def setup_sdf(pot,prog,sigv,td,ro,vo,multi=None,nTrackChunks=8,isob=None,
trailing_only=False,verbose=True,useTM=True,logpot=False):
"""Simple function to setup the stream model"""
if isob is None:
if True or logpot:
isob= 0.75
if False:
# Determine good one
ts= numpy.linspace(0.,15.,1001)
# Hack!
epot= copy.deepcopy(pot)
epot[2]._b= 1.
epot[2]._b2= 1.
epot[2]._isNonAxi= False
epot[2]._aligned= True
prog.integrate(ts,pot)
estb= estimateBIsochrone(epot,
prog.R(ts,use_physical=False),
prog.z(ts,use_physical=False),
phi=prog.phi(ts,use_physical=False))
if estb[1] < 0.3: isob= 0.3
elif estb[1] > 1.5: isob= 1.5
else: isob= estb[1]
if verbose: print(pot[2]._c, isob,estb)
if not logpot and numpy.fabs(pot[2]._b-1.) > 0.05:
aAI= actionAngleIsochroneApprox(pot=pot,b=isob,tintJ=1000.,
ntintJ=30000)
else:
ts= numpy.linspace(0.,100.,10000)
aAI= actionAngleIsochroneApprox(pot=pot,b=isob,tintJ=100.,
ntintJ=10000,dt=ts[1]-ts[0])
if useTM:
aAT= actionAngleTorus(pot=pot,tol=0.001,dJ=0.0001)
else:
aAT= False
try:
sdf=\
streamdf(sigv/vo,progenitor=prog,pot=pot,aA=aAI,
useTM=aAT,approxConstTrackFreq=True,
leading=True,nTrackChunks=nTrackChunks,
tdisrupt=td/bovy_conversion.time_in_Gyr(vo,ro),
ro=ro,vo=vo,R0=ro,
vsun=[-11.1,vo+24.,7.25],
custom_transform=_TKOP,
multi=multi,
nospreadsetup=True)
except numpy.linalg.LinAlgError:
sdf=\
streamdf(sigv/vo,progenitor=prog,pot=pot,aA=aAI,
useTM=aAT,approxConstTrackFreq=True,
leading=True,nTrackChunks=nTrackChunks,
nTrackIterations=0,
tdisrupt=td/bovy_conversion.time_in_Gyr(vo,ro),
ro=ro,vo=vo,R0=ro,
vsun=[-11.1,vo+24.,7.25],
custom_transform=_TKOP,
multi=multi)
return sdf
def calc_aA_sim(RvR,filename,snap_gc):
# Calculate the action angle variables for a simulation and store
if not os.path.exists(filename):
aAI= actionAngleIsochroneApprox(pot=lp,b=0.8)
nbatch= 20
multiOut= multi.parallel_map(\
lambda x: aAI.actionsFreqsAngles(RvR[x*nbatch:(x+1)*nbatch,0]/R0,
RvR[x*nbatch:(x+1)*nbatch,1]/V0,
RvR[x*nbatch:(x+1)*nbatch,2]/V0,
RvR[x*nbatch:(x+1)*nbatch,3]/R0,
RvR[x*nbatch:(x+1)*nbatch,4]/V0,
RvR[x*nbatch:(x+1)*nbatch,5]),
range(len(snap_gc)//nbatch),
numcores=25)
acfs= numpy.reshape(numpy.swapaxes(numpy.array(multiOut),0,1),
(9,numpy.prod(numpy.array(multiOut).shape)//9))
# Write to file
csvfile= open(filename,'w')
writer= csv.writer(csvfile,delimiter=',')
for jj in range(len(acfs[0])):
writer.writerow([acfs[0][jj],acfs[1][jj],acfs[2][jj],
acfs[3][jj],acfs[4][jj],acfs[5][jj],
acfs[6][jj],acfs[7][jj],acfs[8][jj]])
csvfile.flush()
csvfile.close()
else:
acfs= numpy.loadtxt(filename,delimiter=',').T
return acfs
def nemo_prog_action_angle(x, y, z, vx, vy, vz, R0, V0, q, end_time, delta, C_use):
"""
Parameter:
-------------------------------------------------------
x, y, z : initial position of the progenitor
vx, vy, vz : initial velocity of the progenitor
R0, V0 : radius and circular velocity
q : flattening parameter
end_time : time when the simulation ended
delta : focal distance
C_use : True/False - to use C code or not
Returns:
-------------------------------------------------------
action-angle coordinates and the omega (frequency) as an array
array([jr,lz,jz,Omegar,Omegaphi,Omegaz,angler,anglephi,anglez])
This is for the progenitor.
"""
p = LogarithmicHaloPotential(q = q, normalize = 1.)
xyz_to_cyl_vect = np.vectorize(xyz_to_cyl)
vxvyvz_to_vrvtvz_vect = np.vectorize(vxvyvz_to_vrvtvz)
R, zz , phi = xyz_to_cyl_vect(x, y, z)
vR, vT, vz = vxvyvz_to_vrvtvz_vect(x, y, z, vx, vy, vz)
# convert to natural units for use in galpy
R /= R0
zz /= R0
vR /= V0
vT /= V0
vz /= V0
# initializing the orbit
o = Orbit(vxvv=[R, vR, vT, zz, vz, phi], ro=R0, vo=V0)
# to convert the time units to normal
t = end_time * (V0/R0)
time = np.linspace(0., t, 1e4)
o.integrate(time, p)
Rf = o.R(time)
zzf = o.z(time)
vRf = o.vR(time)
vTf = o.vT(time)
vzf = o.vz(time)
phif = o.phi(time)
aAS = actionAngleIsochroneApprox(pot=p, b=0.8) #actionAngleStaeckel(pot = p, delta = delta, c = C_use)
val = aAS.actionsFreqsAngles(Rf, vRf, vTf, zzf, vzf, phif)
return val
def test_trailingwleadingimpact_error():
#Imports
from galpy.df import streamgapdf
from galpy.orbit import Orbit
from galpy.potential import LogarithmicHaloPotential
from galpy.actionAngle import actionAngleIsochroneApprox
from galpy.util import conversion #for unit conversions
lp = LogarithmicHaloPotential(normalize=1., q=0.9)
aAI = actionAngleIsochroneApprox(pot=lp, b=0.8)
prog_unp_peri = Orbit([
2.6556151742081835, 0.2183747276300308, 0.67876510797240575,
-2.0143395648974671, -0.3273737682604374, 0.24218273922966019
])
V0, R0 = 220., 8.
sigv = 0.365 * (10. / 2.)**(1. / 3.) # km/s
with pytest.raises(ValueError) as excinfo:
dum= streamgapdf(sigv/V0,progenitor=prog_unp_peri,pot=lp,aA=aAI,
leading=False,nTrackChunks=26,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0,
impactb=0.,
subhalovel=numpy.array([6.82200571,132.7700529,
149.4174464])/V0,
timpact=0.88/conversion.time_in_Gyr(V0,R0),
impact_angle=2.34,
GM=10.**-2.\
/conversion.mass_in_1010msol(V0,R0),
rs=0.625/R0)
return None
def test_actionAngleTorus_isochroneApprox_actions():
from galpy.potential import MWPotential2014
from galpy.actionAngle import actionAngleTorus, \
actionAngleIsochroneApprox
aAIA = actionAngleIsochroneApprox(pot=MWPotential2014, b=0.8)
tol = -2.5
aAT = actionAngleTorus(pot=MWPotential2014, tol=tol)
jr, jphi, jz = 0.075, 1.1, 0.05
angler = numpy.array([0.])
anglephi = numpy.array([numpy.pi])
anglez = numpy.array([numpy.pi / 2.])
# Calculate position from aAT
RvR = aAT(jr, jphi, jz, angler, anglephi, anglez).T
# Calculate actions from aAIA
ji = aAIA(*RvR)
djr = numpy.fabs((ji[0] - jr) / jr)
dlz = numpy.fabs((ji[1] - jphi) / jphi)
djz = numpy.fabs((ji[2] - jz) / jz)
assert djr < 10.**tol, 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Jr at %f%%' % (
djr * 100.)
assert dlz < 10.**tol, 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Jr at %f%%' % (
dlz * 100.)
assert djz < 10.**tol, 'actionAngleTorus and actionAngleMWPotential2014 applied to MWPotential2014 potential disagree for Jr at %f%%' % (
djz * 100.)
return None
def calc_aA_sim(RvR, filename, snap_gc):
# Calculate the action angle variables for a simulation and store
if not os.path.exists(filename):
aAI = actionAngleIsochroneApprox(pot=lp, b=0.8)
nbatch = 20
multiOut= multi.parallel_map(\
lambda x: aAI.actionsFreqsAngles(RvR[x*nbatch:(x+1)*nbatch,0]/R0,
RvR[x*nbatch:(x+1)*nbatch,1]/V0,
RvR[x*nbatch:(x+1)*nbatch,2]/V0,
RvR[x*nbatch:(x+1)*nbatch,3]/R0,
RvR[x*nbatch:(x+1)*nbatch,4]/V0,
RvR[x*nbatch:(x+1)*nbatch,5]),
range(len(snap_gc)//nbatch),
numcores=25)
acfs = numpy.reshape(numpy.swapaxes(numpy.array(multiOut), 0, 1),
(9, numpy.prod(numpy.array(multiOut).shape) // 9))
# Write to file
csvfile = open(filename, 'w')
writer = csv.writer(csvfile, delimiter=',')
for jj in range(len(acfs[0])):
writer.writerow([
acfs[0][jj], acfs[1][jj], acfs[2][jj], acfs[3][jj],
acfs[4][jj], acfs[5][jj], acfs[6][jj], acfs[7][jj], acfs[8][jj]
])
csvfile.flush()
csvfile.close()
else:
acfs = numpy.loadtxt(filename, delimiter=',').T
return acfs
def test_setupimpact_error():
#Imports
from galpy.df import streamgapdf
from galpy.orbit import Orbit
from galpy.potential import LogarithmicHaloPotential
from galpy.actionAngle import actionAngleIsochroneApprox
from galpy.util import bovy_conversion #for unit conversions
lp= LogarithmicHaloPotential(normalize=1.,q=0.9)
aAI= actionAngleIsochroneApprox(pot=lp,b=0.8)
prog_unp_peri= Orbit([2.6556151742081835,
0.2183747276300308,
0.67876510797240575,
-2.0143395648974671,
-0.3273737682604374,
0.24218273922966019])
V0, R0= 220., 8.
sigv= 0.365*(10./2.)**(1./3.) # km/s
dum= streamgapdf(sigv/V0,progenitor=prog_unp_peri,pot=lp,aA=aAI,
leading=False,nTrackChunks=26,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/bovy_conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0,
impactb=0.,
subhalovel=numpy.array([6.82200571,132.7700529,
149.4174464])/V0,
timpact=0.88/bovy_conversion.time_in_Gyr(V0,R0),
impact_angle=-2.34)
# Should be including these:
# GM=10.**-2.\
# /bovy_conversion.mass_in_1010msol(V0,R0),
# rs=0.625/R0)
return None
def nemo_coord_convert(pos, vel, q, delta, C_use, ro, vo, m, n):
"""
Parameter:
-------------------------------------------------------
pos : x, y, z position as an array
vel : vx, vy, vz velocities as an array
q : flattening parameter for Logarithmic potential
delta : focal distance
C_use : True/False - to use C code or not
ro : radius for conversio to natural units (usually 8 kpc)
vo : velocity conversio to natural units(usually 220 km/s)
Returns:
-------------------------------------------------------
action-angle coordinates and the omega (frequency) as an array
array([jr,lz,jz,Omegar,Omegaphi,Omegaz,angler,anglephi,anglez])
This is for the tail.
"""
# Logarithmic potential and action-angle function initiated
p = LogarithmicHaloPotential(q = q, normalize = 1.)
aAS = actionAngleIsochroneApprox(pot=p, b=0.8)#actionAngleStaeckel(pot = p, delta = delta, c = C_use)
# position and velocity in cartesian coordinates
# This flips y and z and vy and vz columns
x, y, z = pos[0], pos[2], pos[1]
vx, vy, vz = vel[0], vel[2], vel[1]
# make these functions vectorizable to use with arrays
xyz_to_cyl_vect = np.vectorize(xyz_to_cyl)
vxvyvz_to_vrvtvz_vect = np.vectorize(vxvyvz_to_vrvtvz)
# position and velocity in cylindrical coordinates
R, zz , phi = xyz_to_cyl_vect(x, y, z)
vR, vT, vz = vxvyvz_to_vrvtvz_vect(x, y, z, vx, vy, vz)
ro = ro
vo = vo
# convert to natural units for use in galpy
R /= ro
zz /= ro
vR /= vo
vT /= vo
vz /= vo
# action-angle and omega values
val = aAS.actionsFreqsAngles(R[m:n],vR[m:n],vT[m:n],zz[m:n],vz[m:n],phi[m:n])
return val
def aA_prog(ptype):
"""
Parameters
----------------------------------------------------------------------------------
ptype : potential type. It can be either "Log" for logarithmic potential or
"MW" for Milky Way 2014 potential.
Return
----------------------------------------------------------------------------------
action-angle values of the progenitor for GD-1 stream given the potentia type
"""
# setting up the action-angle instance
if ptype == "Log":
lp = potential.LogarithmicHaloPotential(q=0.9, normalize=1.)
aAS = actionAngleIsochroneApprox(pot = lp, b=0.8)
elif ptype == "MW":
aAS = actionAngleIsochroneApprox(pot = MWPotential2014, b=0.6, tintJ=1000,ntintJ=2000)
# current position and velocity of the GD-1 stream progenitor in cartesian coordinates
x, y, z = np.array([12.4, 1.5, 7.1])
vx, vy, vz = np.array([107., -243., -105.])
# current position and velocity in cylindrical coordinate
R, phi, zz = bovy_coords.rect_to_cyl(x, y, z)
vR, vT, vz = bovy_coords.rect_to_cyl_vec(vx, vy, vz, x, y, z, cyl = False)
ro = 8.0
vo = 220.0
# converting to galpy natural units
R /= ro
zz /= ro
vR /= vo
vT /= vo
vz /= vo
# computing the action-angle coordinates
val = aAS.actionsFreqsAngles(R, vR, vT, zz, vz, phi)
return val
def test_actionAngleTorus_isochroneApprox_freqsAngles():
from galpy.potential import MWPotential2014
from galpy.actionAngle import actionAngleTorus, \
actionAngleIsochroneApprox
aAIA = actionAngleIsochroneApprox(pot=MWPotential2014, b=0.8)
tol = -3.5
aAT = actionAngleTorus(pot=MWPotential2014, tol=tol)
jr, jphi, jz = 0.075, 1.1, 0.05
angler = numpy.array([0.1]) + numpy.linspace(0., numpy.pi, 21)
angler = angler % (2. * numpy.pi)
anglephi = numpy.array([numpy.pi]) + numpy.linspace(0., numpy.pi, 21)
anglephi = anglephi % (2. * numpy.pi)
anglez = numpy.array([numpy.pi / 2.]) + numpy.linspace(0., numpy.pi, 21)
anglez = anglez % (2. * numpy.pi)
# Calculate position from aAT
RvRom = aAT.xvFreqs(jr, jphi, jz, angler, anglephi, anglez)
# Calculate actions, frequencies, and angles from aAI
ws = aAIA.actionsFreqsAngles(*RvRom[0].T)
dOr = numpy.fabs((ws[3] - RvRom[1]))
dOp = numpy.fabs((ws[4] - RvRom[2]))
dOz = numpy.fabs((ws[5] - RvRom[3]))
dar = numpy.fabs((ws[6] - angler))
dap = numpy.fabs((ws[7] - anglephi))
daz = numpy.fabs((ws[8] - anglez))
dar[dar > numpy.pi] -= 2. * numpy.pi
dar[dar < -numpy.pi] += 2. * numpy.pi
dap[dap > numpy.pi] -= 2. * numpy.pi
dap[dap < -numpy.pi] += 2. * numpy.pi
daz[daz > numpy.pi] -= 2. * numpy.pi
daz[daz < -numpy.pi] += 2. * numpy.pi
assert numpy.all(
dOr < 10.**tol
), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Or at %f%%' % (
numpy.nanmax(dOr) * 100.)
assert numpy.all(
dOp < 10.**tol
), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Ophi at %f%%' % (
numpy.nanmax(dOp) * 100.)
assert numpy.all(
dOz < 10.**tol
), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Oz at %f%%' % (
numpy.nanmax(dOz) * 100.)
assert numpy.all(
dar < 10.**tol
), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for ar at %f' % (
numpy.nanmax(dar))
assert numpy.all(
dap < 10.**tol
), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for aphi at %f' % (
numpy.nanmax(dap))
assert numpy.all(
daz < 10.**tol
), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for az at %f' % (
numpy.nanmax(daz))
return None
def setup_gd1model(leading=True,
timpact=None,
hernquist=True,
age=9.,
singleImpact=False,
length_factor=1.,
**kwargs):
lp = LogarithmicHaloPotential(normalize=1., q=0.9)
aAI = actionAngleIsochroneApprox(pot=lp, b=0.8)
obs = Orbit([
1.56148083, 0.35081535, -1.15481504, 0.88719443, -0.47713334,
0.12019596
])
sigv = 0.365 / 2. * (9. / age) #km/s, /2 bc tdis x2, adjust for diff. age
if timpact is None:
sdf = streamdf(sigv / 220.,
progenitor=obs,
pot=lp,
aA=aAI,
leading=leading,
nTrackChunks=11,
tdisrupt=age / bovy_conversion.time_in_Gyr(V0, R0),
Vnorm=V0,
Rnorm=R0)
elif singleImpact:
sdf = streamgapdf(sigv / 220.,
progenitor=obs,
pot=lp,
aA=aAI,
leading=leading,
nTrackChunks=11,
tdisrupt=age / bovy_conversion.time_in_Gyr(V0, R0),
Vnorm=V0,
Rnorm=R0,
timpact=timpact,
spline_order=3,
hernquist=hernquist,
**kwargs)
else:
sdf = streampepperdf(sigv / 220.,
progenitor=obs,
pot=lp,
aA=aAI,
leading=leading,
nTrackChunks=101,
tdisrupt=age /
bovy_conversion.time_in_Gyr(V0, R0),
Vnorm=V0,
Rnorm=R0,
timpact=timpact,
spline_order=1,
hernquist=hernquist,
length_factor=length_factor)
sdf.turn_physical_off()
return sdf
def setup_phxmodel(leading=False,
timpact=None,
hernquist=True,
age=1.5,
singleImpact=False,
length_factor=1.,
obs = obs,
sigvmod = .23,
progIsTrack=False,
**kwargs):
#obs= Orbit([229.018,-0.124,23.2,-2.296,-2.257,-58.7],
# radec=True,ro=R0,vo=V0,
# solarmotion=[-11.1,24.,7.25])
aAI= actionAngleIsochroneApprox(pot=MWPotential2014,b=0.8458)
sigv= sigvmod*(5./age) #km/s, adjust for diff. age
if timpact is None:
sdf= streamdf(sigv/V0,progenitor=obs,
pot=MWPotential2014,aA=aAI,
leading=leading,nTrackChunks=11, progIsTrack=progIsTrack,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
ro=R0,vo=V0,R0=R0,
vsun=[-11.1,V0+24.,7.25],**kwargs)
elif singleImpact:
sdf= streamgapdf(sigv/V0,progenitor=obs,
pot=MWPotential2014,aA=aAI,
leading=leading,nTrackChunks=11,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
ro=R0,vo=V0,R0=R0,
vsun=[-11.1,V0+24.,7.25],
timpact= 0.3/bovy_conversion.time_in_Gyr(V0,R0),
spline_order=3,
hernquist=hernquist,
impact_angle=0.7,
impactb=0.,
GM= 10.**-2./bovy_conversion.mass_in_1010msol(V0,R0),
rs= 0.625/R0,
subhalovel=np.array([6.82200571,132.7700529,14.4174464])/V0,
**kwargs)
else:
sdf= streampepperdf(sigv/V0,progenitor=obs,
pot=MWPotential2014,aA=aAI,
leading=leading,nTrackChunks=101,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
ro=R0,vo=V0,R0=R0,
vsun=[-11.1,V0+24.,7.25],
timpact=timpact,
spline_order=1,
hernquist=hernquist,
length_factor=length_factor)
sdf.turn_physical_off()
return sdf
def test_sanders15_setup():
#Imports
from galpy.df import streamdf, streamgapdf
from galpy.orbit import Orbit
from galpy.potential import LogarithmicHaloPotential
from galpy.actionAngle import actionAngleIsochroneApprox
from galpy.util import bovy_conversion #for unit conversions
lp= LogarithmicHaloPotential(normalize=1.,q=0.9)
aAI= actionAngleIsochroneApprox(pot=lp,b=0.8)
prog_unp_peri= Orbit([2.6556151742081835,
0.2183747276300308,
0.67876510797240575,
-2.0143395648974671,
-0.3273737682604374,
0.24218273922966019])
global sdf_sanders15
V0, R0= 220., 8.
sigv= 0.365*(10./2.)**(1./3.) # km/s
sdf_sanders15= streamgapdf(sigv/V0,progenitor=prog_unp_peri,pot=lp,aA=aAI,
leading=False,nTrackChunks=26,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/bovy_conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0,
impactb=0.,
subhalovel=numpy.array([6.82200571,132.7700529,
149.4174464])/V0,
timpact=0.88/bovy_conversion.time_in_Gyr(V0,R0),
impact_angle=-2.34,
GM=10.**-2.\
/bovy_conversion.mass_in_1010msol(V0,R0),
rs=0.625/R0)
assert not sdf_sanders15 is None, 'sanders15 streamgapdf setup did not work'
# Also setup the unperturbed model
global sdf_sanders15_unp
sdf_sanders15_unp= streamdf(sigv/V0,progenitor=prog_unp_peri,pot=lp,aA=aAI,
leading=False,nTrackChunks=26,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/bovy_conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0)
assert not sdf_sanders15_unp is None, \
'sanders15 unperturbed streamdf setup did not work'
return None
def test_sanders15_setup():
#Imports
from galpy.df import streamdf, streamgapdf
from galpy.orbit import Orbit
from galpy.potential import LogarithmicHaloPotential
from galpy.actionAngle import actionAngleIsochroneApprox
from galpy.util import conversion #for unit conversions
lp = LogarithmicHaloPotential(normalize=1., q=0.9)
aAI = actionAngleIsochroneApprox(pot=lp, b=0.8)
prog_unp_peri = Orbit([
2.6556151742081835, 0.2183747276300308, 0.67876510797240575,
-2.0143395648974671, -0.3273737682604374, 0.24218273922966019
])
global sdf_sanders15
V0, R0 = 220., 8.
sigv = 0.365 * (10. / 2.)**(1. / 3.) # km/s
sdf_sanders15= streamgapdf(sigv/V0,progenitor=prog_unp_peri,pot=lp,aA=aAI,
leading=False,nTrackChunks=26,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0,
impactb=0.,
subhalovel=numpy.array([6.82200571,132.7700529,
149.4174464])/V0,
timpact=0.88/conversion.time_in_Gyr(V0,R0),
impact_angle=-2.34,
GM=10.**-2.\
/conversion.mass_in_1010msol(V0,R0),
rs=0.625/R0)
assert not sdf_sanders15 is None, 'sanders15 streamgapdf setup did not work'
# Also setup the unperturbed model
global sdf_sanders15_unp
sdf_sanders15_unp= streamdf(sigv/V0,progenitor=prog_unp_peri,pot=lp,aA=aAI,
leading=False,nTrackChunks=26,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0)
assert not sdf_sanders15_unp is None, \
'sanders15 unperturbed streamdf setup did not work'
return None
def setup_pal5model(leading=False,
timpact=None,
hernquist=True,
age=5.,
singleImpact=False,
length_factor=1.,
**kwargs):
obs= Orbit([229.018,-0.124,23.2,-2.296,-2.257,-58.7],
radec=True,ro=R0,vo=V0,
solarmotion=[-11.1,24.,7.25])
aAI= actionAngleIsochroneApprox(pot=MWPotential2014,b=0.8)
sigv= 0.5*(5./age) #km/s, adjust for diff. age
if timpact is None:
sdf= streamdf(sigv/V0,progenitor=obs,
pot=MWPotential2014,aA=aAI,
leading=leading,nTrackChunks=11,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
Rnorm=R0,Vnorm=V0,R0=R0,
vsun=[-11.1,V0+24.,7.25],
custom_transform=_TPAL5)
elif singleImpact:
sdf= streamgapdf(sigv/V0,progenitor=obs,
pot=MWPotential2014,aA=aAI,
leading=leading,nTrackChunks=11,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
Rnorm=R0,Vnorm=V0,R0=R0,
vsun=[-11.1,V0+24.,7.25],
custom_transform=_TPAL5,
timpact=timpact,
spline_order=3,
hernquist=hernquist,**kwargs)
else:
sdf= streampepperdf(sigv/V0,progenitor=obs,
pot=MWPotential2014,aA=aAI,
leading=leading,nTrackChunks=101,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
Rnorm=R0,Vnorm=V0,R0=R0,
vsun=[-11.1,V0+24.,7.25],
custom_transform=_TPAL5,
timpact=timpact,
spline_order=1,
hernquist=hernquist,
length_factor=length_factor)
return sdf
def test_actionAngleTorus_isochroneApprox_actions():
from galpy.potential import MWPotential2014
from galpy.actionAngle import actionAngleTorus, \
actionAngleIsochroneApprox
aAIA= actionAngleIsochroneApprox(pot=MWPotential2014,b=0.8)
tol= -2.5
aAT= actionAngleTorus(pot=MWPotential2014,tol=tol)
jr,jphi,jz= 0.075,1.1,0.05
angler= numpy.array([0.])
anglephi= numpy.array([numpy.pi])
anglez= numpy.array([numpy.pi/2.])
# Calculate position from aAT
RvR= aAT(jr,jphi,jz,angler,anglephi,anglez).T
# Calculate actions from aAIA
ji= aAIA(*RvR)
djr= numpy.fabs((ji[0]-jr)/jr)
dlz= numpy.fabs((ji[1]-jphi)/jphi)
djz= numpy.fabs((ji[2]-jz)/jz)
assert djr < 10.**tol, 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Jr at %f%%' % (djr*100.)
assert dlz < 10.**tol, 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Jr at %f%%' % (dlz*100.)
assert djz < 10.**tol, 'actionAngleTorus and actionAngleMWPotential2014 applied to MWPotential2014 potential disagree for Jr at %f%%' % (djz*100.)
return None
def test_actionAngleTorus_isochroneApprox_freqsAngles():
from galpy.potential import MWPotential2014
from galpy.actionAngle import actionAngleTorus, \
actionAngleIsochroneApprox
aAIA= actionAngleIsochroneApprox(pot=MWPotential2014,b=0.8)
tol= -3.5
aAT= actionAngleTorus(pot=MWPotential2014,tol=tol)
jr,jphi,jz= 0.075,1.1,0.05
angler= numpy.array([0.1])+numpy.linspace(0.,numpy.pi,21)
angler= angler % (2.*numpy.pi)
anglephi= numpy.array([numpy.pi])+numpy.linspace(0.,numpy.pi,21)
anglephi= anglephi % (2.*numpy.pi)
anglez= numpy.array([numpy.pi/2.])+numpy.linspace(0.,numpy.pi,21)
anglez= anglez % (2.*numpy.pi)
# Calculate position from aAT
RvRom= aAT.xvFreqs(jr,jphi,jz,angler,anglephi,anglez)
# Calculate actions, frequencies, and angles from aAI
ws= aAIA.actionsFreqsAngles(*RvRom[0].T)
dOr= numpy.fabs((ws[3]-RvRom[1]))
dOp= numpy.fabs((ws[4]-RvRom[2]))
dOz= numpy.fabs((ws[5]-RvRom[3]))
dar= numpy.fabs((ws[6]-angler))
dap= numpy.fabs((ws[7]-anglephi))
daz= numpy.fabs((ws[8]-anglez))
dar[dar > numpy.pi]-= 2.*numpy.pi
dar[dar < -numpy.pi]+= 2.*numpy.pi
dap[dap > numpy.pi]-= 2.*numpy.pi
dap[dap < -numpy.pi]+= 2.*numpy.pi
daz[daz > numpy.pi]-= 2.*numpy.pi
daz[daz < -numpy.pi]+= 2.*numpy.pi
assert numpy.all(dOr < 10.**tol), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Or at %f%%' % (numpy.nanmax(dOr)*100.)
assert numpy.all(dOp < 10.**tol), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Ophi at %f%%' % (numpy.nanmax(dOp)*100.)
assert numpy.all(dOz < 10.**tol), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for Oz at %f%%' % (numpy.nanmax(dOz)*100.)
assert numpy.all(dar < 10.**tol), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for ar at %f' % (numpy.nanmax(dar))
assert numpy.all(dap < 10.**tol), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for aphi at %f' % (numpy.nanmax(dap))
assert numpy.all(daz < 10.**tol), 'actionAngleTorus and actionAngleIsochroneApprox applied to MWPotential2014 potential disagree for az at %f' % (numpy.nanmax(daz))
return None
def setup_gd1model(leading=True,
timpact=None,
hernquist=True,
age=9.,
singleImpact=False,
length_factor=1.,
**kwargs):
lp= LogarithmicHaloPotential(normalize=1.,q=0.9)
aAI= actionAngleIsochroneApprox(pot=lp,b=0.8)
obs= Orbit([1.56148083,0.35081535,-1.15481504,0.88719443,
-0.47713334,0.12019596])
sigv= 0.365/2.*(9./age) #km/s, /2 bc tdis x2, adjust for diff. age
if timpact is None:
sdf= streamdf(sigv/220.,progenitor=obs,pot=lp,aA=aAI,leading=leading,
nTrackChunks=11,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0)
elif singleImpact:
sdf= streamgapdf(sigv/220.,progenitor=obs,pot=lp,aA=aAI,
leading=leading,
nTrackChunks=11,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0,
timpact=timpact,
spline_order=3,
hernquist=hernquist,**kwargs)
else:
sdf= streampepperdf(sigv/220.,progenitor=obs,pot=lp,aA=aAI,
leading=leading,
nTrackChunks=101,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0,
timpact=timpact,
spline_order=1,
hernquist=hernquist,
length_factor=length_factor)
return sdf
def compute_AA(self, potential, dt=0.01 * u.Myr, AAi=None, method='S'):
'''
Compute action angle coordinates for a propagated orbit.
'''
from galpy.orbit import Orbit
if (AAi is None):
AAi = range(self.size)
AAi = np.atleast_1d(AAi)
# Integration time step
self.dt = dt
nsteps = np.ceil((self.tflight / self.dt).to('1').value)
nsteps[nsteps < 100] = 100
# Initialize position in cylindrical coords
rho = self.r0 * np.sin(self.theta0)
z = self.r0 * np.cos(self.theta0)
phi = self.phi0
#... and velocity
vR = self.v0 * np.sin(self.thetav0) * np.cos(self.phiv0)
vT = self.v0 * np.sin(self.thetav0) * np.sin(self.phiv0)
vz = self.v0 * np.cos(self.thetav0)
# Initialize empty arrays to save orbit data and integration steps
self.orbits = [None] * self.size
AA = [np.zeros((3, int(nsteps[i]))) for i in AAi]
if (method != 'S'):
from galpy.actionAngle import actionAngleIsochroneApprox, actionAngleAdiabatic
aAA = actionAngleIsochroneApprox(pot=potential,
c=True,
ro=8.,
vo=220.)
else:
from galpy.actionAngle import estimateDeltaStaeckel, actionAngleStaeckel
k = 0
for i in AAi:
ts = np.linspace(0, 1, nsteps[i]) * self.tflight[i]
self.orbits[i] = Orbit(
vxvv=[rho[i], vR[i], vT[i], z[i], vz[i], phi[i]],
solarmotion=self.solarmotion)
self.orbits[i].integrate(ts, potential, method='dopr54_c')
if (method == 'S'):
delta = estimateDeltaStaeckel(potential,
self.orbits[i].R(ts) * u.kpc,
self.orbits[i].z(ts) * u.kpc)
aAA = actionAngleStaeckel(pot=potential,
c=True,
ro=8.,
vo=220.,
delta=delta)
AA[k] = aAA(self.orbits[i].R(ts) * u.kpc,
self.orbits[i].vR(ts) * u.km / u.s,
self.orbits[i].vT(ts) * u.km / u.s,
self.orbits[i].z(ts) * u.kpc,
self.orbits[i].vz(ts) * u.km / u.s)
#AA[k] = aAA(self.orbits[i].R(ts)/8, self.orbits[i].vR(ts)/220, self.orbits[i].vT(ts)/220, self.orbits[i].z(ts)/8, self.orbits[i].vz(ts)/220)
k += 1
return AA
import astropy.units as u
import scipy
from astropy.coordinates import SkyCoord
from matplotlib.colors import LogNorm
import photErrorModel as pem
from scipy.interpolate import interp1d
#%pylab inline
R0, V0 = 8., 220.
save_figures = True
prog = Orbit([229.018, -0.124, 23.2, -2.296, -2.257, -58.7],
radec=True,
ro=R0,
vo=V0,
solarmotion=[-11.1, 24., 7.25])
aAI = actionAngleIsochroneApprox(pot=MWPotential2014, b=0.8)
sigv = 0.5
######################################################################
######################################################################
######################################################################
_RAPAL5 = 229.018 / 180. * numpy.pi
_DECPAL5 = -0.124 / 180. * numpy.pi
_TPAL5 = numpy.dot(
numpy.array([[numpy.cos(_DECPAL5), 0.,
numpy.sin(_DECPAL5)], [0., 1., 0.],
[-numpy.sin(_DECPAL5), 0.,
numpy.cos(_DECPAL5)]]),
numpy.array([[numpy.cos(_RAPAL5),
numpy.sin(_RAPAL5), 0.],
def setup_mockgd1model(leading=True,
pot=MWPotential2014,
timpact=None,
Zsun=0.025,
hernquist=True,
isob=0.8,
age=9.,
sigv=0.46,
singleImpact=False,
length_factor=1.,
**kwargs):
aAI = actionAngleIsochroneApprox(pot=pot, b=isob)
obs = Orbit.from_name("GD1")
if timpact is None:
sdf = streamdf(sigv / 220.,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=11,
vsun=[-11.1, 244., 7.25],
Zsun=Zsun,
tdisrupt=age / conversion.time_in_Gyr(V0, R0),
vo=V0,
ro=R0)
elif singleImpact:
sdf = streamgapdf(sigv / 220.,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=11,
vsun=[-11.1, 244., 7.25],
Zsun=Zsun,
tdisrupt=age / conversion.time_in_Gyr(V0, R0),
vo=V0,
ro=R0,
timpact=timpact,
spline_order=3,
hernquist=hernquist,
**kwargs)
else:
sdf = streampepperdf(sigv / 220.,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=101,
vsun=[-11.1, 244., 7.25],
Zsun=Zsun,
tdisrupt=age / conversion.time_in_Gyr(V0, R0),
vo=V0,
ro=R0,
timpact=timpact,
spline_order=1,
hernquist=hernquist,
length_factor=length_factor)
sdf.turn_physical_off() #original
#obs.turn_physical_off()
return sdf
0.71877924,
-0.01519337,
-0.01928001,
]
pot = MWPotential2014Likelihood.setup_potential(p_b15, 1.0, False, False,
REFR0, REFV0)
prog = Orbit(
[229.018, -0.124, 23.2, -2.296, -2.257, -58.7],
radec=True,
ro=REFR0,
vo=REFV0,
solarmotion=[-11.1, 24.0, 7.25],
)
aAI = actionAngleIsochroneApprox(pot=pot, b=0.8)
sigv = 0.2
# ----------------------------------------------------------
try:
with open("output/sdf_trailing.pkl", "rb") as file:
sdf_trailing = pickle.load(file)
except Exception:
sdf_trailing = streamdf(
sigv / REFV0,
progenitor=prog,
pot=pot,
aA=aAI,
leading=False,
nTrackChunks=11,
def test_sanders15_leading_setup():
#Imports
from galpy.df import streamdf, streamgapdf
from galpy.orbit import Orbit
from galpy.potential import LogarithmicHaloPotential, PlummerPotential
from galpy.actionAngle import actionAngleIsochroneApprox
from galpy.util import conversion #for unit conversions
lp = LogarithmicHaloPotential(normalize=1., q=0.9)
aAI = actionAngleIsochroneApprox(pot=lp, b=0.8)
prog_unp_peri = Orbit([
2.6556151742081835, 0.2183747276300308, 0.67876510797240575,
-2.0143395648974671, -0.3273737682604374, 0.24218273922966019
])
global sdfl_sanders15
V0, R0 = 220., 8.
sigv = 0.365 * (10. / 2.)**(1. / 3.) # km/s
# Use a Potential object for the impact
pp= PlummerPotential(amp=10.**-2.\
/conversion.mass_in_1010msol(V0,R0),
b=0.625/R0)
import warnings
from galpy.util import galpyWarning
with warnings.catch_warnings(record=True) as w:
warnings.simplefilter("always", galpyWarning)
sdfl_sanders15= streamgapdf(sigv/V0,progenitor=prog_unp_peri,
pot=lp,aA=aAI,
leading=True,nTrackChunks=26,
nTrackChunksImpact=29,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0,
impactb=0.,
subhalovel=numpy.array([49.447319,
116.179436,
155.104156])/V0,
timpact=0.88/conversion.time_in_Gyr(V0,R0),
impact_angle=2.09,
subhalopot=pp,
nKickPoints=290,
deltaAngleTrackImpact=4.5,
multi=True) # test multi
# Should raise warning bc of deltaAngleTrackImpact, might raise others
raisedWarning = False
for wa in w:
raisedWarning = (
str(wa.message) ==
"WARNING: deltaAngleTrackImpact angle range large compared to plausible value"
)
if raisedWarning: break
assert raisedWarning, 'deltaAngleTrackImpact warning not raised when it should have been'
assert not sdfl_sanders15 is None, 'sanders15 trailing streamdf setup did not work'
# Also setup the unperturbed model
global sdfl_sanders15_unp
sdfl_sanders15_unp= streamdf(sigv/V0,progenitor=prog_unp_peri,
pot=lp,aA=aAI,
leading=True,nTrackChunks=26,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0)
assert not sdfl_sanders15_unp is None, \
'sanders15 unperturbed streamdf setup did not work'
return None
def setup_sdf(
pot: potential.Potential,
prog: Orbit,
sigv: float,
td: float,
ro: float = REFR0,
vo: float = REFV0,
multi: Optional[bool] = None,
nTrackChunks: float = 8,
isob=None,
trailing_only: bool = False,
verbose: bool = True,
useTM: bool = True,
) -> Tuple[Optional[streamdf], Optional[streamdf]]:
"""Setup Stream Distribution Function.
Parameters
----------
pot : Potential
prog : Orbit
Progenitor
sigv : float
td : float
ro : float
vo : float
multi
default None
nTrackChunks: float
default 8
isob
default None
trailing_only: bool
default False
verbose: bool
default True
useTM: bool
default True
Returns
-------
sdf_trailing, sdf_leading: streamdf or None
"""
if isob is None:
# Determine good one
ts = np.linspace(0.0, 150.0, 1001)
# Hack!
epot = copy.deepcopy(pot)
epot[2]._b = 1.0
epot[2]._b2 = 1.0
epot[2]._isNonAxi = False
epot[2]._aligned = True
prog.integrate(ts, pot)
estb = estimateBIsochrone(
epot,
prog.R(ts, use_physical=False),
prog.z(ts, use_physical=False),
phi=prog.phi(ts, use_physical=False),
)
if estb[1] < 0.3:
isob = 0.3
elif estb[1] > 1.5:
isob = 1.5
else:
isob = estb[1]
if verbose:
print(pot[2]._c, isob)
if np.fabs(pot[2]._b - 1.0) > 0.05:
aAI = actionAngleIsochroneApprox(pot=pot,
b=isob,
tintJ=1000.0,
ntintJ=30000)
else:
aAI = actionAngleIsochroneApprox(pot=pot, b=isob)
if useTM:
aAT = actionAngleTorus(pot=pot, tol=0.001, dJ=0.0001)
else:
aAT = False
trailing_kwargs = dict(
progenitor=prog,
pot=pot,
aA=aAI,
useTM=aAT,
approxConstTrackFreq=True,
leading=False,
nTrackChunks=nTrackChunks,
tdisrupt=td / bovy_conversion.time_in_Gyr(vo, ro),
ro=ro,
vo=vo,
R0=ro,
vsun=[-11.1, vo + 24.0, 7.25],
custom_transform=_TPAL5,
multi=multi,
)
try:
sdf_trailing = streamdf(sigv / vo, **trailing_kwargs)
except np.linalg.LinAlgError:
sdf_trailing = streamdf(sigv / vo,
nTrackIterations=0,
**trailing_kwargs)
if trailing_only:
sdf_leading = None
else:
leading_kwargs = dict(
progenitor=prog,
pot=pot,
aA=aAI,
useTM=aAT,
approxConstTrackFreq=True,
leading=True,
nTrackChunks=nTrackChunks,
tdisrupt=td / bovy_conversion.time_in_Gyr(vo, ro),
ro=ro,
vo=vo,
R0=ro,
vsun=[-11.1, vo + 24.0, 7.25],
custom_transform=_TPAL5,
multi=multi,
)
try:
sdf_leading = streamdf(sigv / vo, **leading_kwargs)
except np.linalg.LinAlgError:
sdf_leading = streamdf(sigv / vo,
nTrackIterations=0,
**leading_kwargs)
return sdf_trailing, sdf_leading
def setup_streammodel(
obs=None,
pot = MWPotential2014,
leading=False,
timpact=None,
hernquist=True,
age=5.,
sigv=.5,
singleImpact=False,
length_factor=1.,
vsun=[-11.1,V0+24.,7.25],
b=None,
**kwargs):
'''
NAME:
setup_streammodel
PURPOSE:
Initialize a streamdf or streampepperdf instance of stellar stream, depending on its impact history
INPUT:
obs: Orbit instance for progenitor position
pot: host potential
age: stream age in Gyr
sigv: ~ internal velocity dispersion in km/s, controls the stream length in proportion to the age
b: fit parameter for the isochrone approximation, if None it is set automatically
R, R_coord: R_name: a rotation matrix for transformation to stream coordinates,the frame they are
transforming from, and a name for the new coordinate system
custom_transform: depreciated, superseded by the Astropy implementation below
leading: if True, use leading tail, use trailing tail otherwise
hernquist: if True, use Hernquist spheres for subhalos; Plummer otherwise
singleImpact: force use of the streamgapdf instead of streampepperdf
length_factor: consider impacts up to length_factor x length of the stream
streamdf kwargs
OUTPUT:
object
HISTORY:
2016 - Started - Bovy (UofT)
2020-05-08 - Generalized - Hendel (UofT)
'''
#automatically set up potential model
if b==None:
obs.turn_physical_off()
b = estimateBIsochrone(pot, obs.R(), obs.z())
obs.turn_physical_on()
print('Using isochrone approxmation parameter of %1.3f, should typically be between 0.5 and 1'%b)
aAI= actionAngleIsochroneApprox(pot=pot,b=b)
if timpact is None:
sdf= streamdf(sigv/V0,progenitor=obs,
pot=pot,aA=aAI,
leading=leading,nTrackChunks=11,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
ro=R0,vo=V0,R0=R0,
vsun=vsun,
custom_transform=None)
elif singleImpact:
sdf= streamgapdf(sigv/V0,progenitor=obs,
pot=pot,aA=aAI,
leading=leading,nTrackChunks=11,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
ro=R0,vo=V0,R0=R0,
vsun=vsun,
custom_transform=None,
timpact= 0.3/bovy_conversion.time_in_Gyr(V0,R0),
spline_order=3,
hernquist=hernquist,
impact_angle=0.7,
impactb=0.,
GM= 10.**-2./bovy_conversion.mass_in_1010msol(V0,R0),
rs= 0.625/R0,
subhalovel=np.array([6.82200571,132.7700529,14.4174464])/V0,
**kwargs)
else:
sdf= streampepperdf(sigv/V0,progenitor=obs,
pot=pot,aA=aAI,
leading=leading,nTrackChunks=101,
tdisrupt=age/bovy_conversion.time_in_Gyr(V0,R0),
ro=R0,vo=V0,R0=R0,
vsun=vsun,
custom_transform=None,
timpact=timpact,
spline_order=3,
hernquist=hernquist,
length_factor=length_factor)
sdf.turn_physical_off()
return sdf
def setup_gd1model(leading=True,
pot=MWPotential2014,
timpact=None,
hernquist=True,
age=9.,
singleImpact=False,
length_factor=1.,
**kwargs):
#lp= LogarithmicHaloPotential(normalize=1.,q=0.9)
aAI = actionAngleIsochroneApprox(pot=pot, b=0.8)
#obs= Orbit([1.56148083,0.35081535,-1.15481504,0.88719443,
# -0.47713334,0.12019596])
#progenitor pos and vel from Bovy 1609.01298 and with corrected proper motion
obs = Orbit(phi12_to_lb_6d(0, -0.82, 10.1, -8.5, -2.15, -257.),
lb=True,
solarmotion=[-11.1, 24., 7.25],
ro=8.,
vo=220.)
sigv = 0.365 / 2. * (9. / age) #km/s, /2 bc tdis x2, adjust for diff. age
if timpact is None:
sdf = streamdf(sigv / 220.,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=11,
vsun=[-11.1, 244., 7.25],
tdisrupt=age / bovy_conversion.time_in_Gyr(V0, R0),
Vnorm=V0,
Rnorm=R0)
elif singleImpact:
sdf = streamgapdf(sigv / 220.,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=11,
vsun=[-11.1, 244., 7.25],
tdisrupt=age / bovy_conversion.time_in_Gyr(V0, R0),
Vnorm=V0,
Rnorm=R0,
timpact=timpact,
spline_order=3,
hernquist=hernquist,
**kwargs)
else:
sdf = streampepperdf(sigv / 220.,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=101,
vsun=[-11.1, 244., 7.25],
tdisrupt=age /
bovy_conversion.time_in_Gyr(V0, R0),
Vnorm=V0,
Rnorm=R0,
timpact=timpact,
spline_order=1,
hernquist=hernquist,
length_factor=length_factor)
#sdf.turn_physical_off() #original
obs.turn_physical_off()
return sdf
def calc_actions(snapfile=None,first=0):
#Setup potential and actionAngle object
lp= potential.LogarithmicHaloPotential(normalize=1.,q=0.9)
aA= actionAngleIsochroneApprox(pot=lp,b=0.8)
# Load snapshot and convert to cylindrical coordinates
xvid= numpy.loadtxt(snapfile)
xv= xvid[:,:6]
id= xvid[:,6]
xv= xv[numpy.argsort(id)]
id= id[numpy.argsort(id)].astype(int)
R,phi,Z= bovy_coords.rect_to_cyl(xv[:,0],xv[:,1],xv[:,2])
vR,vT,vZ= bovy_coords.rect_to_cyl_vec(xv[:,3],xv[:,4],xv[:,5],R,phi,Z,
cyl=True)
R/= 8.
Z/= 8.
vR/= 220.
vT/= 220.
vZ/= 220.
if False: #Used for testing
R= R[0:100]
vR= vR[0:100]
vT= vT[0:100]
Z= Z[0:100]
vZ= vZ[0:100]
phi= phi[0:100]
nx= len(R)
if first:
R= R[:nx//2]
vR= vR[:nx//2]
vT= vT[:nx//2]
Z= Z[:nx//2]
vZ= vZ[:nx//2]
phi= phi[:nx//2]
id= id[:nx//2]
else:
R= R[nx//2:]
vR= vR[nx//2:]
vT= vT[nx//2:]
Z= Z[nx//2:]
vZ= vZ[nx//2:]
phi= phi[nx//2:]
id= id[nx//2:]
nx/= 2
#calculation actions, frequencies, and angles
#Processes in batches to not run out of memory
if first:
csvfilename= snapfile.replace('.txt','_aA1.txt')
else:
csvfilename= snapfile.replace('.txt','_aA2.txt')
if os.path.exists(csvfilename):
#Don't recalculate those that have already been calculated
nstart= int(subprocess.check_output(['wc','-l',csvfilename]).split(' ')[0])
csvfile= open(csvfilename,'ab')
else:
csvfile= open(csvfilename,'wb')
nstart= 0
if nstart >= nx: return 1 #Done already
print "Starting from %i ..." % nstart
nx-= nstart
writer= csv.writer(csvfile,delimiter=',')
nbatch= 20
for ii in range(nx//nbatch):
print "Working on batch %i out of %i ..." % (ii+1,nx//nbatch)
tR= R[nstart+ii*nbatch:numpy.amin([nstart+(ii+1)*nbatch,nstart+nx])]
tvR= vR[nstart+ii*nbatch:numpy.amin([nstart+(ii+1)*nbatch,nstart+nx])]
tvT= vT[nstart+ii*nbatch:numpy.amin([nstart+(ii+1)*nbatch,nstart+nx])]
tZ= Z[nstart+ii*nbatch:numpy.amin([nstart+(ii+1)*nbatch,nstart+nx])]
tvZ= vZ[nstart+ii*nbatch:numpy.amin([nstart+(ii+1)*nbatch,nstart+nx])]
tphi= phi[nstart+ii*nbatch:numpy.amin([nstart+(ii+1)*nbatch,nstart+nx])]
try:
tacfs= aA.actionsFreqsAngles(tR,tvR,tvT,tZ,tvZ,tphi)
except numpy.linalg.linalg.LinAlgError:
print tR,tvR,tvT,tZ,tvZ,tphi
raise
for jj in range(len(tacfs[0])):
writer.writerow([tacfs[0][jj],tacfs[1][jj],tacfs[2][jj],
tacfs[3][jj],tacfs[4][jj],tacfs[5][jj],
tacfs[6][jj],tacfs[7][jj],tacfs[8][jj],
id[nstart+ii*nbatch+jj]])
csvfile.flush()
csvfile.close()
return None
def test_sanders15_leading_setup():
#Imports
from galpy.df import streamdf, streamgapdf
from galpy.orbit import Orbit
from galpy.potential import LogarithmicHaloPotential, PlummerPotential
from galpy.actionAngle import actionAngleIsochroneApprox
from galpy.util import bovy_conversion #for unit conversions
lp= LogarithmicHaloPotential(normalize=1.,q=0.9)
aAI= actionAngleIsochroneApprox(pot=lp,b=0.8)
prog_unp_peri= Orbit([2.6556151742081835,
0.2183747276300308,
0.67876510797240575,
-2.0143395648974671,
-0.3273737682604374,
0.24218273922966019])
global sdfl_sanders15
V0, R0= 220., 8.
sigv= 0.365*(10./2.)**(1./3.) # km/s
# Use a Potential object for the impact
pp= PlummerPotential(amp=10.**-2.\
/bovy_conversion.mass_in_1010msol(V0,R0),
b=0.625/R0)
import warnings
from galpy.util import galpyWarning
with warnings.catch_warnings(record=True) as w:
warnings.simplefilter("always",galpyWarning)
sdfl_sanders15= streamgapdf(sigv/V0,progenitor=prog_unp_peri,
pot=lp,aA=aAI,
leading=True,nTrackChunks=26,
nTrackChunksImpact=29,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/bovy_conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0,
impactb=0.,
subhalovel=numpy.array([49.447319,
116.179436,
155.104156])/V0,
timpact=0.88/bovy_conversion.time_in_Gyr(V0,R0),
impact_angle=2.09,
subhalopot=pp,
nKickPoints=290,
deltaAngleTrackImpact=4.5,
multi=True) # test multi
# Should raise warning bc of deltaAngleTrackImpact, might raise others
raisedWarning= False
for wa in w:
raisedWarning= (str(wa.message) == "WARNING: deltaAngleTrackImpact angle range large compared to plausible value")
if raisedWarning: break
assert raisedWarning, 'deltaAngleTrackImpact warning not raised when it should have been'
assert not sdfl_sanders15 is None, 'sanders15 trailing streamdf setup did not work'
# Also setup the unperturbed model
global sdfl_sanders15_unp
sdfl_sanders15_unp= streamdf(sigv/V0,progenitor=prog_unp_peri,
pot=lp,aA=aAI,
leading=True,nTrackChunks=26,
nTrackIterations=1,
sigMeanOffset=4.5,
tdisrupt=10.88\
/bovy_conversion.time_in_Gyr(V0,R0),
Vnorm=V0,Rnorm=R0)
assert not sdfl_sanders15_unp is None, \
'sanders15 unperturbed streamdf setup did not work'
return None
def fiducial_model(
sdf_trailing="output/sdf_trailing.pkl",
sdf_leading="output/sdf_leading.pkl",
threshold=0.3,
ro=REFR0,
vo=REFV0,
):
"""Fiducial Model.
The fiducial model assumes a spherical halo, with the best-fit
parameters from fitting to the MWPotential2014 data
"""
p_b15 = [
0.60122692,
0.36273147,
-0.97591502,
-3.34169377,
0.71877924,
-0.01519337,
-0.01928001,
]
pot = mw_pot.setup_potential(p_b15, 1.0, False, False, ro, vo)
prog = Orbit(
[229.018, -0.124, 23.2, -2.296, -2.257, -58.7],
radec=True,
ro=ro,
vo=vo,
solarmotion=[-11.1, 24.0, 7.25],
)
aAI = actionAngleIsochroneApprox(pot=pot, b=0.8)
sigv = 0.2
# ----------------------------------------------------------
try:
with open(sdf_trailing, "rb") as file:
sdf_trailing = pickle.load(file)
except Exception:
sdf_trailing = streamdf(
sigv / vo,
progenitor=prog,
pot=pot,
aA=aAI,
leading=False,
nTrackChunks=11,
tdisrupt=10.0 / bovy_conversion.time_in_Gyr(vo, ro),
ro=ro,
vo=vo,
R0=ro,
vsun=[-11.1, vo + 24.0, 7.25],
custom_transform=pal5_util._TPAL5,
)
with open(sdf_trailing, "wb") as file:
pickle.dump(sdf_trailing, file)
try:
with open(sdf_leading, "rb") as file:
sdf_leading = pickle.load(file)
except Exception:
sdf_leading = streamdf(
sigv / vo,
progenitor=prog,
pot=pot,
aA=aAI,
leading=True,
nTrackChunks=11,
tdisrupt=10.0 / bovy_conversion.time_in_Gyr(vo, ro),
ro=ro,
vo=vo,
R0=ro,
vsun=[-11.1, vo + 24.0, 7.25],
custom_transform=pal5_util._TPAL5,
)
with open(sdf_leading, "wb") as file:
pickle.dump(sdf_leading, file)
# ----------------------------------------------------------
print("Angular length: %f deg (leading,trailing)=(%f,%f) deg" % (
sdf_leading.length(ang=True, coord="customra", threshold=threshold) +
sdf_trailing.length(ang=True, coord="customra", threshold=threshold),
sdf_leading.length(ang=True, coord="customra", threshold=threshold),
sdf_trailing.length(ang=True, coord="customra", threshold=threshold),
))
print("Angular width (FWHM): %f arcmin" %
(pal5_util.width_trailing(sdf_trailing)))
print("Velocity dispersion: %f km/s" %
(pal5_util.vdisp_trailing(sdf_trailing)))
# ----------------------------------------------------------
trackRADec_trailing = bovy_coords.lb_to_radec(
sdf_trailing._interpolatedObsTrackLB[:, 0],
sdf_trailing._interpolatedObsTrackLB[:, 1],
degree=True,
)
trackRADec_leading = bovy_coords.lb_to_radec(
sdf_leading._interpolatedObsTrackLB[:, 0],
sdf_leading._interpolatedObsTrackLB[:, 1],
degree=True,
)
lb_sample_trailing = sdf_trailing.sample(n=10000, lb=True)
lb_sample_leading = sdf_leading.sample(n=10000, lb=True)
radec_sample_trailing = bovy_coords.lb_to_radec(lb_sample_trailing[0],
lb_sample_trailing[1],
degree=True)
radec_sample_leading = bovy_coords.lb_to_radec(lb_sample_leading[0],
lb_sample_leading[1],
degree=True)
# ----------------------------------------------------------
# plotting
plt.figure(figsize=(12, 4))
plt.subplot(1, 2, 1)
bovy_plot.bovy_plot(
trackRADec_trailing[:, 0],
trackRADec_trailing[:, 1],
color=sns.color_palette()[0],
xrange=[250.0, 210.0],
yrange=[-15.0, 9.0],
xlabel=r"$\mathrm{RA}\,(\mathrm{degree})$",
ylabel=r"$\mathrm{Dec}\,(\mathrm{degree})$",
gcf=True,
)
bovy_plot.bovy_plot(
trackRADec_leading[:, 0],
trackRADec_leading[:, 1],
color=sns.color_palette()[0],
overplot=True,
)
plt.plot(
radec_sample_trailing[:, 0],
radec_sample_trailing[:, 1],
"k.",
alpha=0.01,
zorder=0,
)
plt.plot(
radec_sample_leading[:, 0],
radec_sample_leading[:, 1],
"k.",
alpha=0.01,
zorder=0,
)
plt.errorbar(
pos_radec[:, 0],
pos_radec[:, 1],
yerr=pos_radec[:, 2],
ls="none",
marker="o",
color=sns.color_palette()[2],
)
plt.subplot(1, 2, 2)
bovy_plot.bovy_plot(
trackRADec_trailing[:, 0],
sdf_trailing._interpolatedObsTrackLB[:, 3],
color=sns.color_palette()[0],
xrange=[250.0, 210.0],
yrange=[-80.0, 0.0],
xlabel=r"$\mathrm{RA}\,(\mathrm{degree})$",
ylabel=r"$V_{\mathrm{los}}\,(\mathrm{km\,s}^{-1})$",
gcf=True,
)
bovy_plot.bovy_plot(
trackRADec_leading[:, 0],
sdf_leading._interpolatedObsTrackLB[:, 3],
color=sns.color_palette()[0],
overplot=True,
)
plt.plot(
radec_sample_trailing[:, 0],
lb_sample_trailing[3],
"k.",
alpha=0.01,
zorder=0,
)
plt.plot(
radec_sample_leading[:, 0],
lb_sample_leading[3],
"k.",
alpha=0.01,
zorder=0,
)
plt.errorbar(
rvel_ra[:, 0],
rvel_ra[:, 1],
yerr=rvel_ra[:, 2],
ls="none",
marker="o",
color=sns.color_palette()[2],
)
plt.savefig("figures/fiducial_model.pdf")
return
def setup_pal5model(leading=False,
pot=MWPotential2014,
orb=[229.018, -0.124, 23.2, -2.296, -2.257, -58.7],
timpact=None,
b=0.8,
hernquist=True,
age=5.,
singleImpact=False,
length_factor=1.,
**kwargs):
obs = Orbit(orb, radec=True, ro=R0, vo=V0, solarmotion=[-11.1, 24., 7.25])
aAI = actionAngleIsochroneApprox(pot=pot, b=b)
sigv = 0.5 * (5. / age) #km/s, adjust for diff. age
if timpact is None:
sdf = streamdf(sigv / V0,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=11,
tdisrupt=age / bovy_conversion.time_in_Gyr(V0, R0),
Rnorm=R0,
Vnorm=V0,
R0=R0,
vsun=[-11.1, V0 + 24., 7.25],
custom_transform=_TPAL5)
elif singleImpact:
sdf = streamgapdf(sigv / V0,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=11,
tdisrupt=age / bovy_conversion.time_in_Gyr(V0, R0),
Rnorm=R0,
Vnorm=V0,
R0=R0,
vsun=[-11.1, V0 + 24., 7.25],
custom_transform=_TPAL5,
timpact=timpact,
spline_order=3,
hernquist=hernquist,
**kwargs)
else:
sdf = streampepperdf(sigv / V0,
progenitor=obs,
pot=pot,
aA=aAI,
leading=leading,
nTrackChunks=101,
tdisrupt=age /
bovy_conversion.time_in_Gyr(V0, R0),
Rnorm=R0,
Vnorm=V0,
R0=R0,
vsun=[-11.1, V0 + 24., 7.25],
custom_transform=_TPAL5,
timpact=timpact,
spline_order=1,
hernquist=hernquist,
length_factor=length_factor)
sdf.turn_physical_off()
return sdf
def setup_sdf(
pot: Sequence[Potential],
prog: Orbit,
sigv: float,
td: float,
ro: float = REFR0,
vo: float = REFV0,
multi: Optional[Any] = None,
nTrackChunks: int = 8,
isob: Optional[bool] = None,
trailing_only: bool = False,
verbose: bool = True,
useTM: bool = True,
logpot: bool = False,
):
"""Simple function to setup the stream model."""
if isob is None:
if True or logpot: # FIXME, "if True"
isob = 0.75
if isob is False: # FIXME, was "if False"
# Determine good one
ts = np.linspace(0.0, 15.0, 1001)
# Hack!
epot = copy.deepcopy(pot)
epot[2]._b = 1.0
epot[2]._b2 = 1.0
epot[2]._isNonAxi = False
epot[2]._aligned = True
prog.integrate(ts, pot)
estb = estimateBIsochrone(
epot,
prog.R(ts, use_physical=False),
prog.z(ts, use_physical=False),
phi=prog.phi(ts, use_physical=False),
)
if estb[1] < 0.3:
isob = 0.3
elif estb[1] > 1.5:
isob = 1.5
else:
isob = estb[1]
if verbose:
print(pot[2]._c, isob, estb)
if not logpot and np.fabs(pot[2]._b - 1.0) > 0.05:
aAI = actionAngleIsochroneApprox(pot=pot, b=isob, tintJ=1000.0, ntintJ=30000)
else:
ts = np.linspace(0.0, 100.0, 10000)
aAI = actionAngleIsochroneApprox(
pot=pot, b=isob, tintJ=100.0, ntintJ=10000, dt=ts[1] - ts[0]
)
if useTM:
aAT = actionAngleTorus(pot=pot, tol=0.001, dJ=0.0001)
else:
aAT = False
try:
sdf = streamdf(
sigv / vo,
progenitor=prog,
pot=pot,
aA=aAI,
useTM=aAT,
approxConstTrackFreq=True,
leading=True,
nTrackChunks=nTrackChunks,
tdisrupt=td / bovy_conversion.time_in_Gyr(vo, ro),
ro=ro,
vo=vo,
R0=ro,
vsun=[-11.1, vo + 24.0, 7.25],
custom_transform=_TKOP,
multi=multi,
nospreadsetup=True,
)
except np.linalg.LinAlgError:
sdf = streamdf(
sigv / vo,
progenitor=prog,
pot=pot,
aA=aAI,
useTM=aAT,
approxConstTrackFreq=True,
leading=True,
nTrackChunks=nTrackChunks,
nTrackIterations=0,
tdisrupt=td / bovy_conversion.time_in_Gyr(vo, ro),
ro=ro,
vo=vo,
R0=ro,
vsun=[-11.1, vo + 24.0, 7.25],
custom_transform=_TKOP,
multi=multi,
)
return sdf