.send_string(msg)
|
|
|
socks = dict(self.poll.poll(5000))
|
|
|
if socks.get(self.socket) == zmq.POLLIN:
|
|
|
reply = self.socket.recv_string()
|
|
|
if reply == 'ok':
|
|
|
log.log("Response from server ok", self.name)
|
|
|
time.sleep(0.2)
|
|
|
continue
|
|
|
else:
|
|
|
log.warning(
|
|
|
"Malformed reply from server: {}".format(reply), self.name)
|
|
|
else:
|
|
|
log.warning(
|
|
|
"No response from server, retrying...", self.name)
|
|
|
self.sender_queue.put(self.data.tm)
|
|
|
self.socket.setsockopt(zmq.LINGER, 0)
|
|
|
self.socket.close()
|
|
|
self.poll.unregister(self.socket)
|
|
|
time.sleep(0.1)
|
|
|
self.socket = self.context.socket(zmq.REQ)
|
|
|
self.socket.connect(self.plot_server)
|
|
|
self.poll.register(self.socket, zmq.POLLIN)
|
|
|
break
|
|
|
|
|
|
def setup(self):
|
|
|
'''
|
|
|
This method should be implemented in the child class, the following
|
|
|
attributes should be set:
|
|
|
|
|
|
self.nrows: number of rows
|
|
|
self.ncols: number of cols
|
|
|
self.nplots: number of plots (channels or pairs)
|
|
|
self.ylabel: label for Y axes
|
|
|
self.titles: list of axes title
|
|
|
|
|
|
'''
|
|
|
raise NotImplementedError
|
|
|
|
|
|
def plot(self):
|
|
|
'''
|
|
|
Must be defined in the child class
|
|
|
'''
|
|
|
raise NotImplementedError
|
|
|
|
|
|
def run(self, dataOut, **kwargs):
|
|
|
'''
|
|
|
Main plotting routine
|
|
|
'''
|
|
|
|
|
|
if self.isConfig is False:
|
|
|
self.__setup(**kwargs)
|
|
|
|
|
|
if self.localtime:
|
|
|
self.getDateTime = datetime.datetime.fromtimestamp
|
|
|
else:
|
|
|
self.getDateTime = datetime.datetime.utcfromtimestamp
|
|
|
|
|
|
self.data.setup()
|
|
|
self.isConfig = True
|
|
|
if self.plot_server:
|
|
|
self.context = zmq.Context()
|
|
|
self.socket = self.context.socket(zmq.REQ)
|
|
|
self.socket.connect(self.plot_server)
|
|
|
self.poll = zmq.Poller()
|
|
|
self.poll.register(self.socket, zmq.POLLIN)
|
|
|
|
|
|
tm = getattr(dataOut, self.attr_time)
|
|
|
|
|
|
if self.data and 'time' in self.xaxis and (tm - self.tmin) >= self.xrange*60*60:
|
|
|
self.save_counter = self.save_period
|
|
|
self.__plot()
|
|
|
self.tmin += self.xrange*60*60
|
|
|
self.data.setup()
|
|
|
self.clear_figures()
|
|
|
|
|
|
self.data.update(dataOut, tm)
|
|
|
|
|
|
if self.isPlotConfig is False:
|
|
|
self.__setup_plot()
|
|
|
self.isPlotConfig = True
|
|
|
if self.xaxis == 'time':
|
|
|
dt = self.getDateTime(tm)
|
|
|
if self.xmin is None:
|
|
|
self.tmin = tm
|
|
|
self.xmin = dt.hour
|
|
|
minutes = (self.xmin-int(self.xmin)) * 60
|
|
|
seconds = (minutes - int(minutes)) * 60
|
|
|
self.tmin = (dt.replace(hour=int(self.xmin), minute=int(minutes), second=int(seconds)) -
|
|
|
datetime.datetime(1970, 1, 1)).total_seconds()
|
|
|
if self.localtime:
|
|
|
self.tmin += time.timezone
|
|
|
|
|
|
if self.xmin is not None and self.xmax is not None:
|
|
|
self.xrange = self.xmax - self.xmin
|
|
|
|
|
|
if self.throttle == 0:
|
|
|
self.__plot()
|
|
|
else:
|
|
|
self.__throttle_plot(self.__plot)#, coerce=coerce)
|
|
|
|
|
|
def close(self):
|
|
|
|
|
|
if self.data and not self.data.flagNoData:
|
|
|
self.save_counter = self.save_period
|
|
|
self.__plot()
|
|
|
if self.data and not self.data.flagNoData and self.pause:
|
|
|
figpause(10)
|
|
|
|
|
|
|
