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densitymap_image.py
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densitymap_image.py
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import logging
from typing import Optional, Tuple
import numpy
from silx.utils.proxy import docstring
from silx.gui import qt
from silx.gui.plot import items, PlotWindow
_logger = logging.getLogger(__name__)
class Plot(PlotWindow):
def getPixelSizeInData(self, axis="left"):
"""Returns the size of a pixel in plot data coordinates
:param str axis: Y axis to use in: 'left' (default), 'right'
:return:
Size (width, height) of a Qt pixel in data coordinates.
Size is None if it cannot be computed
:rtype: Union[List[float],None]
"""
assert axis in ("left", "right")
xaxis = self.getXAxis()
yaxis = self.getYAxis(axis)
if xaxis.getScale() != items.Axis.LINEAR or yaxis.getScale() != items.Axis.LINEAR:
raise RuntimeError("Only available with linear axes")
xmin, xmax = xaxis.getLimits()
ymin, ymax = yaxis.getLimits()
width, height = self.getPlotBoundsInPixels()[2:]
if width == 0 or height == 0:
return None
else:
return (xmax - xmin) / width, (ymax - ymin) / height
class ImageDensityMap(items.ImageBase, items.ColormapMixIn):
"""Item displaying an image as a density map."""
def __init__(self):
items.ImageBase.__init__(self, numpy.zeros((0, 0), dtype=numpy.float32))
items.ColormapMixIn.__init__(self)
self.__cacheLODData = {}
self.__currentLOD = 0, 0
def _addBackendRenderer(self, backend):
"""Update backend renderer"""
plot = self.getPlot()
assert plot is not None
if not self._isPlotLinear(plot):
# Do not render with non linear scales
return None
data = self.getData(copy=False)
if data.size == 0:
return None # No data to display
colormap = self.getColormap()
if colormap.isAutoscale():
# Avoid backend to compute autoscale: use item cache
colormap = colormap.copy()
colormap.setVRange(*colormap.getColormapRange(self))
# Aggregate data according to level of details
# TODO:
# - pre-compute pyramid of images?
# - allow to set aggregator
# - make a true histogram?
lodx, lody = self._getLevelOfDetails()
if (lodx, lody) not in self.__cacheLODData:
height, width = data.shape
self.__cacheLODData[(lodx, lody)] = numpy.max(
data[:(height//lody)*lody, :(width//lodx)*lodx].reshape(
height // lody, lody, width // lodx, lodx),
axis=(1, 3))
self.__currentLOD = lodx, lody
aggregatedData = self.__cacheLODData[self.__currentLOD]
sx, sy = self.getScale()
aggregatedScale = sx * lodx, sy * lody
return backend.addImage(aggregatedData,
origin=self.getOrigin(),
scale=aggregatedScale,
colormap=colormap,
alpha=self.getAlpha())
def _getLevelOfDetails(self) -> Tuple[int,int]:
"""Return current level of details the image is displayed with."""
plot = self.getPlot()
if plot is None or not self._isPlotLinear(plot):
return 1, 1 # Fallback to bas LOD
sx, sy = self.getScale()
xUnitPerPixel, yUnitPerPixel = plot.getPixelSizeInData()
lodx = max(1, int(numpy.ceil(xUnitPerPixel / sx)))
lody = max(1, int(numpy.ceil(yUnitPerPixel / sy)))
return lodx, lody
def getRgbaImageData(self, copy=True):
"""Get the displayed RGB(A) image
:returns: Array of uint8 of shape (height, width, 4)
:rtype: numpy.ndarray
"""
return self.getColormap().applyToData(self)
def setData(self, data, copy=True):
""""Set the image data.
:param numpy.ndarray data: Data array with 2 dimensions (h, w)
:param bool copy: True (Default) to get a copy,
False to use internal representation (do not modify!)
"""
data = numpy.array(data, copy=copy)
assert data.ndim == 2
if data.dtype.kind == 'b':
_logger.warning(
'Converting boolean image to int8 to plot it.')
data = numpy.array(data, copy=False, dtype=numpy.int8)
elif numpy.iscomplexobj(data):
_logger.warning(
'Converting complex image to absolute value to plot it.')
data = numpy.absolute(data)
self.__cacheLODData = {} # Reset cache
super().setData(data)
def _updated(self, event=None, checkVisibility=True):
# Synchronizes colormapped data if changed
if event in (items.ItemChangedType.DATA, items.ItemChangedType.MASK):
self._setColormappedData(
self.getValueData(copy=False),
copy=False)
super()._updated(event=event, checkVisibility=checkVisibility)
@docstring(items.ImageBase)
def _setPlot(self, plot):
"""Refresh image when plot limits change"""
previousPlot = self.getPlot()
if previousPlot is not None:
for axis in (previousPlot.getXAxis(), previousPlot.getYAxis()):
axis.sigLimitsChanged.disconnect(self.__plotLimitsChanged)
super()._setPlot(plot)
if plot is not None:
for axis in (plot.getXAxis(), plot.getYAxis()):
axis.sigLimitsChanged.connect(self.__plotLimitsChanged)
def __plotLimitsChanged(self):
"""Trigger update if level of details has changed"""
if self.__currentLOD != self._getLevelOfDetails():
self._updated()
if __name__ == "__main__":
import sys
from silx.gui import qt
from silx.io import get_data
import numpy
if len(sys.argv) > 1:
url = sys.argv[1]
if ':' not in url:
url = 'fabio:' + url
image = get_data(url)
height, width = image.shape
else: # Dummy data
height, width = 4096, 4096
npeaks = min(height, width)
image = numpy.random.random((height, width))
image[numpy.random.randint(0, height, npeaks), numpy.random.randint(0, width, npeaks)] = 10000.
qt.QApplication.setAttribute(qt.Qt.AA_ShareOpenGLContexts, True)
qt.QApplication.setAttribute(qt.Qt.AA_EnableHighDpiScaling, True)
app = qt.QApplication([])
w = Plot(backend="gl")
#w.getYAxis().setInverted(True)
w.setKeepDataAspectRatio(True)
colormap = w.getDefaultColormap()
colormap.setName('viridis')
item = ImageDensityMap()
item.setName("density map")
item.setData(image)
item.setColormap(colormap)
w.addItem(item)
item = items.ImageData()
item.setName("image data")
item.setData(image)
item.setColormap(colormap)
item.setOrigin((width, height))
w.addItem(item)
w.resetZoom()
w.show()
app.exec_()