def __call__(self):
if self.name not in cmd.get_names('objects'):
import threading
threading.Thread(None, cmd.delete, args=(self.cb_name,)).start()
return
v = cmd.get_view()
if v == self.prev_v:
return
self.prev_v = v
t = v[12:15]
if self.corner:
vp = cmd.get_viewport()
R_mc = [v[0:3], v[3:6], v[6:9]]
off_c = [0.15 * v[11] * vp[0] / vp[1], 0.15 * v[11], 0.0]
if self.corner in [2,3]:
off_c[0] *= -1
if self.corner in [3,4]:
off_c[1] *= -1
off_m = cpv.transform(R_mc, off_c)
t = cpv.add(t, off_m)
z = -v[11] / 30.0
m = [z, 0, 0, t[0] / z, 0, z, 0, t[1] / z, 0, 0, z, t[2] / z, 0, 0, 0, 1]
cmd.set_object_ttt(self.name, m, homogenous=1)
def __call__(self):
if self.name not in cmd.get_names('objects'):
import threading
threading.Thread(None, cmd.delete, args=(self.cb_name,)).start()
return
v = cmd.get_view()
if v == self.prev_v:
return
self.prev_v = v
t = v[12:15]
if self.corner:
vp = cmd.get_viewport()
R_mc = [v[0:3], v[3:6], v[6:9]]
off_c = [0.15 * v[11] * vp[0] / vp[1], 0.15 * v[11], 0.0]
if self.corner in [2,3]:
off_c[0] *= -1
if self.corner in [3,4]:
off_c[1] *= -1
off_m = cpv.transform(R_mc, off_c)
t = cpv.add(t, off_m)
z = -v[11] / 30.0
m = [z, 0, 0, 0, 0, z, 0, 0, 0, 0, z, 0, t[0] / z, t[1] / z, t[2] / z, 1]
cmd.set_object_ttt(self.name, m)
def torus(center=(0., 0., 0.), normal=(0., 0., 1.), radius=1., color='',
cradius=.25, samples=20, csamples=20):
'''
Generate and return a torus CGO with given center, normal
and ring radius.
'''
from math import cos, sin, pi
if color and isinstance(color, str):
color = list(cmd.get_color_tuple(color))
obj = []
axis = cpv.cross_product(normal, (0., 0., 1.))
angle = -cpv.get_angle(normal, (0., 0., 1.))
matrix = cpv.rotation_matrix(angle, cpv.normalize(axis))
obj_vertex = lambda x, y, z: obj.extend([VERTEX] + cpv.add(center,
cpv.transform(matrix, [x, y, z])))
obj_normal = lambda x, y, z: obj.extend([NORMAL] +
cpv.transform(matrix, [x, y, z]))
r = radius
cr = cradius
rr = 1.5 * cr
dv = 2 * pi / csamples
dw = 2 * pi / samples
v = 0.0
w = 0.0
while w < 2 * pi:
v = 0.0
c_w = cos(w)
s_w = sin(w)
c_wdw = cos(w + dw)
s_wdw = sin(w + dw)
obj.append(BEGIN)
obj.append(TRIANGLE_STRIP)
if color:
obj.append(COLOR)
obj.extend(color)
while v < 2 * pi + dv:
c_v = cos(v)
s_v = sin(v)
c_vdv = cos(v + dv)
s_vdv = sin(v + dv)
obj_normal(
(r + rr * c_v) * c_w - (r + cr * c_v) * c_w,
(r + rr * c_v) * s_w - (r + cr * c_v) * s_w,
(rr * s_v - cr * s_v))
obj_vertex(
(r + cr * c_v) * c_w,
(r + cr * c_v) * s_w,
cr * s_v)
obj_normal(
(r + rr * c_vdv) * c_wdw - (r + cr * c_vdv) * c_wdw,
(r + rr * c_vdv) * s_wdw - (r + cr * c_vdv) * s_wdw,
rr * s_vdv - cr * s_vdv)
obj_vertex(
(r + cr * c_vdv) * c_wdw,
(r + cr * c_vdv) * s_wdw,
cr * s_vdv)
v += dv
obj.append(END)
w += dw
return obj
def set_view(view, center, trans, volume, persp):
'''
view is their 4x4
center is the centor of rotation in tranformed coordinates
'''
view = list(view)
# print view[0:4]
# print view[4:8]
# print view[8:12]
# print view[12:16]
# print "\nmaestro_center: %8.3f %8.3f %8.3f"%tuple(center)
# print "maestro_transl: %8.3f %8.3f %8.3f"%tuple(trans)
mat = [ view[0:3], view[4:7], view[8:11] ]
tmp = cpv.sub(center,view[12:15])
pymol_center = cpv.transform(mat,tmp)
# print "volumeX: %8.3f %8.3f"%(tuple(volume[0:2]))
# print "volumeY: %8.3f %8.3f"%(tuple(volume[2:4]))
# print "volumeZ: %8.3f %8.3f"%(tuple(volume[4:6]))
# print "pymol_center: %8.3f %8.3f %8.3f"%tuple(pymol_center)
# print persp
if persp<0.0:
pymol_ortho = 1.0
else:
pymol_ortho = 0.0
if pymol_ortho==0.0:
fov = 1 + 100*(persp - 1.0)/3.0
cmd.set('field_of_view',fov)
fov = (math.pi * float(cmd.get("field_of_view")) / 180.0)
# unclear why we have to multiple by 1.17 to get the correct look
camera_dist = 1.17 * (abs(volume[2] - volume[3])/2.0)/math.atan(fov/2.0)
vol_center = [ (volume[0]+volume[1])/2.0,
(volume[2]+volume[3])/2.0,
(volume[4]+volume[5])/2.0 ]
pymol_objective = [ trans[0] + center[0] - vol_center[0],
trans[1] + center[1] - vol_center[1],
-camera_dist ]
# print "pymol_objective: %8.3f %8.3f %8.3f"%tuple(pymol_objective)
pymol_front = center[2] + trans[2] - volume[4] - pymol_objective[2]
pymol_back = center[2] + trans[2] - volume[5] - pymol_objective[2]
pymol_view = cmd.get_view()
cur_view = ( view[0:3] + view[4:7] + view[8:11] +
pymol_objective + pymol_center +
[ pymol_front, pymol_back, pymol_ortho ] )
# print cur_view
cmd.set_view(tuple(cur_view))
def torus(center=(0., 0., 0.), normal=(0., 0., 1.), radius=1., color='',
cradius=.25, samples=20, csamples=20, _self=cmd):
'''
Generate and return a torus CGO with given center, normal
and ring radius.
'''
from math import cos, sin, pi
if color and isinstance(color, str):
color = list(_self.get_color_tuple(color))
obj = []
axis = cpv.cross_product(normal, (0., 0., 1.))
angle = -cpv.get_angle(normal, (0., 0., 1.))
matrix = cpv.rotation_matrix(angle, cpv.normalize(axis))
obj_vertex = lambda x, y, z: obj.extend([VERTEX] + cpv.add(center,
cpv.transform(matrix, [x, y, z])))
obj_normal = lambda x, y, z: obj.extend([NORMAL] +
cpv.transform(matrix, [x, y, z]))
r = radius
cr = cradius
rr = 1.5 * cr
dv = 2 * pi / csamples
dw = 2 * pi / samples
v = 0.0
w = 0.0
while w < 2 * pi:
v = 0.0
c_w = cos(w)
s_w = sin(w)
c_wdw = cos(w + dw)
s_wdw = sin(w + dw)
obj.append(BEGIN)
obj.append(TRIANGLE_STRIP)
if color:
obj.append(COLOR)
obj.extend(color)
while v < 2 * pi + dv:
c_v = cos(v)
s_v = sin(v)
c_vdv = cos(v + dv)
s_vdv = sin(v + dv)
obj_normal(
(r + rr * c_v) * c_w - (r + cr * c_v) * c_w,
(r + rr * c_v) * s_w - (r + cr * c_v) * s_w,
(rr * s_v - cr * s_v))
obj_vertex(
(r + cr * c_v) * c_w,
(r + cr * c_v) * s_w,
cr * s_v)
obj_normal(
(r + rr * c_vdv) * c_wdw - (r + cr * c_vdv) * c_wdw,
(r + rr * c_vdv) * s_wdw - (r + cr * c_vdv) * s_wdw,
rr * s_vdv - cr * s_vdv)
obj_vertex(
(r + cr * c_vdv) * c_wdw,
(r + cr * c_vdv) * s_wdw,
cr * s_vdv)
v += dv
obj.append(END)
w += dw
return obj
def obj_normal(x, y, z):
return [cgo.NORMAL] + cpv.transform(matrix, [x, y, z])
def obj_vertex(x, y, z):
return [cgo.VERTEX] + cpv.add(self.center.array(),
cpv.transform(matrix, [x, y, z]))