guiqwt.image

guiqwt

Source code for guiqwt.image

#
# Copyright © 2009-2010 CEA
# Pierre Raybaut
# Licensed under the terms of the CECILL License
# (see guiqwt/__init__.py for details)

# pylint: disable=C0103

"""
guiqwt.image
------------

The `image` module provides image-related objects and functions:

    * :py:class:`guiqwt.image.ImagePlot`: a 2D curve and image plotting widget,
      derived from :py:class:`guiqwt.curve.CurvePlot`
    * :py:class:`guiqwt.image.ImageItem`: simple images
    * :py:class:`guiqwt.image.TrImageItem`: images supporting arbitrary
      affine transform
    * :py:class:`guiqwt.image.XYImageItem`: images with non-linear X/Y axes
    * :py:class:`guiqwt.image.Histogram2DItem`: 2D histogram
    * :py:class:`guiqwt.image.ImageFilterItem`: rectangular filtering area
      that may be resized and moved onto the processed image
    * :py:func:`guiqwt.image.assemble_imageitems`
    * :py:func:`guiqwt.image.get_plot_source_rect`
    * :py:func:`guiqwt.image.get_image_from_plot`

``ImageItem``, ``TrImageItem``, ``XYImageItem``, ``Histogram2DItem`` and
``ImageFilterItem`` objects are plot items (derived from QwtPlotItem) that
may be displayed on a :py:class:`guiqwt.image.ImagePlot` plotting widget.

.. seealso::

    Module :py:mod:`guiqwt.curve`
        Module providing curve-related plot items and plotting widgets

    Module :py:mod:`guiqwt.plot`
        Module providing ready-to-use curve and image plotting widgets and
        dialog boxes

Examples
~~~~~~~~

Create a basic image plotting widget:
    * before creating any widget, a `QApplication` must be instantiated (that
      is a `Qt` internal requirement):

>>> import guidata
>>> app = guidata.qapplication()

    * that is mostly equivalent to the following (the only difference is that
      the `guidata` helper function also installs the `Qt` translation
      corresponding to the system locale):

>>> from PyQt4.QtGui import QApplication
>>> app = QApplication([])

    * now that a `QApplication` object exists, we may create the plotting
      widget:

>>> from guiqwt.image import ImagePlot
>>> plot = ImagePlot(title="Example")

Generate random data for testing purpose:

>>> import numpy as np
>>> data = np.random.rand(100, 100)

Create a simple image item:
    * from the associated plot item class (e.g. `XYImageItem` to create
      an image with non-linear X/Y axes): the item properties are then
      assigned by creating the appropriate style parameters object
      (e.g. :py:class:`guiqwt.styles.ImageParam)

>>> from guiqwt.curve import ImageItem
>>> from guiqwt.styles import ImageParam
>>> param = ImageParam()
>>> param.label = 'My image'
>>> image = ImageItem(param)
>>> image.set_data(data)

    * or using the `plot item builder` (see :py:func:`guiqwt.builder.make`):

>>> from guiqwt.builder import make
>>> image = make.image(data, title='My image')

Attach the image to the plotting widget:

>>> plot.add_item(image)

Display the plotting widget:

>>> plot.show()
>>> app.exec_()

Reference
~~~~~~~~~

.. autoclass:: ImagePlot
   :members:
   :inherited-members:
.. autoclass:: BaseImageItem
   :members:
   :inherited-members:
.. autoclass:: RawImageItem
   :members:
   :inherited-members:
.. autoclass:: ImageItem
   :members:
   :inherited-members:
.. autoclass:: TrImageItem
   :members:
   :inherited-members:
.. autoclass:: XYImageItem
   :members:
   :inherited-members:
.. autoclass:: RGBImageItem
   :members:
   :inherited-members:
.. autoclass:: MaskedImageItem
   :members:
   :inherited-members:
.. autoclass:: ImageFilterItem
   :members:
   :inherited-members:
.. autoclass:: XYImageFilterItem
   :members:
   :inherited-members:
.. autoclass:: Histogram2DItem
   :members:
   :inherited-members:

.. autofunction:: assemble_imageitems
.. autofunction:: get_plot_qrect
.. autofunction:: get_image_from_plot
"""

#FIXME: traceback in scaler when adding here 'from __future__ import division'

import sys
import os
import os.path as osp
from math import fabs

import numpy as np

from guidata.qt.QtGui import QColor, QImage
from guidata.qt.QtCore import QRectF, QPointF, QRect, QPoint

from guidata.utils import assert_interfaces_valid, update_dataset

# Local imports
from guiqwt.transitional import QwtPlotItem, QwtDoubleInterval
from guiqwt.config import _
from guiqwt.interfaces import (IBasePlotItem, IBaseImageItem, IHistDataSource,
                               IImageItemType, ITrackableItemType,
                               IColormapImageItemType, IVoiImageItemType,
                               ISerializableType, ICSImageItemType,
                               IExportROIImageItemType, IStatsImageItemType)
from guiqwt.curve import CurvePlot, CurveItem, PolygonMapItem
from guiqwt.colormap import FULLRANGE, get_cmap, get_cmap_name
from guiqwt.styles import (ImageParam, ImageAxesParam, TrImageParam,
                           RGBImageParam, MaskedImageParam, XYImageParam,
                           RawImageParam)
from guiqwt.shapes import RectangleShape
from guiqwt import io
from guiqwt.signals import SIG_ITEM_MOVED, SIG_LUT_CHANGED, SIG_MASK_CHANGED
from guiqwt.geometry import translate, scale, rotate, colvector
from guiqwt.baseplot import canvas_to_axes, axes_to_canvas

stderr = sys.stderr
try:
    from guiqwt._ext import hist2d, hist2d_func
    from guiqwt._scaler import (_histogram, _scale_tr, _scale_xy, _scale_rect,
                                _scale_quads,
                                INTERP_NEAREST, INTERP_LINEAR, INTERP_AA)
except ImportError:
    print >>sys.stderr, ("Module 'guiqwt.image':"
                         " missing fortran or C extension")
    print >>sys.stderr, ("try running :"
                         "python setup.py build_ext --inplace -c mingw32" )
    raise

LUT_SIZE = 1024
LUT_MAX  = float(LUT_SIZE-1)

def _nanmin(data):
    if data.dtype.name in ("float32","float64", "float128"):
        return np.nanmin(data)
    else:
        return data.min()

def _nanmax(data):
    if data.dtype.name in ("float32","float64", "float128"):
        return np.nanmax(data)
    else:
        return data.max()


def pixelround(x, corner=None):
    """
    Return pixel index (int) from pixel coordinate (float)
    corner: None (not a corner), 'TL' (top-left corner),
    'BR' (bottom-right corner)
    """
    assert corner is None or corner in ('TL', 'BR')
    if corner is None:
        return np.floor(x)
    elif corner == 'BR':
        return np.ceil(x)
    elif corner == 'TL':
        return np.floor(x)


#==============================================================================
# Base image item class
#==============================================================================
class BaseImageItem(QwtPlotItem):
[docs] __implements__ = (IBasePlotItem, IBaseImageItem, IHistDataSource, IVoiImageItemType, ICSImageItemType, IStatsImageItemType, IExportROIImageItemType) _can_select = True _can_resize = False _can_move = False _can_rotate = False _readonly = False _private = False def __init__(self, data=None, param=None): super(BaseImageItem, self).__init__() self.bg_qcolor = QColor() self.bounds = QRectF() # BaseImageItem needs: # param.background # param.alpha_mask # param.alpha # param.colormap if param is None: param = self.get_default_param() self.imageparam = param self.selected = False self.data = None self.min = 0.0 self.max = 1.0 self.cmap_table = None self.cmap = None self.colormap_axis = None self._offscreen = np.array((1, 1), np.uint32) # Linear interpolation is the default interpolation algorithm: # it's almost as fast as 'nearest pixel' method but far smoother self.interpolate = None self.set_interpolation(INTERP_LINEAR) x1, y1 = self.bounds.left(), self.bounds.top() x2, y2 = self.bounds.right(), self.bounds.bottom() self.border_rect = RectangleShape(x1, y1, x2, y2) self.border_rect.set_style("plot", "shape/imageborder") # A, B, Background, Colormap self.lut = (1.0, 0.0, None, np.zeros((LUT_SIZE, ), np.uint32)) self.set_lut_range([0., 255.]) self.setItemAttribute(QwtPlotItem.AutoScale) self.setItemAttribute(QwtPlotItem.Legend, True) self._filename = None # The file this image comes from self.histogram_cache = None if data is not None: self.set_data(data) self.imageparam.update_image(self) #---- Public API ---------------------------------------------------------- def get_default_param(self):
[docs] """Return instance of the default imageparam DataSet""" raise NotImplementedError def set_filename(self, fname):
self._filename = fname def get_filename(self): fname = self._filename if fname is not None and not osp.isfile(fname): other_try = osp.join(os.getcwdu(), osp.basename(fname)) if osp.isfile(other_try): self.set_filename(other_try) fname = other_try return fname def get_filter(self, filterobj, filterparam):
[docs] """Provides a filter object over this image's content""" raise NotImplementedError def get_pixel_coordinates(self, xplot, yplot):
[docs] """ Return (image) pixel coordinates Transform the plot coordinates (arbitrary plot Z-axis unit) into the image coordinates (pixel unit) Rounding is necessary to obtain array indexes from these coordinates """ return xplot, yplot def get_plot_coordinates(self, xpixel, ypixel):
[docs] """ Return plot coordinates Transform the image coordinates (pixel unit) into the plot coordinates (arbitrary plot Z-axis unit) """ return xpixel, ypixel def get_closest_indexes(self, x, y, corner=None):
[docs] """ Return closest image pixel indexes corner: None (not a corner), 'TL' (top-left corner), 'BR' (bottom-right corner) """ x, y = self.get_pixel_coordinates(x, y) i_max = self.data.shape[1]-1 j_max = self.data.shape[0]-1 if corner == 'BR': i_max += 1 j_max += 1 i = max([0, min([i_max, int(pixelround(x, corner))])]) j = max([0, min([j_max, int(pixelround(y, corner))])]) return i, j def get_closest_index_rect(self, x0, y0, x1, y1):
[docs] """ Return closest image rectangular pixel area index bounds Avoid returning empty rectangular area (return 1x1 pixel area instead) Handle reversed/not-reversed Y-axis orientation """ ix0, iy0 = self.get_closest_indexes(x0, y0, corner='TL') ix1, iy1 = self.get_closest_indexes(x1, y1, corner='BR') if ix0 > ix1: ix1, ix0 = ix0, ix1 if iy0 > iy1: iy1, iy0 = iy0, iy1 if ix0 == ix1: ix1 += 1 if iy0 == iy1: iy1 += 1 return ix0, iy0, ix1, iy1 def align_rectangular_shape(self, shape):
[docs] """Align rectangular shape to image pixels""" ix0, iy0, ix1, iy1 = self.get_closest_index_rect(*shape.get_rect()) x0, y0 = self.get_plot_coordinates(ix0, iy0) x1, y1 = self.get_plot_coordinates(ix1, iy1) shape.set_rect(x0, y0, x1, y1) def get_closest_pixel_indexes(self, x, y):
[docs] """ Return closest pixel indexes Instead of returning indexes of an image pixel like the method 'get_closest_indexes', this method returns the indexes of the closest pixel which is not necessarily on the image itself (i.e. indexes may be outside image index bounds: negative or superior than the image dimension) Note: this is *not* the same as retrieving the canvas pixel coordinates (which depends on the zoom level) """ x, y = self.get_pixel_coordinates(x, y) i = int(pixelround(x)) j = int(pixelround(y)) return i, j def get_x_values(self, i0, i1):
return np.arange(i0, i1) def get_y_values(self, j0, j1): return np.arange(j0, j1) def get_data(self, x0, y0, x1=None, y1=None):
[docs] """ Return image data Arguments: x0, y0 [, x1, y1] Return image level at coordinates (x0,y0) If x1,y1 are specified: return image levels (np.ndarray) in rectangular area (x0,y0,x1,y1) """ i0, j0 = self.get_closest_indexes(x0, y0) if x1 is None or y1 is None: return self.data[j0, i0] else: i1, j1 = self.get_closest_indexes(x1, y1) i1 += 1 j1 += 1 return (self.get_x_values(i0, i1), self.get_y_values(j0, j1), self.data[j0:j1, i0:i1]) def get_closest_coordinates(self, x, y):
[docs] """Return closest image pixel coordinates""" return self.get_closest_indexes(x, y) def get_coordinates_label(self, xc, yc):
title = self.title().text() z = self.get_data(xc, yc) return "%s:<br>x = %d<br>y = %d<br>z = %g" % (title, xc, yc, z) def set_background_color(self, qcolor): #mask = np.uint32(255*self.imageparam.alpha+0.5).clip(0,255) << 24 self.bg_qcolor = qcolor a, b, _bg, cmap = self.lut if qcolor is None: self.lut = (a, b, None, cmap) else: self.lut = (a, b, np.uint32(QColor(qcolor).rgb() & 0xffffff), cmap) def set_color_map(self, name_or_table): if name_or_table is self.cmap_table: # This avoids rebuilding the LUT all the time return if isinstance(name_or_table, str): table = get_cmap(name_or_table) else: table = name_or_table self.cmap_table = table self.cmap = table.colorTable(FULLRANGE) cmap_a = self.lut[3] alpha = self.imageparam.alpha alpha_mask = self.imageparam.alpha_mask for i in range(LUT_SIZE): if alpha_mask: pix_alpha = alpha*(i/float(LUT_SIZE-1)) else: pix_alpha = alpha alpha_channel = np.uint32(255*pix_alpha+0.5).clip(0, 255) << 24 cmap_a[i] = np.uint32((table.rgb(FULLRANGE, i/LUT_MAX)) & 0xffffff) | alpha_channel plot = self.plot() if plot: plot.update_colormap_axis(self) def get_color_map(self): return self.cmap_table def get_color_map_name(self): return get_cmap_name(self.get_color_map()) def set_interpolation(self, interp_mode, size=None):
[docs] """ Set image interpolation mode interp_mode: INTERP_NEAREST, INTERP_LINEAR, INTERP_AA size (integer): (for anti-aliasing only) AA matrix size """ if interp_mode in (INTERP_NEAREST, INTERP_LINEAR): self.interpolate = (interp_mode,) if interp_mode == INTERP_AA: aa = np.ones((size, size), self.data.dtype) self.interpolate = (interp_mode, aa) def get_interpolation(self):
[docs] """Get interpolation mode""" return self.interpolate def set_lut_range(self, lut_range):
[docs] """ Set LUT transform range *lut_range* is a tuple: (min, max) """ self.min, self.max = lut_range _a, _b, bg, cmap = self.lut if self.max == self.min: self.lut = (LUT_MAX, self.min, bg, cmap) else: self.lut = (LUT_MAX/(self.max-self.min), -LUT_MAX*self.min/(self.max-self.min), bg, cmap) def get_lut_range(self):
[docs] """Return the LUT transform range tuple: (min, max)""" return self.min, self.max def get_lut_range_full(self):
[docs] """Return full dynamic range""" return _nanmin(self.data), _nanmax(self.data) def get_lut_range_max(self):
[docs] """Get maximum range for this dataset""" kind = self.data.dtype.kind if kind in np.typecodes['AllFloat']: info = np.finfo(kind) else: info = np.iinfo(kind) return info.min, info.max def update_border(self):
[docs] """Update image border rectangle to fit image shape""" bounds = self.boundingRect().getCoords() self.border_rect.set_rect(*bounds) def draw_border(self, painter, xMap, yMap, canvasRect):
[docs] """Draw image border rectangle""" self.border_rect.draw(painter, xMap, yMap, canvasRect) def draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap):
[docs] """ Draw image with painter on canvasRect <!> src_rect and dst_rect are coord tuples (xleft, ytop, xright, ybottom) """ dest = _scale_rect(self.data, src_rect, self._offscreen, dst_rect, self.lut, self.interpolate) qrect = QRectF(QPointF(dest[0], dest[1]), QPointF(dest[2], dest[3])) painter.drawImage(qrect, self._image, qrect) def export_roi(self, src_rect, dst_rect, dst_image,
[docs] apply_lut=False, apply_interpolation=False, original_resolution=False): """Export Region Of Interest to array""" if apply_lut: a, b, _bg, _cmap = self.lut else: a, b = 1., 0. interp = self.interpolate if apply_interpolation else (INTERP_NEAREST,) _scale_rect(self.data, src_rect, dst_image, dst_rect, (a, b, None), interp) #---- QwtPlotItem API ----------------------------------------------------- def draw(self, painter, xMap, yMap, canvasRect):
x1, y1, x2, y2 = canvasRect.getCoords() i1, i2 = xMap.invTransform(x1), xMap.invTransform(x2) j1, j2 = yMap.invTransform(y1), yMap.invTransform(y2) xl, yt, xr, yb = self.boundingRect().getCoords() dest = (xMap.transform(xl), yMap.transform(yt), xMap.transform(xr)+1, yMap.transform(yb)+1) W = canvasRect.right() H = canvasRect.bottom() if self._offscreen.shape != (H, W): self._offscreen = np.empty((H, W), np.uint32) self._image = QImage(self._offscreen, W, H, QImage.Format_ARGB32) self._image.ndarray = self._offscreen self.notify_new_offscreen() self.draw_image(painter, canvasRect, (i1, j1, i2, j2), dest, xMap, yMap) self.draw_border(painter, xMap, yMap, canvasRect) def boundingRect(self): return self.bounds def notify_new_offscreen(self): # callback for those derived classes who need it pass def setVisible(self, enable): if not enable: self.unselect() # when hiding item, unselect it if enable: self.border_rect.show() else: self.border_rect.hide() QwtPlotItem.setVisible(self, enable) #---- IBasePlotItem API ---------------------------------------------------- def types(self): return (IImageItemType, IVoiImageItemType, IColormapImageItemType, ITrackableItemType, ICSImageItemType, IExportROIImageItemType, IStatsImageItemType, IStatsImageItemType) def set_readonly(self, state):
[docs] """Set object readonly state""" self._readonly = state def is_readonly(self):
[docs] """Return object readonly state""" return self._readonly def set_private(self, state):
[docs] """Set object as private""" self._private = state def is_private(self):
[docs] """Return True if object is private""" return self._private def select(self):
[docs] """Select item""" self.selected = True self.border_rect.select() def unselect(self):
[docs] """Unselect item""" self.selected = False self.border_rect.unselect() def is_empty(self):
[docs] """Return True if item data is empty""" return self.data is None or self.data.size == 0 def set_selectable(self, state):
[docs] """Set item selectable state""" self._can_select = state def set_resizable(self, state):
[docs] """Set item resizable state (or any action triggered when moving an handle, e.g. rotation)""" self._can_resize = state def set_movable(self, state):
[docs] """Set item movable state""" self._can_move = state def set_rotatable(self, state):
[docs] """Set item rotatable state""" self._can_rotate = state def can_select(self):
return self._can_select def can_resize(self): return self._can_resize def can_move(self): return self._can_move def can_rotate(self): return self._can_rotate def hit_test(self, pos): plot = self.plot() ax = self.xAxis() ay = self.yAxis() return self.border_rect.poly_hit_test(plot, ax, ay, pos) def get_item_parameters(self, itemparams): itemparams.add("ShapeParam", self, self.border_rect.shapeparam) def set_item_parameters(self, itemparams): self.border_rect.set_item_parameters(itemparams) def move_local_point_to(self, handle, pos, ctrl=None):
[docs] """Move a handle as returned by hit_test to the new position pos ctrl: True if <Ctrl> button is being pressed, False otherwise""" pass def move_local_shape(self, old_pos, new_pos):
[docs] """Translate the shape such that old_pos becomes new_pos in canvas coordinates""" pass def move_with_selection(self, delta_x, delta_y):
[docs] """ Translate the shape together with other selected items delta_x, delta_y: translation in plot coordinates """ pass #---- IBaseImageItem API -------------------------------------------------- def can_setfullscale(self):
return True def can_sethistogram(self): return False def get_histogram(self, nbins):
[docs] """interface de IHistDataSource""" if self.data is None: return [0,], [0,1] if self.histogram_cache is None \ or nbins != self.histogram_cache[0].shape[0]: #from guidata.utils import tic, toc if True: #tic("histo1") res = np.histogram(self.data, nbins) #toc("histo1") else: #TODO: _histogram is faster, but caching is buggy # in this version #tic("histo2") _min = _nanmin(self.data) _max = _nanmax(self.data) if self.data.dtype in (np.float64, np.float32): bins = np.unique(np.array(np.linspace(_min, _max, nbins+1), dtype=self.data.dtype)) else: bins = np.arange(_min, _max+2, dtype=self.data.dtype) res2 = np.zeros((bins.size+1,), np.uint32) _histogram(self.data.flatten(), bins, res2) #toc("histo2") res = res2[1:-1], bins self.histogram_cache = res else: res = self.histogram_cache return res def __process_cross_section(self, ydata, apply_lut):
if apply_lut: a, b, bg, cmap = self.lut return (ydata*a+b).clip(0, LUT_MAX) else: return ydata def get_stats(self, x0, y0, x1, y1):
[docs] """Return formatted string with stats on image rectangular area (output should be compatible with AnnotatedShape.get_infos)""" ix0, iy0, ix1, iy1 = self.get_closest_index_rect(x0, y0, x1, y1) data = self.data[iy0:iy1, ix0:ix1] xfmt = self.imageparam.xformat yfmt = self.imageparam.yformat zfmt = self.imageparam.zformat return "<br>".join([ u"<b>%s</b>" % self.imageparam.label, u"%sx%s %s" % (self.data.shape[1], self.data.shape[0], str(self.data.dtype)), u"", u"%s ≤ x ≤ %s" % (xfmt % x0, xfmt % x1), u"%s ≤ y ≤ %s" % (yfmt % y0, yfmt % y1), u"%s ≤ z ≤ %s" % (zfmt % data.min(), zfmt % data.max()), u"‹z› = " + zfmt % data.mean(), u"σ(z) = " + zfmt % data.std(), ]) def get_xsection(self, y0, apply_lut=False):
[docs] """Return cross section along x-axis at y=y0""" _ix, iy = self.get_closest_indexes(0, y0) return (self.get_x_values(0, self.data.shape[1]), self.__process_cross_section(self.data[iy, :], apply_lut)) def get_ysection(self, x0, apply_lut=False):
[docs] """Return cross section along y-axis at x=x0""" ix, _iy = self.get_closest_indexes(x0, 0) return (self.get_y_values(0, self.data.shape[0]), self.__process_cross_section(self.data[:, ix], apply_lut)) def get_average_xsection(self, x0, y0, x1, y1, apply_lut=False):
[docs] """Return average cross section along x-axis""" ix0, iy0, ix1, iy1 = self.get_closest_index_rect(x0, y0, x1, y1) ydata = self.data[iy0:iy1, ix0:ix1].mean(axis=0) return (self.get_x_values(ix0, ix1), self.__process_cross_section(ydata, apply_lut)) def get_average_ysection(self, x0, y0, x1, y1, apply_lut=False):
[docs] """Return average cross section along y-axis""" ix0, iy0, ix1, iy1 = self.get_closest_index_rect(x0, y0, x1, y1) ydata = self.data[iy0:iy1, ix0:ix1].mean(axis=1) return (self.get_y_values(iy0, iy1), self.__process_cross_section(ydata, apply_lut)) assert_interfaces_valid(BaseImageItem)
#============================================================================== # Raw Image item (image item without scale) #============================================================================== class RawImageItem(BaseImageItem):
[docs] """ Construct a simple image item * data: 2D NumPy array * param (optional): image parameters (:py:class:`guiqwt.styles.RawImageParam` instance) """ __implements__ = (IBasePlotItem, IBaseImageItem, IHistDataSource, IVoiImageItemType, ISerializableType) #---- BaseImageItem API --------------------------------------------------- def get_default_param(self):
[docs] """Return instance of the default imageparam DataSet""" return RawImageParam(_("Image")) #---- Serialization methods ----------------------------------------------- def __reduce__(self):
fname = self.get_filename() if fname is None: fn_or_data = self.data else: fn_or_data = fname state = self.imageparam, self.get_lut_range(), fn_or_data, self.z() res = ( self.__class__, (), state ) return res def __setstate__(self, state): param, lut_range, fn_or_data, z = state self.imageparam = param if isinstance(fn_or_data, basestring): self.set_filename(fn_or_data) self.load_data() elif fn_or_data is not None: # should happen only with previous API self.set_data(fn_or_data) self.set_lut_range(lut_range) self.setZ(z) self.imageparam.update_image(self) def serialize(self, writer):
[docs] """Serialize object to HDF5 writer""" fname = self.get_filename() load_from_fname = fname is not None data = None if load_from_fname else self.data writer.write(load_from_fname, group_name='load_from_fname') writer.write(fname, group_name='fname') writer.write(data, group_name='Zdata') writer.write(self.get_lut_range(), group_name='lut_range') writer.write(self.z(), group_name='z') self.imageparam.update_param(self) writer.write(self.imageparam, group_name='imageparam') def deserialize(self, reader):
[docs] """Deserialize object from HDF5 reader""" lut_range = reader.read(group_name='lut_range') if reader.read(group_name='load_from_fname'): self.set_filename(reader.read(group_name='fname', func=reader.read_unicode)) self.load_data() else: data = reader.read(group_name='Zdata', func=reader.read_array) self.set_data(data) self.set_lut_range(lut_range) self.setZ(reader.read('z')) self.imageparam = self.get_default_param() reader.read('imageparam', instance=self.imageparam) self.imageparam.update_image(self) #---- Public API ---------------------------------------------------------- def load_data(self, lut_range=None):
[docs] """ Load data from *filename* and eventually apply specified lut_range *filename* has been set using method 'set_filename' """ data = io.imread(self.get_filename(), to_grayscale=True) self.set_data(data, lut_range=lut_range) def set_data(self, data, lut_range=None):
[docs] """ Set Image item data * data: 2D NumPy array * lut_range: LUT range -- tuple (levelmin, levelmax) """ if lut_range is not None: _min, _max = lut_range else: _min, _max = _nanmin(data), _nanmax(data) self.data = data self.histogram_cache = None self.update_bounds() self.update_border() self.set_lut_range([_min, _max]) def update_bounds(self):
if self.data is None: return self.bounds = QRectF(0, 0, self.data.shape[1], self.data.shape[0]) #---- IBasePlotItem API --------------------------------------------------- def types(self): return (IImageItemType, IVoiImageItemType, IColormapImageItemType, ITrackableItemType, ICSImageItemType, ISerializableType, IExportROIImageItemType, IStatsImageItemType) def get_item_parameters(self, itemparams): BaseImageItem.get_item_parameters(self, itemparams) self.imageparam.update_param(self) itemparams.add("ImageParam", self, self.imageparam) def set_item_parameters(self, itemparams): update_dataset(self.imageparam, itemparams.get("ImageParam"), visible_only=True) self.imageparam.update_image(self) BaseImageItem.set_item_parameters(self, itemparams) #---- IBaseImageItem API -------------------------------------------------- def can_setfullscale(self): return True def can_sethistogram(self): return True assert_interfaces_valid(RawImageItem)
#============================================================================== # Image item #============================================================================== class ImageItem(RawImageItem):
[docs] """ Construct a simple image item * data: 2D NumPy array * param (optional): image parameters (:py:class:`guiqwt.styles.ImageParam` instance) """ __implements__ = (IBasePlotItem, IBaseImageItem, IHistDataSource, IVoiImageItemType, IExportROIImageItemType) def __init__(self, data=None, param=None): self.xmin = None self.xmax = None self.ymin = None self.ymax = None super(ImageItem, self).__init__(data=data, param=param) #---- BaseImageItem API --------------------------------------------------- def get_default_param(self):
[docs] """Return instance of the default imageparam DataSet""" return ImageParam(_("Image")) #---- Serialization methods ----------------------------------------------- def __reduce__(self):
fname = self.get_filename() if fname is None: fn_or_data = self.data else: fn_or_data = fname (xmin, xmax), (ymin, ymax) = self.get_xdata(), self.get_ydata() state = (self.imageparam, self.get_lut_range(), fn_or_data, self.z(), xmin, xmax, ymin, ymax) res = ( self.__class__, (), state ) return res def __setstate__(self, state): param, lut_range, fn_or_data, z, xmin, xmax, ymin, ymax = state self.set_xdata(xmin, xmax) self.set_ydata(ymin, ymax) self.imageparam = param if isinstance(fn_or_data, basestring): self.set_filename(fn_or_data) self.load_data() elif fn_or_data is not None: # should happen only with previous API self.set_data(fn_or_data) self.set_lut_range(lut_range) self.setZ(z) self.imageparam.update_image(self) def serialize(self, writer):
[docs] """Serialize object to HDF5 writer""" super(ImageItem, self).serialize(writer) (xmin, xmax), (ymin, ymax) = self.get_xdata(), self.get_ydata() writer.write(xmin, group_name='xmin') writer.write(xmax, group_name='xmax') writer.write(ymin, group_name='ymin') writer.write(ymax, group_name='ymax') def deserialize(self, reader):
[docs] """Deserialize object from HDF5 reader""" super(ImageItem, self).deserialize(reader) for attr in ('xmin', 'xmax', 'ymin', 'ymax'): # Note: do not be tempted to write the symetric code in `serialize` # because calling `get_xdata` and `get_ydata` is necessary setattr(self, attr, reader.read(attr, func=reader.read_float)) #---- Public API ---------------------------------------------------------- def get_xdata(self):
[docs] """Return (xmin, xmax)""" xmin, xmax = self.xmin, self.xmax if xmin is None: xmin = 0. if xmax is None: xmax = self.data.shape[1] return xmin, xmax def get_ydata(self):
[docs] """Return (ymin, ymax)""" ymin, ymax = self.ymin, self.ymax if ymin is None: ymin = 0. if ymax is None: ymax = self.data.shape[0] return ymin, ymax def set_xdata(self, xmin=None, xmax=None):
self.xmin, self.xmax = xmin, xmax def set_ydata(self, ymin=None, ymax=None): self.ymin, self.ymax = ymin, ymax def update_bounds(self): if self.data is None: return (xmin, xmax), (ymin, ymax) = self.get_xdata(), self.get_ydata() self.bounds = QRectF(QPointF(xmin, ymin), QPointF(xmax, ymax)) #---- BaseImageItem API --------------------------------------------------- def get_pixel_coordinates(self, xplot, yplot):
[docs] """Return (image) pixel coordinates (from plot coordinates)""" (xmin, xmax), (ymin, ymax) = self.get_xdata(), self.get_ydata() xpix = self.data.shape[1]*(xplot-xmin)/float(xmax-xmin) ypix = self.data.shape[0]*(yplot-ymin)/float(ymax-ymin) return xpix, ypix def get_plot_coordinates(self, xpixel, ypixel):
[docs] """Return plot coordinates (from image pixel coordinates)""" (xmin, xmax), (ymin, ymax) = self.get_xdata(), self.get_ydata() xplot = xmin+(xmax-xmin)*xpixel/float(self.data.shape[1]) yplot = ymin+(ymax-ymin)*ypixel/float(self.data.shape[0]) return xplot, yplot def get_x_values(self, i0, i1):
xmin, xmax = self.get_xdata() xfunc = lambda index: xmin+(xmax-xmin)*index/float(self.data.shape[1]) return np.linspace(xfunc(i0), xfunc(i1), i1-i0) def get_y_values(self, j0, j1): ymin, ymax = self.get_ydata() yfunc = lambda index: ymin+(ymax-ymin)*index/float(self.data.shape[0]) return np.linspace(yfunc(j0), yfunc(j1), j1-j0) def get_closest_coordinates(self, x, y):
[docs] """Return closest image pixel coordinates""" (xmin, xmax), (ymin, ymax) = self.get_xdata(), self.get_ydata() i, j = self.get_closest_indexes(x, y) xpix = np.linspace(xmin, xmax, self.data.shape[1]+1) ypix = np.linspace(ymin, ymax, self.data.shape[0]+1) return xpix[i], ypix[j] def _rescale_src_rect(self, src_rect):
sxl, syt, sxr, syb = src_rect xl, yt, xr, yb = self.boundingRect().getCoords() H, W = self.data.shape[:2] x0 = W*(sxl-xl)/(xr-xl) x1 = W*(sxr-xl)/(xr-xl) y0 = H*(syt-yt)/(yb-yt) y1 = H*(syb-yt)/(yb-yt) return x0, y0, x1, y1 def draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap): if self.data is None: return src2 = self._rescale_src_rect(src_rect) dest = _scale_rect(self.data, src2, self._offscreen, dst_rect, self.lut, self.interpolate) qrect = QRectF(QPointF(dest[0], dest[1]), QPointF(dest[2], dest[3])) painter.drawImage(qrect, self._image, qrect) def export_roi(self, src_rect, dst_rect, dst_image,
[docs] apply_lut=False, apply_interpolation=False, original_resolution=False): """Export Region Of Interest to array""" if apply_lut: a, b, _bg, _cmap = self.lut else: a, b = 1., 0. interp = self.interpolate if apply_interpolation else (INTERP_NEAREST,) _scale_rect(self.data, self._rescale_src_rect(src_rect), dst_image, dst_rect, (a, b, None), interp) assert_interfaces_valid(ImageItem)
#============================================================================== # QuadGrid item #============================================================================== class QuadGridItem(RawImageItem): """ Construct a QuadGrid image * X, Y, Z: A structured grid of quadrilaterals each quad is defined by (X[i], Y[i]), (X[i], Y[i+1]), (X[i+1], Y[i+1]), (X[i+1], Y[i]) * param (optional): image parameters (ImageParam instance) """ __implements__ = (IBasePlotItem, IBaseImageItem, IHistDataSource, IVoiImageItemType) def __init__(self, X, Y, Z, param=None): assert X is not None assert Y is not None assert Z is not None self.X = X self.Y = Y assert X.shape == Y.shape assert Z.shape == X.shape super(QuadGridItem, self).__init__(Z, param) self.set_data(Z) self.grid = 1 self.interpolate = (0, 0.5, 0.5) self.imageparam.update_image(self) #---- BaseImageItem API --------------------------------------------------- def get_default_param(self): """Return instance of the default imageparam DataSet""" return QuadGridParam(_("Quadrilaterals")) def types(self): return (IImageItemType, IVoiImageItemType, IColormapImageItemType, ITrackableItemType) def update_bounds(self): xmin = self.X.min() xmax = self.X.max() ymin = self.Y.min() ymax = self.Y.max() self.bounds = QRectF(xmin, ymin, xmax-xmin, ymax-ymin) def set_data(self, data, X=None, Y=None, lut_range=None): """ Set Image item data * data: 2D NumPy array * lut_range: LUT range -- tuple (levelmin, levelmax) """ if lut_range is not None: _min, _max = lut_range else: _min, _max = _nanmin(data), _nanmax(data) self.data = data self.histogram_cache = None if X is not None: assert Y is not None self.X = X self.Y = Y self.update_bounds() self.update_border() self.set_lut_range([_min, _max]) def draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap): self._offscreen[...] = np.uint32(0) dest = _scale_quads(self.X, self.Y, self.data, src_rect, self._offscreen, dst_rect, self.lut, self.interpolate, self.grid) qrect = QRectF(QPointF(dest[0], dest[1]), QPointF(dest[2], dest[3])) painter.drawImage(qrect, self._image, qrect) xl, yt, xr, yb = dest self._offscreen[yt:yb,xl:xr] = 0 def notify_new_offscreen(self): # we always ensure the offscreen is clean before drawing self._offscreen[...] = 0 assert_interfaces_valid(QuadGridItem) #============================================================================== # Image with a custom linear transform #============================================================================== class TrImageItem(RawImageItem):
[docs] """ Construct a transformable image item * data: 2D NumPy array * param (optional): image parameters (:py:class:`guiqwt.styles.TrImageParam` instance) """ __implements__ = (IBasePlotItem, IBaseImageItem, IExportROIImageItemType) _can_select = True _can_resize = True _can_rotate = True _can_move = True def __init__(self, data=None, param=None): self.tr = np.eye(3, dtype=float) self.itr = np.eye(3, dtype=float) self.points = np.array([ [0, 0, 2, 2], [0, 2, 2, 0], [1, 1, 1, 1] ], float) super(TrImageItem, self).__init__(data, param) #---- BaseImageItem API --------------------------------------------------- def get_default_param(self):
[docs] """Return instance of the default imageparam DataSet""" return TrImageParam(_("Image")) #---- Public API ---------------------------------------------------------- def set_transform(self, x0, y0, angle, dx=1.0, dy=1.0,
hflip=False, vflip=False): self.imageparam.set_transform(x0, y0, angle, dx, dy, hflip, vflip) if self.data is None: return ni, nj = self.data.shape rot = rotate(-angle) tr1 = translate(nj/2.+0.5, ni/2.+0.5) xflip = -1. if hflip else 1. yflip = -1. if vflip else 1. sc = scale(xflip/dx, yflip/dy) tr2 = translate(-x0, -y0) self.tr = tr1*sc*rot*tr2 self.itr = self.tr.I self.compute_bounds() def get_transform(self): return self.imageparam.get_transform() def debug_transform(self, pt): x0, y0, angle, dx, dy, _hflip, _vflip = self.get_transform() ni, nj = self.data.shape rot = rotate(-angle) tr1 = translate(ni/2.+0.5, nj/2.+0.5) sc = scale(dx, dy) tr2 = translate(-x0, -y0) p1 = tr1.I*pt p2 = rot.I*pt p3 = sc.I*pt p4 = tr2.I*pt print "src=", pt.T print "tr1:", p1.T print "tr1+rot:", p2.T print "tr1+rot+sc:", p3.T print "tr1+rot+tr2:", p4.T def set_crop(self, left, top, right, bottom): self.imageparam.set_crop(left, top, right, bottom) def get_crop(self): return self.imageparam.get_crop() def get_crop_coordinates(self):
[docs] """Return crop rectangle coordinates""" tpos = np.array(np.dot(self.itr, self.points)) xmin, ymin, _ = tpos.min(axis=1).flatten() xmax, ymax, _ = tpos.max(axis=1).flatten() left, top, right, bottom = self.imageparam.get_crop() return (xmin+left, ymin+top, xmax-right, ymax-bottom) def compute_bounds(self):
x0, y0, x1, y1 = self.get_crop_coordinates() self.bounds = QRectF(QPointF(x0, y0), QPointF(x1, y1)) self.update_border() #--- RawImageItem API ----------------------------------------------------- def set_data(self, data, lut_range=None): RawImageItem.set_data(self, data, lut_range) ni, nj = self.data.shape self.points = np.array([[0, 0, nj, nj], [0, ni, ni, 0], [1, 1, 1, 1]], float) self.compute_bounds() #--- BaseImageItem API ---------------------------------------------------- def get_filter(self, filterobj, filterparam):
[docs] """Provides a filter object over this image's content""" raise NotImplementedError #TODO: Implement TrImageFilterItem # return TrImageFilterItem(self, filterobj, filterparam) def get_pixel_coordinates(self, xplot, yplot):
[docs] """Return (image) pixel coordinates (from plot coordinates)""" v = self.tr*colvector(xplot, yplot) xpixel, ypixel, _ = v[:, 0] return xpixel, ypixel def get_plot_coordinates(self, xpixel, ypixel):
[docs] """Return plot coordinates (from image pixel coordinates)""" v0 = self.itr*colvector(xpixel, ypixel) xplot, yplot, _ = v0[:, 0].A.ravel() return xplot, yplot def get_x_values(self, i0, i1):
v0 = self.itr*colvector(i0, 0) x0, _y0, _ = v0[:, 0].A.ravel() v1 = self.itr*colvector(i1, 0) x1, _y1, _ = v1[:, 0].A.ravel() return np.linspace(x0, x1, i1-i0) def get_y_values(self, j0, j1): v0 = self.itr*colvector(0, j0) _x0, y0, _ = v0[:, 0].A.ravel() v1 = self.itr*colvector(0, j1) _x1, y1, _ = v1[:, 0].A.ravel() return np.linspace(y0, y1, j1-j0) def get_closest_coordinates(self, x, y):
[docs] """Return closest image pixel coordinates""" xi, yi = self.get_closest_indexes(x, y) v = self.itr*colvector(xi, yi) x, y, _ = v[:, 0].A.ravel() return x, y def update_border(self):
tpos = np.dot(self.itr, self.points) self.border_rect.set_points(tpos.T[:,:2]) def draw_border(self, painter, xMap, yMap, canvasRect): self.border_rect.draw(painter, xMap, yMap, canvasRect) def draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap): W = canvasRect.width() H = canvasRect.height() if W <= 1 or H <= 1: return x0, y0, x1, y1 = src_rect cx = canvasRect.left() cy = canvasRect.top() sx = (x1-x0)/(W-1) sy = (y1-y0)/(H-1) # tr1 = tr(x0,y0)*scale(sx,sy)*tr(-cx,-cy) tr = np.matrix( [[sx, 0, x0-cx*sx], [ 0, sy, y0-cy*sy], [ 0, 0, 1]], float) mat = self.tr*tr dest = _scale_tr(self.data, mat, self._offscreen, dst_rect, self.lut, self.interpolate) qrect = QRectF(QPointF(dest[0], dest[1]), QPointF(dest[2], dest[3])) painter.drawImage(qrect, self._image, qrect) def export_roi(self, src_rect, dst_rect, dst_image,
[docs] apply_lut=False, apply_interpolation=False, original_resolution=False): """Export Region Of Interest to array""" if apply_lut: a, b, _bg, _cmap = self.lut else: a, b = 1., 0. xs0, ys0, xs1, ys1 = src_rect xd0, yd0, xd1, yd1 = dst_rect if original_resolution: _t1, _t2, _t3, xscale, yscale, _t4, _t5 = self.get_transform() else: xscale, yscale = (xs1-xs0)/float(xd1-xd0), (ys1-ys0)/float(yd1-yd0) mat = self.tr*( translate(xs0, ys0)*scale(xscale, yscale) ) x0, y0, x1, y1 = self.get_crop_coordinates() xd0 = max([xd0, xd0+int((x0-xs0)/xscale)]) yd0 = max([yd0, yd0+int((y0-ys0)/xscale)]) xd1 = min([xd1, xd1+int((x1-xs1)/xscale)]) yd1 = min([yd1, yd1+int((y1-ys1)/xscale)]) dst_rect = xd0, yd0, xd1, yd1 interp = self.interpolate if apply_interpolation else (INTERP_NEAREST,) _scale_tr(self.data, mat, dst_image, dst_rect, (a, b, None), interp) #---- IBasePlotItem API --------------------------------------------------- def move_local_point_to(self, handle, pos, ctrl=None):
[docs] """Move a handle as returned by hit_test to the new position pos ctrl: True if <Ctrl> button is being pressed, False otherwise""" x0, y0, angle, dx, dy, hflip, vflip = self.get_transform() nx, ny = canvas_to_axes(self, pos) handles = self.itr*self.points p0 = colvector(nx, ny) #self.debug_transform(p0) center = handles.sum(axis=1)/4 vec0 = handles[:, handle] - center vec1 = p0 - center a0 = np.arctan2(vec0[1, 0], vec0[0, 0]) a1 = np.arctan2(vec1[1, 0], vec1[0, 0]) if self.can_rotate(): # compute angles angle += a1-a0 if self.can_resize(): # compute pixel size zoom = np.linalg.norm(vec1)/np.linalg.norm(vec0) dx = zoom*dx dy = zoom*dy self.set_transform(x0, y0, angle, dx, dy, hflip, vflip) def move_local_shape(self, old_pos, new_pos):
[docs] """Translate the shape such that old_pos becomes new_pos in canvas coordinates""" x0, y0, angle, dx, dy, hflip, vflip = self.get_transform() nx, ny = canvas_to_axes(self, new_pos) ox, oy = canvas_to_axes(self, old_pos) self.set_transform(x0+nx-ox, y0+ny-oy, angle, dx, dy, hflip, vflip) if self.plot(): self.plot().emit(SIG_ITEM_MOVED, self, ox, oy, nx, ny) def move_with_selection(self, delta_x, delta_y):
[docs] """ Translate the shape together with other selected items delta_x, delta_y: translation in plot coordinates """ x0, y0, angle, dx, dy, hflip, vflip = self.get_transform() self.set_transform(x0+delta_x, y0+delta_y, angle, dx, dy, hflip, vflip) assert_interfaces_valid(TrImageItem)
def assemble_imageitems(items, src_qrect, destw, desth, align=None,
[docs] add_images=False, apply_lut=False, apply_interpolation=False, original_resolution=False): """ Assemble together image items in qrect (QRectF object) and return resulting pixel data <!> Does not support XYImageItem objects """ # align width to 'align' bytes if align is not None: print >>sys.stderr, "guiqwt.image.assemble_imageitems: since v2.2, "\ "the `align` option is ignored" align = 1 #XXX: byte alignment is disabled until further notice! aligned_destw = align*((int(destw)+align-1)/align) aligned_desth = int(desth*aligned_destw/destw) try: output = np.zeros((aligned_desth, aligned_destw), np.float32) except ValueError: raise MemoryError if not add_images: dst_image = output dst_rect = (0, 0, aligned_destw, aligned_desth) src_rect = list(src_qrect.getCoords()) # The source QRect is generally coming from a rectangle shape which is # adjusted to fit a given ROI on the image. So the rectangular area is # aligned with image pixel edges: to avoid any rounding error, we reduce # the rectangle area size by one half of a pixel, so that the area is now # aligned with the center of image pixels. pixel_width = src_qrect.width()/float(destw) pixel_height = src_qrect.height()/float(desth) src_rect[0] += .5*pixel_width src_rect[1] += .5*pixel_height src_rect[2] -= .5*pixel_width src_rect[3] -= .5*pixel_height for it in items: if it.isVisible() and src_qrect.intersects(it.boundingRect()): if add_images: dst_image = np.zeros_like(output) it.export_roi(src_rect=src_rect, dst_rect=dst_rect, dst_image=dst_image, apply_lut=apply_lut, apply_interpolation=apply_interpolation, original_resolution=original_resolution) if add_images: output += dst_image return output def get_plot_qrect(plot, p0, p1):
[docs] """ Return QRectF rectangle object in plot coordinates from top-left and bottom-right QPoint objects in canvas coordinates """ ax, ay = plot.X_BOTTOM, plot.Y_LEFT p0x, p0y = plot.invTransform(ax, p0.x()), plot.invTransform(ay, p0.y()) p1x, p1y = plot.invTransform(ax, p1.x()+1), plot.invTransform(ay, p1.y()+1) return QRectF(p0x, p0y, p1x-p0x, p1y-p0y) def get_items_in_rectangle(plot, p0, p1, item_type=None):
"""Return items which bounding rectangle intersects (p0, p1) item_type: default is IExportROIImageItemType""" if item_type is None: item_type = IExportROIImageItemType items = plot.get_items(item_type=IExportROIImageItemType) src_qrect = get_plot_qrect(plot, p0, p1) return [it for it in items if src_qrect.intersects(it.boundingRect())] def compute_trimageitems_original_size(items, src_w, src_h): """Compute TrImageItem original size from max dx and dy""" trparams = [item.get_transform() for item in items if isinstance(item, TrImageItem)] if trparams: dx_max = max([dx for _x, _y, _angle, dx, _dy, _hf, _vf in trparams]) dy_max = max([dy for _x, _y, _angle, _dx, dy, _hf, _vf in trparams]) return src_w/dx_max, src_h/dy_max else: return src_w, src_h def get_image_from_qrect(plot, p0, p1, src_size=None, adjust_range=None, item_type=None, apply_lut=False, apply_interpolation=False, original_resolution=False): """Return image array from QRect area (p0 and p1 are respectively the top-left and bottom-right QPoint objects) adjust_range: None (return raw data, dtype=np.float32), 'original' (return data with original data type), 'normalize' (normalize range with original data type)""" assert adjust_range in (None, 'normalize', 'original') items = get_items_in_rectangle(plot, p0, p1, item_type=item_type) if not items: raise TypeError, _("There is no supported image item in current plot.") if src_size is None: _src_x, _src_y, src_w, src_h = get_plot_qrect(plot, p0, p1).getRect() else: # The only benefit to pass the src_size list is to avoid any # rounding error in the transformation computed in `get_plot_qrect` src_w, src_h = src_size destw, desth = compute_trimageitems_original_size(items, src_w, src_h) data = get_image_from_plot(plot, p0, p1, destw=destw, desth=desth, apply_lut=apply_lut, apply_interpolation=apply_interpolation, original_resolution=original_resolution) if adjust_range is None: return data dtype = None for item in items: if dtype is None or item.data.dtype.itemsize > dtype.itemsize: dtype = item.data.dtype if adjust_range == 'normalize': from guiqwt import io data = io.scale_data_to_dtype(data, dtype=dtype) else: data = np.array(data, dtype=dtype) return data def get_image_in_shape(obj, norm_range=False, item_type=None, apply_lut=False, apply_interpolation=False): """Return image array from rectangle shape""" x0, y0, x1, y1 = obj.get_rect() (x0, x1), (y0, y1) = sorted([x0, x1]), sorted([y0, y1]) xc0, yc0 = axes_to_canvas(obj, x0, y0) xc1, yc1 = axes_to_canvas(obj, x1, y1) adjust_range = 'normalize' if norm_range else 'original' return get_image_from_qrect(obj.plot(), QPoint(xc0, yc0), QPoint(xc1, yc1), src_size=(x1-x0, y1-y0), adjust_range=adjust_range, item_type=item_type, apply_lut=apply_lut, apply_interpolation=apply_interpolation, original_resolution=True) def get_image_from_plot(plot, p0, p1, destw=None, desth=None, add_images=False,
[docs] apply_lut=False, apply_interpolation=False, original_resolution=False): """ Return pixel data of a rectangular plot area (image items only) p0, p1: resp. top-left and bottom-right points (QPoint objects) apply_lut: apply contrast settings add_images: add superimposed images (instead of replace by the foreground) Support only the image items implementing the IExportROIImageItemType interface, i.e. this does *not* support XYImageItem objects """ if destw is None: destw = p1.x()-p0.x()+1 if desth is None: desth = p1.y()-p0.y()+1 items = plot.get_items(item_type=IExportROIImageItemType) qrect = get_plot_qrect(plot, p0, p1) return assemble_imageitems(items, qrect, destw, desth,# align=4, add_images=add_images, apply_lut=apply_lut, apply_interpolation=apply_interpolation, original_resolution=original_resolution) #============================================================================== # Image with custom X, Y axes #============================================================================== def to_bins(x):
"""Convert point center to point bounds""" bx = np.zeros((x.shape[0]+1,), float) bx[1:-1] = (x[:-1]+x[1:])/2 bx[0] = x[0]-(x[1]-x[0])/2 bx[-1] = x[-1]+(x[-1]-x[-2])/2 return bx class XYImageItem(RawImageItem):
[docs] """ Construct an image item with non-linear X/Y axes * x: 1D NumPy array, must be increasing * y: 1D NumPy array, must be increasing * data: 2D NumPy array * param (optional): image parameters (:py:class:`guiqwt.styles.XYImageParam` instance) """ __implements__ = (IBasePlotItem, IBaseImageItem, ISerializableType) def __init__(self, x=None, y=None, data=None, param=None): super(XYImageItem, self).__init__(data, param) self.x = None self.y = None if x is not None and y is not None: self.set_xy(x, y) #---- BaseImageItem API --------------------------------------------------- def get_default_param(self):
[docs] """Return instance of the default imageparam DataSet""" return XYImageParam(_("Image")) #---- Pickle methods ------------------------------------------------------ def __reduce__(self):
fname = self.get_filename() if fname is None: fn_or_data = self.data else: fn_or_data = fname state = (self.imageparam, self.get_lut_range(), self.x, self.y, fn_or_data, self.z()) res = ( self.__class__, (), state ) return res def __setstate__(self, state): param, lut_range, x, y, fn_or_data, z = state self.imageparam = param if isinstance(fn_or_data, basestring): self.set_filename(fn_or_data) self.load_data(lut_range) elif fn_or_data is not None: # should happen only with previous API self.set_data(fn_or_data, lut_range=lut_range) self.set_xy(x, y) self.setZ(z) self.imageparam.update_image(self) def serialize(self, writer):
[docs] """Serialize object to HDF5 writer""" super(XYImageItem, self).serialize(writer) writer.write(self.x, group_name='Xdata') writer.write(self.y, group_name='Ydata') def deserialize(self, reader):
[docs] """Deserialize object from HDF5 reader""" super(XYImageItem, self).deserialize(reader) x = reader.read(group_name='Xdata', func=reader.read_array) y = reader.read(group_name='Ydata', func=reader.read_array) self.set_xy(x, y) #---- Public API ---------------------------------------------------------- def set_xy(self, x, y):
ni, nj = self.data.shape x = np.array(x, float) y = np.array(y, float) if not np.all(np.diff(x) > 0): raise ValueError("x must be an increasing 1D array") if not np.all(np.diff(y) > 0): raise ValueError("y must be an increasing 1D array") if x.shape[0] == nj: self.x = to_bins(x) elif x.shape[0] == nj+1: self.x = x else: raise IndexError("x must be a 1D array of length %d or %d" \ % (nj, nj+1)) if y.shape[0] == ni: self.y = to_bins(y) elif y.shape[0] == ni+1: self.y = y else: raise IndexError("y must be a 1D array of length %d or %d" \ % (ni, ni+1)) self.bounds = QRectF(QPointF(self.x[0], self.y[0]), QPointF(self.x[-1], self.y[-1])) self.update_border() #--- BaseImageItem API ---------------------------------------------------- def get_filter(self, filterobj, filterparam):
[docs] """Provides a filter object over this image's content""" return XYImageFilterItem(self, filterobj, filterparam) def draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap):
xytr = (self.x, self.y, src_rect) dest = _scale_xy(self.data, xytr, self._offscreen, dst_rect, self.lut, self.interpolate) qrect = QRectF(QPointF(dest[0], dest[1]), QPointF(dest[2], dest[3])) painter.drawImage(qrect, self._image, qrect) def get_pixel_coordinates(self, xplot, yplot):
[docs] """Return (image) pixel coordinates (from plot coordinates)""" return self.x.searchsorted(xplot), self.y.searchsorted(yplot) def get_plot_coordinates(self, xpixel, ypixel):
[docs] """Return plot coordinates (from image pixel coordinates)""" return self.x[int(pixelround(xpixel))], self.y[int(pixelround(ypixel))] def get_x_values(self, i0, i1):
return self.x[i0:i1] def get_y_values(self, j0, j1): return self.y[j0:j1] def get_closest_coordinates(self, x, y):
[docs] """Return closest image pixel coordinates""" i, j = self.get_closest_indexes(x, y) return self.x[i], self.y[j] #---- IBasePlotItem API --------------------------------------------------- def types(self):
return (IImageItemType, IVoiImageItemType, IColormapImageItemType, ITrackableItemType, ISerializableType, ICSImageItemType) #---- IBaseImageItem API -------------------------------------------------- def can_setfullscale(self): return True def can_sethistogram(self): return True assert_interfaces_valid(XYImageItem)
#============================================================================== # RGB Image with alpha channel #============================================================================== class RGBImageItem(ImageItem):
[docs] """ Construct a RGB/RGBA image item * data: NumPy array of uint8 (shape: NxMx[34] -- 3: RGB, 4: RGBA) (last dimension: 0:Red, 1:Green, 2:Blue[, 3:Alpha]) * param (optional): image parameters (:py:class:`guiqwt.styles.RGBImageParam` instance) """ __implements__ = (IBasePlotItem, IBaseImageItem, ISerializableType) def __init__(self, data=None, param=None): self.orig_data = None super(RGBImageItem, self).__init__(data, param) self.lut = None #---- BaseImageItem API --------------------------------------------------- def get_default_param(self):
[docs] """Return instance of the default imageparam DataSet""" return RGBImageParam(_("Image")) #---- Public API ---------------------------------------------------------- def recompute_alpha_channel(self):
data = self.orig_data if self.orig_data is None: return H, W, NC = data.shape R = data[..., 0].astype(np.uint32) G = data[..., 1].astype(np.uint32) B = data[..., 2].astype(np.uint32) use_alpha = self.imageparam.alpha_mask alpha = self.imageparam.alpha if NC > 3 and use_alpha: A = data[...,3].astype(np.uint32) else: A = np.zeros((H, W), np.uint32) A[:, :]=int(255*alpha) self.data[:, :] = (A<<24)+(R<<16)+(G<<8)+B #--- BaseImageItem API ---------------------------------------------------- # Override lut/bg handling def set_lut_range(self, range): pass def set_background_color(self, qcolor): self.lut = None def set_color_map(self, name_or_table): self.lut = None #---- RawImageItem API ---------------------------------------------------- def load_data(self):
[docs] """ Load data from *filename* *filename* has been set using method 'set_filename' """ data = io.imread(self.get_filename(), to_grayscale=False) self.set_data(data) def set_data(self, data):
H, W, NC = data.shape self.orig_data = data self.data = np.empty((H, W), np.uint32) self.recompute_alpha_channel() self.update_bounds() self.update_border() self.lut = None #---- IBasePlotItem API --------------------------------------------------- def types(self): return (IImageItemType, ITrackableItemType, ISerializableType) #---- IBaseImageItem API -------------------------------------------------- def can_setfullscale(self): return True def can_sethistogram(self): return False assert_interfaces_valid(RGBImageItem)
#============================================================================== # Masked Image #============================================================================== class MaskedArea(object): """Defines masked areas for a masked image item""" def __init__(self, geometry=None, x0=None, y0=None, x1=None, y1=None, inside=None): self.geometry = geometry self.x0 = x0 self.y0 = y0 self.x1 = x1 self.y1 = y1 self.inside = inside def __eq__(self, other): return self.geometry == other.geometry and self.x0 == other.x0 and \ self.y0 == other.y0 and self.x1 == other.x1 and \ self.y1 == other.y1 and self.inside == other.inside def serialize(self, writer): """Serialize object to HDF5 writer""" for name in ('geometry', 'inside', 'x0', 'y0', 'x1', 'y1'): writer.write(getattr(self, name), name) def deserialize(self, reader): """Deserialize object from HDF5 reader""" self.geometry = reader.read('geometry') self.inside = reader.read('inside') for name in ('x0', 'y0', 'x1', 'y1'): setattr(self, name, reader.read(name, func=reader.read_float)) class MaskedImageItem(ImageItem):
[docs] """ Construct a masked image item * data: 2D NumPy array * mask (optional): 2D NumPy array * param (optional): image parameters (:py:class:`guiqwt.styles.MaskedImageParam` instance) """ __implements__ = (IBasePlotItem, IBaseImageItem, IHistDataSource, IVoiImageItemType) def __init__(self, data=None, mask=None, param=None): self.orig_data = None self._mask = mask self._mask_filename = None self._masked_areas = [] super(MaskedImageItem, self).__init__(data, param) #---- BaseImageItem API --------------------------------------------------- def get_default_param(self):
[docs] """Return instance of the default imageparam DataSet""" return MaskedImageParam(_("Image")) #---- Pickle methods ------------------------------------------------------- def __reduce__(self):
fname = self.get_filename() if fname is None: fn_or_data = self.data else: fn_or_data = fname state = (self.imageparam, self.get_lut_range(), fn_or_data, self.z(), self.get_mask_filename(), self.get_masked_areas()) res = ( self.__class__, (), state ) return res def __setstate__(self, state): param, lut_range, fn_or_data, z, mask_fname, old_masked_areas = state if old_masked_areas and isinstance(old_masked_areas[0], MaskedArea): masked_areas = old_masked_areas else: # Compatibility with old format masked_areas = [] for geometry, x0, y0, x1, y1, inside in old_masked_areas: area = MaskedArea(geometry=geometry, x0=x0, y0=y0, x1=x1, y1=y1, inside=inside) masked_areas.append(area) self.imageparam = param if isinstance(fn_or_data, basestring): self.set_filename(fn_or_data) self.load_data(lut_range) elif fn_or_data is not None: # should happen only with previous API self.set_data(fn_or_data, lut_range=lut_range) self.setZ(z) self.imageparam.update_image(self) if mask_fname is not None: self.set_mask_filename(mask_fname) self.load_mask_data() elif masked_areas and self.data is not None: self.set_masked_areas(masked_areas) self.apply_masked_areas() def serialize(self, writer):
[docs] """Serialize object to HDF5 writer""" super(MaskedImageItem, self).serialize(writer) writer.write(self.get_mask_filename(), group_name='mask_fname') writer.write_object_list(self._masked_areas, 'masked_areas') def deserialize(self, reader):
[docs] """Deserialize object from HDF5 reader""" super(MaskedImageItem, self).deserialize(reader) mask_fname = reader.read(group_name='mask_fname', func=reader.read_unicode) masked_areas = reader.read_object_list('masked_areas', MaskedArea) if mask_fname: self.set_mask_filename(mask_fname) self.load_mask_data() elif masked_areas and self.data is not None: self.set_masked_areas(masked_areas) self.apply_masked_areas() #---- Public API ----------------------------------------------------------- def update_mask(self):
if isinstance(self.data, np.ma.MaskedArray): self.data.set_fill_value(self.imageparam.filling_value) def set_mask(self, mask):
[docs] """Set image mask""" self.data.mask = mask def get_mask(self):
[docs] """Return image mask""" return self.data.mask def set_mask_filename(self, fname):
[docs] """ Set mask filename There are two ways for pickling mask data of MaskedImageItem objects: 1. using the mask filename (as for data itself) 2. using the mask areas (MaskedAreas instance, see set_mask_areas) When saving objects, the first method is tried and then, if no filename has been defined for mask data, the second method is used. """ self._mask_filename = fname def get_mask_filename(self):
return self._mask_filename def load_mask_data(self): data = io.imread(self.get_mask_filename(), to_grayscale=True) self.set_mask(data) self._mask_changed() def set_masked_areas(self, areas):
[docs] """Set masked areas (see set_mask_filename)""" self._masked_areas = areas def get_masked_areas(self):
return self._masked_areas def add_masked_area(self, geometry, x0, y0, x1, y1, inside): area = MaskedArea(geometry=geometry, x0=x0, y0=y0, x1=x1, y1=y1, inside=inside) for _area in self._masked_areas: if area == _area: return self._masked_areas.append(area) def _mask_changed(self): """Emit the SIG_MASK_CHANGED signal (emitter: plot)""" plot = self.plot() if plot is not None: plot.emit(SIG_MASK_CHANGED, self) def apply_masked_areas(self):
[docs] """Apply masked areas""" for area in self._masked_areas: if area.geometry == 'rectangular': self.mask_rectangular_area(area.x0, area.y0, area.x1, area.y1, area.inside, trace=False, do_signal=False) else: self.mask_circular_area(area.x0, area.y0, area.x1, area.y1, area.inside, trace=False, do_signal=False) self._mask_changed() def mask_all(self):
[docs] """Mask all pixels""" self.data.mask = True self._mask_changed() def unmask_all(self):
[docs] """Unmask all pixels""" self.data.mask = np.ma.nomask self.set_masked_areas([]) self._mask_changed() def mask_rectangular_area(self, x0, y0, x1, y1, inside=True,
[docs] trace=True, do_signal=True): """ Mask rectangular area If inside is True (default), mask the inside of the area Otherwise, mask the outside """ ix0, iy0, ix1, iy1 = self.get_closest_index_rect(x0, y0, x1, y1) if inside: self.data[iy0:iy1, ix0:ix1] = np.ma.masked else: indexes = np.ones(self.data.shape, dtype=np.bool) indexes[iy0:iy1, ix0:ix1] = False self.data[indexes] = np.ma.masked if trace: self.add_masked_area('rectangular', x0, y0, x1, y1, inside) if do_signal: self._mask_changed() def mask_circular_area(self, x0, y0, x1, y1, inside=True,
[docs] trace=True, do_signal=True): """ Mask circular area, inside the rectangle (x0, y0, x1, y1), i.e. circle with a radius of .5*(x1-x0) If inside is True (default), mask the inside of the area Otherwise, mask the outside """ ix0, iy0, ix1, iy1 = self.get_closest_index_rect(x0, y0, x1, y1) xc, yc = .5*(x0+x1), .5*(y0+y1) radius = .5*(x1-x0) xdata, ydata = self.get_x_values(ix0, ix1), self.get_y_values(iy0, iy1) for ix in range(ix0, ix1): for iy in range(iy0, iy1): distance = np.sqrt((xdata[ix-ix0]-xc)**2+(ydata[iy-iy0]-yc)**2) if inside: if distance <= radius: self.data[iy, ix] = np.ma.masked elif distance > radius: self.data[iy, ix] = np.ma.masked if not inside: self.mask_rectangular_area(x0, y0, x1, y1, inside, trace=False) if trace: self.add_masked_area('circular', x0, y0, x1, y1, inside) if do_signal: self._mask_changed() def is_mask_visible(self):
[docs] """Return mask visibility""" return self.imageparam.show_mask def set_mask_visible(self, state):
[docs] """Set mask visibility""" self.imageparam.show_mask = state plot = self.plot() if plot is not None: plot.replot() #---- BaseImageItem API ---------------------------------------------------- def draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap):
ImageItem.draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap) if self.data is None: return if self.is_mask_visible(): _a, _b, bg, _cmap = self.lut alpha_masked = np.uint32(255*self.imageparam.alpha_masked+0.5 ).clip(0, 255) << 24 alpha_unmasked = np.uint32(255*self.imageparam.alpha_unmasked+0.5 ).clip(0, 255) << 24 cmap = np.array([np.uint32(0x000000 & 0xffffff) | alpha_unmasked, np.uint32(0xffffff & 0xffffff) | alpha_masked], dtype=np.uint32) lut = (1, 0, bg, cmap) shown_data = np.ma.getmaskarray(self.data) src2 = self._rescale_src_rect(src_rect) dest = _scale_rect(shown_data, src2, self._offscreen, dst_rect, lut, (INTERP_NEAREST,)) qrect = QRectF(QPointF(dest[0], dest[1]), QPointF(dest[2], dest[3])) painter.drawImage(qrect, self._image, qrect) #---- RawImageItem API ----------------------------------------------------- def set_data(self, data, lut_range=None):
[docs] """ Set Image item data * data: 2D NumPy array * lut_range: LUT range -- tuple (levelmin, levelmax) """ ImageItem.set_data(self, data, lut_range) self.orig_data = data self.data = data.view(np.ma.MaskedArray) self.set_mask(self._mask) self._mask = None # removing reference to this temporary array if self.imageparam.filling_value is None: self.imageparam.filling_value = self.data.get_fill_value() # self.data.harden_mask() self.update_mask() #============================================================================== # Image filter #============================================================================== #TODO: Implement get_filter methods for image items other than XYImageItem! class ImageFilterItem(BaseImageItem):
[docs] """ Construct a rectangular area image filter item * image: :py:class:`guiqwt.image.RawImageItem` instance * filter: function (x, y, data) --> data * param: image filter parameters (:py:class:`guiqwt.styles.ImageFilterParam` instance) """ __implements__ = (IBasePlotItem, IBaseImageItem) _can_select = True _can_resize = True _can_move = True def __init__(self, image, filter, param): self.use_source_cmap = None self.image = None # BaseImageItem constructor will try to set this # item's color map using the method 'set_color_map' super(ImageFilterItem, self).__init__(param=param) self.border_rect.set_style("plot", "shape/imagefilter") self.image = image self.filter = filter self.imagefilterparam = param self.imagefilterparam.update_imagefilter(self) #---- Public API ----------------------------------------------------------- def set_image(self, image):
[docs] """ Set the image item on which the filter will be applied * image: :py:class:`guiqwt.image.RawImageItem` instance """ self.image = image def set_filter(self, filter):
[docs] """ Set the filter function * filter: function (x, y, data) --> data """ self.filter = filter #---- QwtPlotItem API ------------------------------------------------------ def boundingRect(self):
x0, y0, x1, y1 = self.border_rect.get_rect() return QRectF(x0, y0, x1-x0, y1-y0) #---- IBasePlotItem API ---------------------------------------------------- def get_item_parameters(self, itemparams): BaseImageItem.get_item_parameters(self, itemparams) self.imagefilterparam.update_param(self) itemparams.add("ImageFilterParam", self, self.imagefilterparam) def set_item_parameters(self, itemparams): update_dataset(self.imagefilterparam, itemparams.get("ImageFilterParam"), visible_only=True) self.imagefilterparam.update_imagefilter(self) BaseImageItem.set_item_parameters(self, itemparams) def move_local_point_to(self, handle, pos, ctrl=None):
[docs] """Move a handle as returned by hit_test to the new position pos ctrl: True if <Ctrl> button is being pressed, False otherwise""" npos = canvas_to_axes(self, pos) self.border_rect.move_point_to(handle, npos) def move_local_shape(self, old_pos, new_pos):
[docs] """Translate the shape such that old_pos becomes new_pos in canvas coordinates""" old_pt = canvas_to_axes(self, old_pos) new_pt = canvas_to_axes(self, new_pos) self.border_rect.move_shape(old_pt, new_pt) if self.plot(): self.plot().emit(SIG_ITEM_MOVED, self, *(old_pt+new_pt)) def move_with_selection(self, delta_x, delta_y):
[docs] """ Translate the shape together with other selected items delta_x, delta_y: translation in plot coordinates """ self.border_rect.move_with_selection(delta_x, delta_y) def set_color_map(self, name_or_table):
if self.use_source_cmap: if self.image is not None: self.image.set_color_map(name_or_table) else: BaseImageItem.set_color_map(self, name_or_table) def get_color_map(self): if self.use_source_cmap: return self.image.get_color_map() else: return BaseImageItem.get_color_map(self) def get_lut_range(self): if self.use_source_cmap: return self.image.get_lut_range() else: return BaseImageItem.get_lut_range(self) def set_lut_range(self, lut_range): if self.use_source_cmap: self.image.set_lut_range(lut_range) else: BaseImageItem.set_lut_range(self, lut_range) #---- IBaseImageItem API --------------------------------------------------- def types(self): return (IImageItemType, IVoiImageItemType, IColormapImageItemType, ITrackableItemType) def can_setfullscale(self): return False def can_sethistogram(self): return True class XYImageFilterItem(ImageFilterItem):
[docs] """ Construct a rectangular area image filter item * image: :py:class:`guiqwt.image.XYImageItem` instance * filter: function (x, y, data) --> data * param: image filter parameters (:py:class:`guiqwt.styles.ImageFilterParam` instance) """ def __init__(self, image, filter, param): ImageFilterItem.__init__(self, image, filter, param) def set_image(self, image):
[docs] """ Set the image item on which the filter will be applied * image: :py:class:`guiqwt.image.XYImageItem` instance """ ImageFilterItem.set_image(self, image) def draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap):
bounds = self.boundingRect() filt_qrect = bounds & self.image.boundingRect() x0, y0, x1, y1 = filt_qrect.getCoords() i0, i1 = xMap.transform(x0), xMap.transform(x1) j0, j1 = yMap.transform(y0), yMap.transform(y1) dstRect = QRect(i0, j0, i1-i0, j1-j0) if not dstRect.intersects(canvasRect): return x, y, data = self.image.get_data(x0, y0, x1, y1) new_data = self.filter(x, y, data) self.data = new_data if self.use_source_cmap: lut = self.image.lut else: lut = self.lut dest = _scale_xy(new_data, (x, y, src_rect), self._offscreen, dstRect.getCoords(), lut, self.interpolate) qrect = QRectF(QPointF(dest[0], dest[1]), QPointF(dest[2], dest[3])) painter.drawImage(qrect, self._image, qrect) assert_interfaces_valid(ImageFilterItem)
#============================================================================== # 2-D Histogram #============================================================================== class Histogram2DItem(BaseImageItem):
[docs] """ Construct a 2D histogram item * X: data (1-D array) * Y: data (1-D array) * param (optional): style parameters (:py:class:`guiqwt.styles.Histogram2DParam` instance) """ __implements__ = (IBasePlotItem, IBaseImageItem, IHistDataSource, IVoiImageItemType,) def __init__(self, X, Y, param=None, Z=None): if param is None: param = ImageParam(_("Image")) self._z = Z # allows set_bins to super(Histogram2DItem, self).__init__(param=param) # Set by parameters self.nx_bins = 0 self.ny_bins = 0 self.logscale = None # internal use self._x = None self._y = None # Histogram parameters self.histparam = param self.histparam.update_histogram(self) self.set_lut_range([0, 10.]) self.set_data(X, Y, Z) #---- Public API ----------------------------------------------------------- def set_bins(self, NX, NY):
[docs] """Set histogram bins""" self.nx_bins = NX self.ny_bins = NY # We use a fortran array to avoid a double copy of self.data # Thus, in order to get the result in the correct order we # have to swap X and Y axes _before_ computing the histogram self.data = np.zeros((self.ny_bins, self.nx_bins), float, order='F') if self._z is not None: self.data_tmp = np.zeros((self.ny_bins, self.nx_bins), float, order='F') def set_data(self, X, Y, Z=None):
[docs] """Set histogram data""" self._x = X self._y = Y self._z = Z self.bounds = QRectF(QPointF(X.min(), Y.min()), QPointF(X.max(), Y.max())) self.update_border() #---- QwtPlotItem API ------------------------------------------------------ fill_canvas = True
def draw_image(self, painter, canvasRect, src_rect, dst_rect, xMap, yMap): computation = self.histparam.computation i1, j1, i2, j2 = src_rect if computation == -1 or self._z is None: self.data[:, :] = 0.0 _, nmax = hist2d(self._y, self._x, j1, j2, i1, i2, self.data, self.logscale) else: self.data_tmp[:,:] = 0.0 if computation in (2,4): # sum, avg self.data[:,:] = 0.0 elif computation in (1,5): # min, argmin val = np.inf self.data[:,:] = val elif computation in (0,6): # max, argmax val = -np.inf self.data[:,:] = val elif computation==3: self.data[:,:] = 1. r = hist2d_func(self._y, self._x, self._z, j1, j2, i1, i2, self.data_tmp, self.data, computation) _data_tmp,_data=r if computation in (0,1,5,6): self.data[self.data==val] = np.nan else: self.data[self.data_tmp==0.0] = np.nan if self.histparam.auto_lut: nmin = _nanmin(self.data) nmax = _nanmax(self.data) self.set_lut_range([nmin, nmax]) self.plot().update_colormap_axis(self) src_rect = (0, 0, self.nx_bins, self.ny_bins) drawfunc = lambda *args: BaseImageItem.draw_image(self, *args) if self.fill_canvas: x1, y1, x2, y2 = canvasRect.getCoords() drawfunc(painter, canvasRect, src_rect, (x1, y1, x2, y2), xMap, yMap) else: drawfunc(painter, canvasRect, src_rect, dst_rect, xMap, yMap) #---- IBasePlotItem API --------------------------------------------------- def types(self): return (IColormapImageItemType, IImageItemType, ITrackableItemType, IVoiImageItemType, IColormapImageItemType, ICSImageItemType) def get_item_parameters(self, itemparams): BaseImageItem.get_item_parameters(self, itemparams) itemparams.add("Histogram2DParam", self, self.histparam) def set_item_parameters(self, itemparams): update_dataset(self.histparam, itemparams.get("Histogram2DParam"), visible_only=True) self.histparam = itemparams.get("Histogram2DParam") self.histparam.update_histogram(self) BaseImageItem.set_item_parameters(self, itemparams) #---- IBaseImageItem API -------------------------------------------------- def can_setfullscale(self): return True def can_sethistogram(self): return True def get_histogram(self, nbins):
[docs] """interface de IHistDataSource""" if self.data is None: return [0,], [0,1] _min = _nanmin(self.data) _max = _nanmax(self.data) if self.data.dtype in (np.float64, np.float32): bins = np.unique(np.array(np.linspace(_min, _max, nbins+1), dtype=self.data.dtype)) else: bins = np.arange(_min, _max+2, dtype=self.data.dtype) res2 = np.zeros((bins.size+1,), np.uint32) _histogram(self.data.flatten(), bins, res2) #toc("histo2") res = res2[1:-1], bins return res assert_interfaces_valid(Histogram2DItem)
#============================================================================== # Image Plot Widget #============================================================================== class ImagePlot(CurvePlot):
[docs] """ Construct a 2D curve and image plotting widget (this class inherits :py:class:`guiqwt.curve.CurvePlot`) * parent: parent widget * title: plot title (string) * xlabel, ylabel, zlabel: resp. bottom, left and right axis titles (strings) * xunit, yunit, zunit: resp. bottom, left and right axis units (strings) * yreverse: reversing y-axis direction of increasing values (bool) * aspect_ratio: height to width ratio (float) * lock_aspect_ratio: locking aspect ratio (bool) """ DEFAULT_ITEM_TYPE = IImageItemType AUTOSCALE_TYPES = (CurveItem, BaseImageItem, PolygonMapItem) AXIS_CONF_OPTIONS = ("image_axis", "color_axis", "image_axis", None) def __init__(self, parent=None, title=None, xlabel=None, ylabel=None, zlabel=None, xunit=None, yunit=None, zunit=None, yreverse=True, aspect_ratio=1.0, lock_aspect_ratio=True, gridparam=None, section="plot"): self.lock_aspect_ratio = lock_aspect_ratio if zlabel is not None: if ylabel is not None and not isinstance(ylabel, basestring): ylabel = ylabel[0] ylabel = (ylabel, zlabel) if zunit is not None: if yunit is not None and not isinstance(yunit, basestring): yunit = yunit[0] yunit = (yunit, zunit) super(ImagePlot, self).__init__(parent=parent, title=title, xlabel=xlabel, ylabel=ylabel, xunit=xunit, yunit=yunit, gridparam=gridparam, section=section) self.colormap_axis = self.Y_RIGHT axiswidget = self.axisWidget(self.colormap_axis) axiswidget.setColorBarEnabled(True) self.enableAxis(self.colormap_axis) self.__aspect_ratio = None self.set_axis_direction('left', yreverse) self.set_aspect_ratio(aspect_ratio, lock_aspect_ratio) self.replot() # Workaround for the empty image widget bug #---- QwtPlot API --------------------------------------------------------- def showEvent(self, event):
[docs] """Override BasePlot method""" if self.lock_aspect_ratio: self._start_autoscaled = True CurvePlot.showEvent(self, event) #---- CurvePlot API ------------------------------------------------------- def do_zoom_view(self, dx, dy):
[docs] """Reimplement CurvePlot method""" CurvePlot.do_zoom_view(self, dx, dy, lock_aspect_ratio=self.lock_aspect_ratio) #---- Levels histogram-related API ---------------------------------------- def update_lut_range(self, _min, _max):
[docs] """update the LUT scale""" #self.set_items_lut_range(_min, _max, replot=False) self.updateAxes() #---- Image scale/aspect ratio -related API ------------------------------- def set_full_scale(self, item):
if item.can_setfullscale(): bounds = item.boundingRect() self.set_plot_limits(bounds.left(), bounds.right(), bounds.top(), bounds.bottom()) def get_current_aspect_ratio(self):
[docs] """Return current aspect ratio""" dx = self.axisScaleDiv(self.X_BOTTOM).range() dy = self.axisScaleDiv(self.Y_LEFT).range() h = self.canvasMap(self.Y_LEFT).pDist() w = self.canvasMap(self.X_BOTTOM).pDist() return fabs((h*dx)/(w*dy)) def get_aspect_ratio(self):
[docs] """Return aspect ratio""" return self.__aspect_ratio def set_aspect_ratio(self, ratio=None, lock=None):
[docs] """Set aspect ratio""" if ratio is not None: self.__aspect_ratio = ratio if lock is not None: self.lock_aspect_ratio = lock self.apply_aspect_ratio() def apply_aspect_ratio(self, full_scale=False):
if not self.isVisible(): return ymap = self.canvasMap(self.Y_LEFT) xmap = self.canvasMap(self.X_BOTTOM) h = ymap.pDist() w = xmap.pDist() dx1, dy1 = xmap.sDist(), fabs(ymap.sDist()) x0, y0 = xmap.s1(), ymap.s1() x1, y1 = xmap.s2(), ymap.s2() if y0 > y1: y0, y1 = y1, y0 if full_scale: dy2 = (h*dx1)/(w*self.__aspect_ratio) fix_yaxis = dy2 > dy1 else: fix_yaxis = True if fix_yaxis: dy2 = (h*dx1)/(w*self.__aspect_ratio) delta_y = .5*(dy2-dy1) y0 -= delta_y y1 += delta_y else: dx2 = (w*dy1*self.__aspect_ratio)/h delta_x = .5*(dx2-dx1) x0 -= delta_x x1 += delta_x self.set_plot_limits(x0, x1, y0, y1) #---- LUT/colormap-related API -------------------------------------------- def notify_colormap_changed(self):
[docs] """Levels histogram range has changed""" item = self.get_last_active_item(IColormapImageItemType) if item is not None: self.update_colormap_axis(item) self.replot() self.emit(SIG_LUT_CHANGED, self) def update_colormap_axis(self, item):
if IColormapImageItemType not in item.types(): return zaxis = self.colormap_axis axiswidget = self.axisWidget(zaxis) self.setAxisScale(zaxis, item.min, item.max) # XXX: the colormap can't be displayed if min>max, to fix this # we should pass an inverted colormap along with _max, _min values axiswidget.setColorMap(QwtDoubleInterval(item.min, item.max), item.get_color_map()) self.updateAxes() #---- QwtPlot API --------------------------------------------------------- def resizeEvent(self, event):
[docs] """Reimplement Qt method to resize widget""" CurvePlot.resizeEvent(self, event) if self.lock_aspect_ratio: self.apply_aspect_ratio() self.replot() #---- BasePlot API -------------------------------------------------------- def add_item(self, item, z=None, autoscale=True):
[docs] """ Add a *plot item* instance to this *plot widget* item: QwtPlotItem (PyQt4.Qwt5) object implementing the IBasePlotItem interface (guiqwt.interfaces) z: item's z order (None -> z = max(self.get_items())+1) autoscale: True -> rescale plot to fit image bounds """ CurvePlot.add_item(self, item, z) if isinstance(item, BaseImageItem): parent = self.parent() if parent is not None: parent.setUpdatesEnabled(False) self.update_colormap_axis(item) if autoscale: self.do_autoscale() if parent is not None: parent.setUpdatesEnabled(True) def do_autoscale(self, replot=True):
[docs] """Do autoscale on all axes""" CurvePlot.do_autoscale(self, replot=False) self.updateAxes() if self.lock_aspect_ratio: self.replot() self.apply_aspect_ratio(full_scale=True) if replot: self.replot() def get_axesparam_class(self, item):
[docs] """Return AxesParam dataset class associated to item's type""" if isinstance(item, BaseImageItem): return ImageAxesParam else: return CurvePlot.get_axesparam_class(self, item) def edit_axis_parameters(self, axis_id):
[docs] """Edit axis parameters""" #FIXME: without the following workaround, aspect ratio is changed # when applying axis parameters # (see also guiqwt.styles.ItemParameters.update) ratio = self.get_current_aspect_ratio() CurvePlot.edit_axis_parameters(self, axis_id) self.set_aspect_ratio(ratio=ratio) self.replot()