4d846e2aad
- disabled opengl (performance issues in Qt 4.7)
- numerous caching changes (disabled deviceCoordinateCache due to performance issues)
- speed up loading large images in ImageView
- bugfixes from Ingo Breßler
- Transform rotation bugfix
- Added debug module
- Major performance enhancements for scatterplot, fixed point clicking issues
** API change for scatterplot click signals
- Drawing on ImageItem is working well now
- PlotItem downsampling no longer uses scipy.signal.resample (this was creating artifacts)
- Fixed ViewBox behavior when aspect-locked
260 lines
8.5 KiB
Python
260 lines
8.5 KiB
Python
# -*- coding: utf-8 -*-
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"""
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functions.py - Miscellaneous functions with no other home
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Copyright 2010 Luke Campagnola
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Distributed under MIT/X11 license. See license.txt for more infomation.
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"""
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colorAbbrev = {
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'b': (0,0,255,255),
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'g': (0,255,0,255),
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'r': (255,0,0,255),
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'c': (0,255,255,255),
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'm': (255,0,255,255),
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'y': (255,255,0,255),
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'k': (0,0,0,255),
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'w': (255,255,255,255),
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}
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from PyQt4 import QtGui, QtCore
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import numpy as np
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import scipy.ndimage
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## Copied from acq4/lib/util/functions
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SI_PREFIXES = u'yzafpnµm kMGTPEZY'
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def siScale(x, minVal=1e-25):
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"""Return the recommended scale factor and SI prefix string for x."""
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if abs(x) < minVal:
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m = 0
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x = 0
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else:
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m = int(np.clip(np.floor(np.log(abs(x))/np.log(1000)), -9.0, 9.0))
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if m == 0:
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pref = ''
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elif m < -8 or m > 8:
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pref = 'e%d' % (m*3)
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else:
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pref = SI_PREFIXES[m+8]
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p = .001**m
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return (p, pref)
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def mkBrush(color):
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if isinstance(color, QtGui.QBrush):
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return color
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return QtGui.QBrush(mkColor(color))
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def mkPen(arg='default', color=None, width=1, style=None, cosmetic=True, hsv=None, ):
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"""Convenience function for making pens. Examples:
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mkPen(color)
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mkPen(color, width=2)
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mkPen(cosmetic=False, width=4.5, color='r')
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mkPen({'color': "FF0", width: 2})
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mkPen(None) (no pen)
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"""
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if isinstance(arg, dict):
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return mkPen(**arg)
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elif arg != 'default':
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if isinstance(arg, QtGui.QPen):
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return arg
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elif arg is None:
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style = QtCore.Qt.NoPen
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else:
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color = arg
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if color is None:
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color = mkColor(200, 200, 200)
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if hsv is not None:
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color = hsvColor(*hsv)
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else:
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color = mkColor(color)
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pen = QtGui.QPen(QtGui.QBrush(color), width)
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pen.setCosmetic(cosmetic)
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if style is not None:
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pen.setStyle(style)
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return pen
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def hsvColor(h, s=1.0, v=1.0, a=1.0):
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c = QtGui.QColor()
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c.setHsvF(h, s, v, a)
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return c
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def mkColor(*args):
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"""make a QColor from a variety of argument types
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accepted types are:
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r, g, b, [a]
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(r, g, b, [a])
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float (greyscale, 0.0-1.0)
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int (uses intColor)
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(int, hues) (uses intColor)
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QColor
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"c" (see colorAbbrev dictionary)
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"RGB" (strings may optionally begin with "#")
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"RGBA"
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"RRGGBB"
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"RRGGBBAA"
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"""
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err = 'Not sure how to make a color from "%s"' % str(args)
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if len(args) == 1:
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if isinstance(args[0], QtGui.QColor):
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return QtGui.QColor(args[0])
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elif isinstance(args[0], float):
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r = g = b = int(args[0] * 255)
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a = 255
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elif isinstance(args[0], basestring):
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c = args[0]
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if c[0] == '#':
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c = c[1:]
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if len(c) == 1:
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(r, g, b, a) = colorAbbrev[c]
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if len(c) == 3:
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r = int(c[0]*2, 16)
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g = int(c[1]*2, 16)
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b = int(c[2]*2, 16)
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a = 255
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elif len(c) == 4:
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r = int(c[0]*2, 16)
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g = int(c[1]*2, 16)
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b = int(c[2]*2, 16)
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a = int(c[3]*2, 16)
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elif len(c) == 6:
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r = int(c[0:2], 16)
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g = int(c[2:4], 16)
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b = int(c[4:6], 16)
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a = 255
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elif len(c) == 8:
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r = int(c[0:2], 16)
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g = int(c[2:4], 16)
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b = int(c[4:6], 16)
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a = int(c[6:8], 16)
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elif hasattr(args[0], '__len__'):
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if len(args[0]) == 3:
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(r, g, b) = args[0]
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a = 255
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elif len(args[0]) == 4:
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(r, g, b, a) = args[0]
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elif len(args[0]) == 2:
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return intColor(*args[0])
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else:
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raise Exception(err)
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elif type(args[0]) == int:
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return intColor(args[0])
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else:
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raise Exception(err)
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elif len(args) == 3:
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(r, g, b) = args
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a = 255
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elif len(args) == 4:
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(r, g, b, a) = args
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else:
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raise Exception(err)
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return QtGui.QColor(r, g, b, a)
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def colorTuple(c):
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return (c.red(), c.green(), c.blue(), c.alpha())
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def colorStr(c):
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"""Generate a hex string code from a QColor"""
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return ('%02x'*4) % colorTuple(c)
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def intColor(index, hues=9, values=1, maxValue=255, minValue=150, maxHue=360, minHue=0, sat=255, alpha=255, **kargs):
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"""Creates a QColor from a single index. Useful for stepping through a predefined list of colors.
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- The argument "index" determines which color from the set will be returned
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- All other arguments determine what the set of predefined colors will be
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Colors are chosen by cycling across hues while varying the value (brightness). By default, there
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are 9 hues and 3 values for a total of 27 different colors. """
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hues = int(hues)
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values = int(values)
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ind = int(index) % (hues * values)
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indh = ind % hues
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indv = ind / hues
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if values > 1:
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v = minValue + indv * ((maxValue-minValue) / (values-1))
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else:
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v = maxValue
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h = minHue + (indh * (maxHue-minHue)) / hues
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c = QtGui.QColor()
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c.setHsv(h, sat, v)
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c.setAlpha(alpha)
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return c
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def affineSlice(data, shape, origin, vectors, axes, **kargs):
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"""Take an arbitrary slice through an array.
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Parameters:
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data: the original dataset
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shape: the shape of the slice to take (Note the return value may have more dimensions than len(shape))
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origin: the location in the original dataset that will become the origin in the sliced data.
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vectors: list of unit vectors which point in the direction of the slice axes
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each vector must be the same length as axes
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If the vectors are not unit length, the result will be scaled.
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If the vectors are not orthogonal, the result will be sheared.
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axes: the axes in the original dataset which correspond to the slice vectors
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Example: start with a 4D data set, take a diagonal-planar slice out of the last 3 axes
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- data = array with dims (time, x, y, z) = (100, 40, 40, 40)
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- The plane to pull out is perpendicular to the vector (x,y,z) = (1,1,1)
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- The origin of the slice will be at (x,y,z) = (40, 0, 0)
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- The we will slice a 20x20 plane from each timepoint, giving a final shape (100, 20, 20)
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affineSlice(data, shape=(20,20), origin=(40,0,0), vectors=((-1, 1, 0), (-1, 0, 1)), axes=(1,2,3))
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Note the following:
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len(shape) == len(vectors)
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len(origin) == len(axes) == len(vectors[0])
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"""
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# sanity check
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if len(shape) != len(vectors):
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raise Exception("shape and vectors must have same length.")
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if len(origin) != len(axes):
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raise Exception("origin and axes must have same length.")
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for v in vectors:
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if len(v) != len(axes):
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raise Exception("each vector must be same length as axes.")
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shape = (np.ceil(shape[0]), np.ceil(shape[1]))
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## transpose data so slice axes come first
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trAx = range(data.ndim)
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for x in axes:
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trAx.remove(x)
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tr1 = tuple(axes) + tuple(trAx)
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data = data.transpose(tr1)
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#print "tr1:", tr1
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## dims are now [(slice axes), (other axes)]
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## make sure vectors are arrays
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vectors = np.array(vectors)
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origin = np.array(origin)
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origin.shape = (len(axes),) + (1,)*len(shape)
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## Build array of sample locations.
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grid = np.mgrid[tuple([slice(0,x) for x in shape])] ## mesh grid of indexes
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#print shape, grid.shape
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x = (grid[np.newaxis,...] * vectors.transpose()[(Ellipsis,) + (np.newaxis,)*len(shape)]).sum(axis=1) ## magic
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x += origin
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#print "X values:"
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#print x
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## iterate manually over unused axes since map_coordinates won't do it for us
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extraShape = data.shape[len(axes):]
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output = np.empty(tuple(shape) + extraShape, dtype=data.dtype)
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for inds in np.ndindex(*extraShape):
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ind = (Ellipsis,) + inds
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#print data[ind].shape, x.shape, output[ind].shape, output.shape
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output[ind] = scipy.ndimage.map_coordinates(data[ind], x, **kargs)
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tr = range(output.ndim)
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trb = []
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for i in range(min(axes)):
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ind = tr1.index(i) + (len(shape)-len(axes))
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tr.remove(ind)
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trb.append(ind)
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tr2 = tuple(trb+tr)
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## Untranspose array before returning
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return output.transpose(tr2)
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