def process(input, position):
size = len(input)
output = copy.deepcopy(input)
fft = DoubleFFT_1D(size)
fft.realForward(output)
for j in range(size/2):
output[j]= Math.sqrt(Math.pow(output[2*j],2)+Math.pow(output[2*j+1],2));
return output[:len(input)/2]
def toBut(self, but):
if but.x == 'abs':
return but.y
a = but.x - self.origin.x
b = but.y - self.origin.y
if a == 0 and b == 0:
return rnd.nextDouble() * 360;
if b < 0:
return 180*Math.asin(a / Math.sqrt(Math.pow(a,2)+Math.pow(b,2)))/Math.PI+270
else:
return 180*Math.acos(a / Math.sqrt(Math.pow(a,2)+Math.pow(b,2)))/Math.PI
def longJumps(t, mindist):
for nd in t.getRoot().getSubtreeNodes():
if nd.parent is None:
continue
d = Math.sqrt(Math.pow(nd.x - nd.parent.x, 2) + Math.pow(nd.y - nd.parent.y, 2))
if d > mindist:
print nd.x, nd.y
p = array([nd.x, nd.y], 'f')
aff = t.affineTransform
aff.transform(p, 0, p, 0, 1)
cal = t.layerSet.getCalibration()
print "Off:", p[0] * cal.pixelWidth, p[1] * cal.pixelHeight, (nd.layer.getParent().indexOf(nd.layer) + 1)
def toBut(self, but):
if but.x == 'abs':
return but.y
a = but.x - self.origin.x
b = but.y - self.origin.y
if a == 0 and b == 0:
return rnd.nextDouble() * 360
if b < 0:
return 180 * Math.asin(
a / Math.sqrt(Math.pow(a, 2) + Math.pow(b, 2))) / Math.PI + 270
else:
return 180 * Math.acos(
a / Math.sqrt(Math.pow(a, 2) + Math.pow(b, 2))) / Math.PI
def bug_vector_y(percept, dist, scale, theta, p):
r = percept.getRadius() / 2
return (
Math.sin(deg2pi(180 + self.towards(percept.getX() + r, percept.getY() + r)))
* theta
/ Math.pow((dist / scale), p)
)
def localContrast(im, block = 127, histobins = 256, maxslope = 3): ipMaskCLAHE = ByteProcessor(im.getWidth(),im.getHeight()) ipMaskCLAHE.threshold(-1) bitDepth = im.getBitDepth() if bitDepth == 8: maxDisp = Math.pow(2,8) - 1 else: maxDisp = Math.pow(2,12) - 1 ip = im.getProcessor() ip.setMinAndMax(0,maxDisp) if bitDepth == 8: ip.applyLut() Flat.getFastInstance().run(im, block, histobins, maxslope, ipMaskCLAHE, False) del ipMaskCLAHE return im
def compute_heading():
if (mvt_mem.direction == "EAST"):
x_modifier = 2000
y_modifier = 0
elif (mvt_mem.direction == "WEST"):
x_modifier = -2000
y_modifier = 0
elif (mvt_mem.direction == "SOUTH"):
x_modifier = 0
y_modifier = +2000
elif (mvt_mem.direction == "NORTH"):
x_modifier = 0
y_modifier = -1000
# on construit une liste de TOUS les objets répulsifs
repulsives = percepts.attackers.items () + \
percepts.explorers.items () + \
percepts.homes.items () + \
percepts.friends.items () + \
percepts.obstacles.items ()
# valeurs magiques
theta = 140
scale = 25
p = 2
u = 30
# composantes X et Y du vecteur direction final
X = 0
Y = 0
if repulsives:
for it, dist in repulsives:
X = X + Math.cos(deg2pi(180 + self.towards(it.getX(), it.getY()))
) * theta / Math.pow(dist / scale, p)
Y = Y + Math.sin(deg2pi(180 + self.towards(it.getX(), it.getY()))
) * theta / Math.pow(dist / scale, p)
toterm("AFTER REPULSION:" + str(X) + " " + str(Y))
X = X + Math.cos(deg2pi(self.getHeading())) * u
Y = Y + Math.sin(deg2pi(self.getHeading())) * u
toterm("AFTER ATTRACTION:" + str(X) + " " + str(Y))
X += x_modifier
Y += y_modifier
toterm("NEW HEADING : " + str(self.towards(X, Y)))
self.setHeading(self.towards(X, Y))
def NeighborChecker(xar, yar, zar, switch):
""" Check the distance to neighbors, and count the number of neighbors below thdist. """
global thdist
neighborA = zeros('d', len(xar))
if switch:
for i in range(len(xar)):
cx = xar[i]
cy = yar[i]
cz = zar[i]
for j in range(len(xar)):
if j != i :
dist = Math.sqrt( Math.pow((cx - xar[j]), 2) + Math.pow((cy - yar[j]), 2))
if dist < thdist:
if Math.abs(cz - zar[j]) < 2:
logstr = ".... Dot%d - Dot%d too close: dist = %d" % (i, j, dist)
IJ.log(logstr)
print logstr
neighborA[i] += 1
if neighborA[i] > 0:
IJ.log("---> Dot%d rejected" % (i))
print "---> Dot", i, " rejected"
return neighborA
def __init__(self, pointCounter=0):
self.logger = LoggerFactory.getLogger("WaveformDataGenerator")
self.channel = None
self.useGaussian = False
self.gaussian = None
self.pointCounter = pointCounter
self.incrementCounter = 1
self.dataDecimalPlaces = 2
self.roundingFactor = Math.pow(10.0, self.dataDecimalPlaces)
self.gaussianPosition = 10.0
self.gaussianWidth = 5.0
self.gaussianHeight = 10.0
self.noiseLevel = 0.1
self.data = []
def bug_vector_y(percept, dist, scale, theta, p):
r = percept.getRadius() / 2
return Math.sin(
deg2pi(180 + self.towards(percept.getX() + r,
percept.getY() + r))) * theta / Math.pow(
(dist / scale), p)
def vector_y(percept, dist, scale, theta, p):
return Math.sin(deg2pi(180 + self.towards(percept.getX(), percept.getY()))
) * theta / Math.pow((dist / scale), p)
def distxy(self, ox, oy): return Math.sqrt(Math.pow(self.x-ox,2)+Math.pow(self.y-oy,2))
# the scale to be used for the downsampling
scale = 2
# set the tile sizes to be used
tileSizeX = 1024
tileSizeY = 1024
# setup reader
reader = ImageReader()
omeMeta = MetadataTools.createOMEXMLMetadata()
reader.setMetadataStore(omeMeta)
reader.setId(file)
# add resolution metadata
for i in range(resolutions):
divScale = Math.pow(scale, i + 1)
omeMeta.setResolutionSizeX(PositiveInteger(int(reader.getSizeX() / divScale)), 0, i + 1)
omeMeta.setResolutionSizeY(PositiveInteger(int(reader.getSizeY() / divScale)), 0, i + 1)
# setup writer with tiling
writer = PyramidOMETiffWriter()
writer.setMetadataRetrieve(omeMeta)
tileSizeX = writer.setTileSizeX(tileSizeX)
tileSizeY = writer.setTileSizeY(tileSizeY)
writer.setId(outFile)
type = reader.getPixelType()
# create image scaler for downsampling
scaler = SimpleImageScaler()
# convert to Pyramidal OME-TIFF using tiling
# settings
file = "/path/to/inputFile.tiff"
outFile = "/path/to/outputFile.ome.tiff"
resolutions = 4
scale = 2
# setup reader and parse metadata
reader = ImageReader()
omeMeta = MetadataTools.createOMEXMLMetadata()
reader.setMetadataStore(omeMeta)
reader.setId(file)
# setup resolutions
for i in range(resolutions):
divScale = Math.pow(scale, i + 1)
omeMeta.setResolutionSizeX(PositiveInteger(int(reader.getSizeX() / divScale)), 0, i + 1)
omeMeta.setResolutionSizeY(PositiveInteger(int(reader.getSizeY() / divScale)), 0, i + 1)
# setup writer
writer = OMETiffWriter()
writer.setMetadataRetrieve(omeMeta)
writer.setId(outFile)
type = reader.getPixelType()
# read and write main image
img = reader.openBytes(0)
writer.saveBytes(0, img)
# create ImageScaler for downsampling
scaler = SimpleImageScaler()
def computeWorldCorrection(): x0, y0, z0 = 43324.0, 41836.0, 0.0 x1, y1, z1 = 46780.0, 45532.0, 22950.0 x2, y2, z2 = x0, y0, z1 # A point in the first section that should be directly on top of the x0,y0,z0 x3, y3, z3 = 48164, 23372, 0 trans = Transform3D() trans.setTranslation(Vector3d(-x0, -y0, 0)) rot = Transform3D() p0 = Vector3d(0, 0, z1) p1 = Vector3d(x1 - x0, y1 - y0, z1 - z0) pc = Vector3d() pc.cross(p1, p0) angle = Math.atan(Math.sqrt(Math.pow(x1 - x0, 2) + Math.pow(y1 - y0, 2)) / (z1 - z0)) print angle * 180 / Math.PI rot.setRotation(AxisAngle4d(pc, angle)) t = Transform3D() t.mul(rot) t.mul(trans) # Transform the third point p3 = Point3d(x3, y3, z3) t.transform(p3) print "A p3:", p3 # test p0 = Point3d(x0, y0, z0) t.transform(p0) print "A: p0", p0 p1 = Point3d(x1, y1, z1) t.transform(p1) print "A: p1", p1 # Compute rotation of third point around Z axis rotZ = Transform3D() angleZ = Math.atan((p3.x - 0) / (p3.y - 0)) print "angleZ", angleZ rotZ.setRotation(AxisAngle4d(Vector3d(0,0,1), angleZ)) t.mul(rotZ, t) # test p0 = Point3d(x0, y0, z0) t.transform(p0) print p0 p1 = Point3d(x1, y1, z1) t.transform(p1) print p1 p3 = Point3d(x3, y3, z3) t.transform(p3) print p3 return t
def distxy(self, ox, oy):
return Math.sqrt(Math.pow(self.x - ox, 2) + Math.pow(self.y - oy, 2))
def _distance(o1, o2):
return Math.sqrt(Math.pow(o2.x - o1.x, 2) + Math.pow(o2.y - o1.y, 2))
def vector_y (percept, dist, scale, theta, p):
return Math.sin (deg2pi (180 + self.towards (percept.getX(), percept.getY()))) * theta / Math.pow ((dist / scale), p)
def _distance(o1, o2):
return Math.sqrt(Math.pow(o2.x - o1.x,2) + Math.pow(o2.y - o1.y, 2))
def compute_heading ():
if (mvt_mem.direction=="EAST"):
x_modifier=2000
y_modifier=0
elif (mvt_mem.direction=="WEST"):
x_modifier=-2000
y_modifier=0
elif (mvt_mem.direction=="SOUTH"):
x_modifier=0
y_modifier=+2000
elif (mvt_mem.direction=="NORTH"):
x_modifier=0
y_modifier=-1000
# on construit une liste de TOUS les objets répulsifs
repulsives = percepts.attackers.items () + \
percepts.explorers.items () + \
percepts.homes.items () + \
percepts.friends.items () + \
percepts.obstacles.items ()
# valeurs magiques
theta = 140
scale = 25
p = 2
u = 30
# composantes X et Y du vecteur direction final
X = 0
Y = 0
if repulsives:
for it, dist in repulsives:
X = X + Math.cos (deg2pi (180 + self.towards (it.getX(), it.getY()))) * theta / Math.pow (dist/scale, p)
Y = Y + Math.sin (deg2pi (180 + self.towards (it.getX(), it.getY()))) * theta / Math.pow (dist/scale, p)
toterm ("AFTER REPULSION:"+str(X) +" "+ str(Y))
X = X + Math.cos (deg2pi ( self.getHeading() ))*u
Y = Y + Math.sin (deg2pi ( self.getHeading() ))*u
toterm ("AFTER ATTRACTION:"+str(X) +" "+ str(Y))
X+=x_modifier
Y+=y_modifier
toterm ("NEW HEADING : "+str(self.towards (X, Y)))
self.setHeading (self.towards (X, Y))
def test_pow(self):
self.assertEqual(Math.pow(5, 3), 125)