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Commit d1eb8dc3 authored by Folkert Nobels's avatar Folkert Nobels
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Update plotSolutions of star formation example and remove the two other examples

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examples/IsolatedGalaxy_starformation/plotSolution.py
+ 58
− 3
View file @ d1eb8dc3
......@@ -39,6 +39,9 @@ k_in_cgs = 1.38064852e-16
mH_in_cgs = 1.6737236e-24
year_in_cgs = 3600.0 * 24 * 365.0
Msun_in_cgs = 1.98848e33
G_in_cgs = 6.67259e-8
pc_in_cgs = 3.08567758e18
Msun_p_pc2 = Msun_in_cgs / pc_in_cgs**2
# Gemoetry info
boxsize = f["/Header"].attrs["BoxSize"]
......@@ -49,6 +52,9 @@ unit_length_in_cgs = f["/Units"].attrs["Unit length in cgs (U_L)"]
unit_mass_in_cgs = f["/Units"].attrs["Unit mass in cgs (U_M)"]
unit_time_in_cgs = f["/Units"].attrs["Unit time in cgs (U_t)"]
# Calculate Gravitational constant in internal units
G = G_in_cgs * ( unit_length_in_cgs**3 / unit_mass_in_cgs / unit_time_in_cgs**2)**(-1)
# Read parameters of the model
KS_law_slope = float(f["/Parameters"].attrs["SchayeSF:SchmidtLawExponent"])
KS_law_norm = float(f["/Parameters"].attrs["SchayeSF:SchmidtLawCoeff_MSUNpYRpKPC2"])
......@@ -60,7 +66,18 @@ KS_thresh_max_norm = float(f["/Parameters"].attrs["SchayeSF:thresh_max_norm_HpCM
KS_gamma_effective = float(
f["/Parameters"].attrs["EAGLEEntropyFloor:Jeans_gamma_effective"]
)
KS_high_den_thresh = float(f["/Parameters"].attrs["SchayeSF:SchmidtLawHighDens_thresh_HpCM3"])
KS_law_slope_high_den = float(f["/Parameters"].attrs["SchayeSF:SchmidtLawHighDensExponent"])
EAGLE_Z = float(f["/Parameters"].attrs["EAGLEChemistry:init_abundance_metal"])
EAGLEfloor_rho_norm = float(f["/Parameters"].attrs["EAGLEEntropyFloor:Jeans_density_threshold_H_p_cm3"])
EAGLEfloor_T = float(f["/Parameters"].attrs["EAGLEEntropyFloor:Jeans_temperature_norm_K"])
EAGLEfloor_cool_rho = float(f["/Parameters"].attrs["EAGLEEntropyFloor:Cool_density_threshold_H_p_cm3"])
EAGLEfloor_cool_temperature_norm_K = float(f["/Parameters"].attrs["EAGLEEntropyFloor:Cool_temperature_norm_K"])
EAGLEfloor_cool_gamma_effective = float(f["/Parameters"].attrs["EAGLEEntropyFloor:Cool_gamma_effective"])
KS_law_norm_cgs = KS_law_norm * Msun_in_cgs / ( 1e6 * pc_in_cgs**2 * year_in_cgs )
gamma = 5./3.
KS_press_norm = k_in_cgs * EAGLEfloor_T * EAGLEfloor_rho_norm
# Read gas properties
gas_pos = f["/PartType0/Coordinates"][:, :]
......@@ -71,6 +88,11 @@ gas_SFR = f["/PartType0/SFR"][:]
gas_XH = f["/PartType0/ElementAbundance"][:, 0]
gas_Z = f["/PartType0/Metallicity"][:]
gas_hsml = f["/PartType0/SmoothingLength"][:]
gas_sSFR = f["/PartType0/sSFR"][:]
# Read the Star properties
stars_pos = f["/PartType4/Coordinates"][:, :]
stars_BirthDensity = f["/PartType4/BirthDensity"][:]
# Centre the box
gas_pos[:, 0] -= centre[0]
......@@ -90,12 +112,15 @@ gas_nH = gas_rho * unit_mass_in_cgs / unit_length_in_cgs ** 3
gas_nH /= mH_in_cgs
gas_nH *= gas_XH
stars_BirthDensity = gas_rho * unit_mass_in_cgs / unit_length_in_cgs ** 3
stars_BirthDensity /= mH_in_cgs
stars_BirthDensity *= gas_XH
# Equations of state
eos_cool_rho = np.logspace(-5, 5, 1000)
eos_cool_T = eos_cool_rho ** 0.0 * 8000.0
eos_cool_T = EAGLEfloor_cool_temperature_norm_K * eos_cool_rho **( EAGLEfloor_cool_gamma_effective - 1.0 )
eos_Jeans_rho = np.logspace(-1, 5, 1000)
eos_Jeans_T = (eos_Jeans_rho / 10 ** (-1)) ** (1.0 / 3.0) * 8000.0
eos_Jeans_T = EAGLEfloor_T * (eos_Jeans_rho / EAGLEfloor_rho_norm) ** (KS_gamma_effective - 1.0 )
# Plot the phase space diagram
figure()
subplot(111, xscale="log", yscale="log")
......@@ -135,6 +160,36 @@ savefig("rho_SFR.png", dpi=200)
########################################################################3
# Histogram of the birth density
figure()
subplot(111, xscale="linear", yscale="linear")
hist(np.log10(stars_BirthDensity),density=True,bins=100)
xlabel("${\\rm Birth Density}~n_{\\rm H}~[{\\rm cm^{-3}}]$", labelpad=0)
ylabel("Probability", labelpad=-7)
savefig("BirthDensity.png", dpi=200)
# Plot of the specific star formation rate in the galaxy
rhos = 10**np.linspace(-1,np.log10(KS_high_den_thresh),100)
rhoshigh = 10**np.linspace(np.log10(KS_high_den_thresh),5,100)
P_effective = KS_press_norm * ( rhos / EAGLEfloor_rho_norm)**(KS_gamma_effective)
P_norm_high = KS_press_norm * (KS_high_den_thresh / EAGLEfloor_rho_norm)**(KS_gamma_effective)
sSFR = KS_law_norm_cgs * (Msun_p_pc2)**(-KS_law_slope) * (gamma/G_in_cgs * KS_gas_fraction *P_effective)**((KS_law_slope-1.)/2.)
KS_law_norm_high_den_cgs = KS_law_norm_cgs * (Msun_p_pc2)**(-KS_law_slope) * (gamma/G_in_cgs * KS_gas_fraction * P_norm_high)**((KS_law_slope-1.)/2.)
sSFR_high_den = KS_law_norm_high_den_cgs * ((rhoshigh/KS_high_den_thresh)**KS_gamma_effective)**((KS_law_slope_high_den-1)/2.)
figure()
subplot(111)
hist2d(np.log10(gas_nH), np.log10(gas_sSFR), bins=50,range=[[-1.5,5],[-.5,2.5]])
plot(np.log10(rhos),np.log10(sSFR)+np.log10(year_in_cgs)+9.,'k--',label='sSFR low density EAGLE')
plot(np.log10(rhoshigh),np.log10(sSFR_high_den)+np.log10(year_in_cgs)+9.,'k--',label='sSFR high density EAGLE')
xlabel("${\\rm Density}~n_{\\rm H}~[{\\rm cm^{-3}}]$", labelpad=0)
ylabel("${\\rm sSFR}~[{\\rm Gyr^{-1}}]$", labelpad=-7)
savefig("density-sSFR.png", dpi=200)
########################################################################3
# Select gas in a pillow box around the galaxy
mask = (
(gas_pos[:, 0] > -15)
......
examples/IsolatedGalaxy_starformation_25p/KS_law.py deleted 100644 → 0
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#!/usr/bin/env python
import numpy as np
import h5py
import matplotlib.pyplot as plt
# for the moment only use a single snapshot
i = 29
# Load the snapshot
#f = h5py.File('output_%04dcopy.hdf5'%i, 'r')
f = h5py.File('output_%04d.hdf5'%i, 'r')
# Load the stars
starparticle = f['PartType4']
# Load the properties of the stars
coordinates = starparticle['Coordinates'][:,:]
newstarflag = starparticle['NewStarFlag'][:]
boxsize = f['Header'].attrs['BoxSize']
masses_star = starparticle['Masses'][:]
# Load the positions of the star particles and only take
# the new star particles
x = coordinates[:,0] - boxsize[0]/2.
y = coordinates[:,1] - boxsize[1]/2.
r = (x**2 + y**2)**.5
birthdensity = starparticle['BirthDensity'][:]
birthdensity=birthdensity[newstarflag==1]
r_new = r[newstarflag==1]
masses_new = masses_star[newstarflag==1]
# Load the gas particles
gasparticle = f['PartType0']
# Load the properties of the gas particles
coordinates_gas = gasparticle['Coordinates'][:,:]
masses_gas = gasparticle['Masses'][:]
# Load the positions of the gas particles
x_gas = coordinates_gas[:,0] - boxsize[0]/2.
y_gas = coordinates_gas[:,0] - boxsize[1]/2.
r_gas = (x_gas**2 + y_gas**2)**.5
r_array = np.linspace(0,15,100)
area = np.zeros(len(r_array)-1)
SigmaSFR = np.zeros(len(r_array)-1)
Sigmagas = np.zeros(len(r_array)-1)
massSFR_array = np.zeros(len(r_array)-1)
massGAS_array = np.zeros(len(r_array)-1)
for i in range(1,len(r_array)):
area_loop = np.pi*(r_array[i]**2 - r_array[i-1]**2)
mask = (r_new > r_array[i-1]) & (r_new < r_array[i])
mask2 = (r_gas > r_array[i-1]) & (r_gas < r_array[i])
massSFR = np.sum(masses_new[mask])
massSFR_array[i-1] = massSFR
massGAS = np.sum(masses_gas[mask2])
massGAS_array[i-1] = massGAS
#print('%d area=%1.4f, M_SFR=%1.4f, M_gas=%1.4f'%(i,area_loop,massSFR,massGAS))
area[i-1] = area_loop
SigmaSFR[i-1] = massSFR/area_loop
Sigmagas[i-1] = massGAS/area_loop
# Put SF law in correct units
SigmaSFR *= 1e10/0.29e8
Sigmagas *= 1e10/(1e3**2)
SigmaSFR[SigmaSFR==0] = 1e-6
print(Sigmagas)
Sgas_array =np.logspace(-1,3,40)
Delta_Sgas = np.log10(Sgas_array[1]) - np.log10(Sgas_array[0])
SigmaSFR_avg = np.zeros(len(Sgas_array))
Sigmagas_avg = np.zeros(len(Sgas_array))
for i in range(0,len(Sgas_array)):
totgasmass = 0.0
totnewstarmass = 0.0
area_loop = 0.0
for j in range(0,len(Sigmagas)):
#print('%d %1.4e %1.4e %1.4e %1.4e'%(j,Sigmagas[j],Sgas_array[i],10**(-Delta_Sgas),10**(Delta_Sgas)))
if (Sigmagas[j]>Sgas_array[i]*10**(-Delta_Sgas)) and (Sigmagas[j]<Sgas_array[i]*10**(Delta_Sgas)):
totgasmass += massGAS_array[j]
totnewstarmass += massSFR_array[j]
area_loop += area[j]
if area_loop==0.0:
SigmaSFR_avg[i] = 0.0
Sigmagas_avg[i] = 0.0
else:
SigmaSFR_avg[i] = totnewstarmass/area_loop
Sigmagas_avg[i] = totgasmass/area_loop
print(SigmaSFR_avg)
print(Sigmagas_avg)
# Put SF law in correct units
SigmaSFR_avg *= 1e10/0.29e8
Sigmagas_avg *= 1e10/(1e6)
SigmaSFR_avg[SigmaSFR_avg==0]=1e-6
def KS_law(Sgas,n=1.4,A=1.515):
return A*1e-4*(Sgas)**n
Sigmagaslaw = np.logspace(-1,3,100)
SigmaSFRlaw = KS_law(Sigmagaslaw)
Z = 0
ncrit = 10 # g/cm^3
ncrit = 10 # M_sun /pc^2
# plot SF law
plt.loglog(Sigmagas,SigmaSFR,'o',label='Data')
#plt.loglog(Sigmagas_avg,SigmaSFR_avg,'o',label='binned Data')
plt.loglog(Sigmagaslaw, SigmaSFRlaw,'r-.',label='KS law')
#plt.loglog(np.logspace(-1,3,40),1e-5*np.ones(40),'o')
plt.axvline(x=10,linestyle='--', color='r',label='$\Sigma_c = 10$')
plt.xlabel('$\Sigma_{gas}$')
plt.ylabel('$\Sigma_{SFR}$')
plt.legend()
plt.show()
'''
plt.hist(birthdensity,bins=100,range=[0,2.5])
plt.show()
plt.hist(x_gas,bins=100)
plt.show()
plt.hist(r,bins=100)
plt.show()
plt.hist(r_gas,bins=100)
plt.show()
'''
examples/IsolatedGalaxy_starformation_25p/StarFormationHistory.py deleted 100644 → 0
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#!/usr/bin/env python3
import numpy as np
import h5py
import matplotlib.pyplot as plt
snaps = 30
SFH = np.zeros(snaps)
for i in range(0,snaps):
f = h5py.File('output_%04d.hdf5'%i, 'r')
header = f["Header"]
time = header.attrs['Time'][0]
print(time)
particles = f["PartType4"]
newstar = particles["NewStarFlag"][:]
SFH[i] = np.sum(newstar)
plt.plot(SFH)
plt.xlabel('Snapshot number')
plt.ylabel('Total number of stars formed')
plt.show()
f = h5py.File('output_%04d.hdf5'%i, 'r')
particles = f["PartType4"]
newstar = particles["NewStarFlag"][:]
Coordinates = particles["Coordinates"][:,:]
x = Coordinates[:,0][newstar==1]
y = Coordinates[:,1][newstar==1]
print(len(x), len(y))
plt.plot(x,y,'.')
plt.show()
examples/IsolatedGalaxy_starformation_25p/gasdensity.py deleted 100644 → 0
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examples/IsolatedGalaxy_starformation_25p/getIC.sh deleted 100755 → 0
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#!/bin/bash
wget https://home.strw.leidenuniv.nl/~nobels/data/starforming_25p.hdf5
examples/IsolatedGalaxy_starformation_25p/isolated_galaxy.yml deleted 100644 → 0
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# Define the system of units to use internally.
InternalUnitSystem:
UnitMass_in_cgs: 1.9891E43 # 10^10 solar masses
UnitLength_in_cgs: 3.08567758E21 # 1 kpc
UnitVelocity_in_cgs: 1E5 # km/s
UnitCurrent_in_cgs: 1 # Amperes
UnitTemp_in_cgs: 1 # Kelvin
# Parameters for the self-gravity scheme
Gravity:
mesh_side_length: 32 # Number of cells along each axis for the periodic gravity mesh.
eta: 0.025 # Constant dimensionless multiplier for time integration.
theta: 0.7 # Opening angle (Multipole acceptance criterion).
comoving_softening: 0.01 # Comoving softening length (in internal units).
max_physical_softening: 0.01 # Physical softening length (in internal units).
# Parameters governing the time integration (Set dt_min and dt_max to the same value for a fixed time-step run.)
TimeIntegration:
time_begin: 0. # The starting time of the simulation (in internal units).
time_end: 2. # The end time of the simulation (in internal units).
dt_min: 1e-9 # The minimal time-step size of the simulation (in internal units).
dt_max: 1e-2 # The maximal time-step size of the simulation (in internal units).
# Parameters governing the snapshots
Snapshots:
basename: output # Common part of the name of output files
time_first: 0. # (Optional) Time of the first output if non-cosmological time-integration (in internal units)
delta_time: 0.001 # Time difference between consecutive outputs (in internal units)
# Parameters governing the conserved quantities statistics
Statistics:
delta_time: 1e-2 # Time between statistics output
time_first: 0. # (Optional) Time of the first stats output if non-cosmological time-integration (in internal units)
# Parameters related to the initial conditions
InitialConditions:
file_name: starforming_25p.hdf5 # The file to read
periodic: 0 # Are we running with periodic ICs?
# Parameters for the hydrodynamics scheme
SPH:
resolution_eta: 1.2348 # Target smoothing length in units of the mean inter-particle separation (1.2348 == 48Ngbs with the cubic spline kernel).
CFL_condition: 0.1 # Courant-Friedrich-Levy condition for time integration.
h_tolerance: 1e-4 # (Optional) Relative accuracy of the Netwon-Raphson scheme for the smoothing lengths.
h_max: 10. # (Optional) Maximal allowed smoothing length in internal units. Defaults to FLT_MAX if unspecified.
max_volume_change: 1.4 # (Optional) Maximal allowed change of kernel volume over one time-step.
max_ghost_iterations: 30 # (Optional) Maximal number of iterations allowed to converge towards the smoothing length.
minimal_temperature: 100 # (Optional) Minimal temperature (in internal units) allowed for the gas particles. Value is ignored if set to 0.
H_mass_fraction: 0.755 # (Optional) Hydrogen mass fraction used for initial conversion from temp to internal energy. Default value is derived from the physical constants.
H_ionization_temperature: 1e4 # (Optional) Temperature of the transition from neutral to ionized Hydrogen for primoridal gas.
EAGLECooling:
dir_name: ./coolingtables/ # Location of the Wiersma+08 cooling tables
H_reion_z: 11.5 # Redshift of Hydrogen re-ionization
He_reion_z_centre: 3.5 # Redshift of the centre of the Helium re-ionization Gaussian
He_reion_z_sigma: 0.5 # Spread in redshift of the Helium re-ionization Gaussian
He_reion_eV_p_H: 2.0 # Energy inject by Helium re-ionization in electron-volt per Hydrogen atom
# Primordial abundances
EAGLEChemistry:
init_abundance_metal: 0.0129 # Inital fraction of particle mass in *all* metals
init_abundance_Hydrogen: 0.7065 # Inital fraction of particle mass in Hydrogen
init_abundance_Helium: 0.2806 # Inital fraction of particle mass in Helium
init_abundance_Carbon: 0.00207 # Inital fraction of particle mass in Carbon
init_abundance_Nitrogen: 0.000836 # Inital fraction of particle mass in Nitrogen
init_abundance_Oxygen: 0.00549 # Inital fraction of particle mass in Oxygen
init_abundance_Neon: 0.00141 # Inital fraction of particle mass in Neon
init_abundance_Magnesium: 0.000591 # Inital fraction of particle mass in Magnesium
init_abundance_Silicon: 0.000683 # Inital fraction of particle mass in Silicon
init_abundance_Iron: 0.0011 # Inital fraction of particle mass in Iron
# Hernquist potential parameters
HernquistPotential:
useabspos: 0 # 0 -> positions based on centre, 1 -> absolute positions
position: [0.,0.,0.] # Location of centre of isothermal potential with respect to centre of the box (if 0) otherwise absolute (if 1) (internal units)
idealizeddisk: 1 # Run with an idealized galaxy disk
M200: 30.0 # M200 of the galaxy disk
h: 0.704 # reduced Hubble constant (value does not specify the used units!)
concentration: 7.1 # concentration of the Halo
diskfraction: 0.040 # Disk mass fraction
bulgefraction: 0.010 # Bulge mass fraction
timestep_mult: 0.01 # Dimensionless pre-factor for the time-step condition, basically determines the fraction of the orbital time we use to do the time integration
epsilon: 0.1 # Softening size (internal units)
# Schaye and Dalla Vecchia 2008 star formation
SchayeSF:
thresh_MinOverDens: 57.7 # The critical density contrast to form stars
thresh_temp: 1e5 # The critical temperature to form stars
fg: 0.25 # The mass fraction in gas
SchmidtLawCoeff_MSUNpYRpKPC2: 1.515e-4 # The normalization of the Kennicutt-Schmidt law
SchmidtLawExponent: 1.4 # The power law of the Kennicutt-Schmidt law
SchmidtLawHighDensExponent: 2.0 # The high density exponent for the Kennicutt-Schmidt law
SchmidtLawHighDens_thresh_HpCM3: 1e3
Schaye2004: 1 # whether to use the metallicity dependent critical star formation of Schaye (2004) (1) or not (0).
thresh_norm_HpCM3: 0.1 # Critical sf normalization to use (is not a normalization when Schaye2004=0, than it is the value.
thresh_max_norm_HpCM3: 10.0 # Maximum norm of the critical sf density
MetDep_Z0: 0.002 # Scale metallicity to use for the equation (not used for Schaye2004=0)
MetDep_SFthresh_Slope: -0.64 # Scaling of the critical density with the metallicity (not used for Schaye2004=0)
thresh_MaxPhysDensOn: 0 # Default is 0.
thresh_MaxOverDens_HpCM3: 1e5 # Density at which the SF law changes
EOS_Jeans_GammaEffective: 1.33333 # The polytropic index
EOS_Jeans_TemperatureNorm_K: 1e5 # No idea how this works
EOS_JEANS_DensityNorm_HpCM3: 0.1 # No idea what the value is.
# Parameters for the EAGLE "equation of state"
EAGLEEntropyFloor:
Jeans_density_threshold_H_p_cm3: 0.1 # Physical density above which the EAGLE Jeans limiter entropy floor kicks in expressed in Hydrogen atoms per cm^3.
Jeans_over_density_threshold: 10. # Overdensity above which the EAGLE Jeans limiter entropy floor can kick in.
Jeans_temperature_norm_K: 8000 # Temperature of the EAGLE Jeans limiter entropy floor at the density threshold expressed in Kelvin.
Jeans_gamma_effective: 1.3333333 # Slope the of the EAGLE Jeans limiter entropy floor
Cool_density_threshold_H_p_cm3: 1e-5 # Physical density above which the EAGLE Cool limiter entropy floor kicks in expressed in Hydrogen atoms per cm^3.
Cool_over_density_threshold: 10. # Overdensity above which the EAGLE Cool limiter entropy floor can kick in.
Cool_temperature_norm_K: 8000 # Temperature of the EAGLE Cool limiter entropy floor at the density threshold expressed in Kelvin.
Cool_gamma_effective: 1. # Slope the of the EAGLE Cool limiter entropy floor
examples/IsolatedGalaxy_starformation_25p/run.sh deleted 100755 → 0
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#!/bin/bash
../swift --threads=32 --external-gravity --self-gravity --stars --star-formation --cooling --temperature --hydro isolated_galaxy.yml 2>&1 | tee output.log
examples/IsolatedGalaxy_starformation_25p_intermediate/getIC.sh deleted 100755 → 0
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#!/bin/bash
wget https://home.strw.leidenuniv.nl/~nobels/data/starforming_intermediate.hdf5
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# Define the system of units to use internally.
InternalUnitSystem:
UnitMass_in_cgs: 1.9891E43 # 10^10 solar masses
UnitLength_in_cgs: 3.08567758E21 # 1 kpc
UnitVelocity_in_cgs: 1E5 # km/s
UnitCurrent_in_cgs: 1 # Amperes
UnitTemp_in_cgs: 1 # Kelvin
# Parameters for the self-gravity scheme
Gravity:
mesh_side_length: 32 # Number of cells along each axis for the periodic gravity mesh.
eta: 0.025 # Constant dimensionless multiplier for time integration.
theta: 0.7 # Opening angle (Multipole acceptance criterion).
comoving_softening: 0.01 # Comoving softening length (in internal units).
max_physical_softening: 0.01 # Physical softening length (in internal units).
# Parameters governing the time integration (Set dt_min and dt_max to the same value for a fixed time-step run.)
TimeIntegration:
time_begin: 0. # The starting time of the simulation (in internal units).
time_end: 0.1 # The end time of the simulation (in internal units).
dt_min: 1e-9 # The minimal time-step size of the simulation (in internal units).
dt_max: 1e-2 # The maximal time-step size of the simulation (in internal units).
# Parameters governing the snapshots
Snapshots:
basename: output # Common part of the name of output files
time_first: 0. # (Optional) Time of the first output if non-cosmological time-integration (in internal units)
delta_time: 0.001 # Time difference between consecutive outputs (in internal units)
# Parameters governing the conserved quantities statistics
Statistics:
delta_time: 1e-2 # Time between statistics output
time_first: 0. # (Optional) Time of the first stats output if non-cosmological time-integration (in internal units)
# Parameters related to the initial conditions
InitialConditions:
file_name: starforming_intermediate.hdf5 # The file to read
periodic: 0 # Are we running with periodic ICs?
# Parameters for the hydrodynamics scheme
SPH:
resolution_eta: 1.2348 # Target smoothing length in units of the mean inter-particle separation (1.2348 == 48Ngbs with the cubic spline kernel).
CFL_condition: 0.1 # Courant-Friedrich-Levy condition for time integration.
h_tolerance: 1e-4 # (Optional) Relative accuracy of the Netwon-Raphson scheme for the smoothing lengths.
h_max: 10. # (Optional) Maximal allowed smoothing length in internal units. Defaults to FLT_MAX if unspecified.
max_volume_change: 1.4 # (Optional) Maximal allowed change of kernel volume over one time-step.
max_ghost_iterations: 30 # (Optional) Maximal number of iterations allowed to converge towards the smoothing length.
minimal_temperature: 100 # (Optional) Minimal temperature (in internal units) allowed for the gas particles. Value is ignored if set to 0.
H_ionization_temperature: 1e4 # (Optional) Temperature of the transition from neutral to ionized Hydrogen for primoridal gas.
EAGLECooling:
dir_name: ../coolingtables/ # Location of the Wiersma+08 cooling tables
H_reion_z: 11.5 # Redshift of Hydrogen re-ionization
He_reion_z_centre: 3.5 # Redshift of the centre of the Helium re-ionization Gaussian
He_reion_z_sigma: 0.5 # Spread in redshift of the Helium re-ionization Gaussian
He_reion_eV_p_H: 2.0 # Energy inject by Helium re-ionization in electron-volt per Hydrogen atom
# Primordial abundances
EAGLEChemistry:
init_abundance_metal: 0.0129 # Inital fraction of particle mass in *all* metals
init_abundance_Hydrogen: 0.7065 # Inital fraction of particle mass in Hydrogen
init_abundance_Helium: 0.2806 # Inital fraction of particle mass in Helium
init_abundance_Carbon: 0.00207 # Inital fraction of particle mass in Carbon
init_abundance_Nitrogen: 0.000836 # Inital fraction of particle mass in Nitrogen
init_abundance_Oxygen: 0.00549 # Inital fraction of particle mass in Oxygen
init_abundance_Neon: 0.00141 # Inital fraction of particle mass in Neon
init_abundance_Magnesium: 0.000591 # Inital fraction of particle mass in Magnesium
init_abundance_Silicon: 0.000683 # Inital fraction of particle mass in Silicon
init_abundance_Iron: 0.0011 # Inital fraction of particle mass in Iron
# Hernquist potential parameters
HernquistPotential:
useabspos: 0 # 0 -> positions based on centre, 1 -> absolute positions
position: [0.,0.,0.] # Location of centre of isothermal potential with respect to centre of the box (if 0) otherwise absolute (if 1) (internal units)
idealizeddisk: 1 # Run with an idealized galaxy disk
M200: 30.0 # M200 of the galaxy disk
h: 0.704 # reduced Hubble constant (value does not specify the used units!)
concentration: 7.1 # concentration of the Halo
diskfraction: 0.040 # Disk mass fraction
bulgefraction: 0.010 # Bulge mass fraction
timestep_mult: 0.01 # Dimensionless pre-factor for the time-step condition, basically determines the fraction of the orbital time we use to do the time integration
epsilon: 0.01 # Softening size (internal units)
# Schaye and Dalla Vecchia 2008 star formation
SchayeSF:
thresh_MinOverDens: 57.7 # The critical density contrast to form stars
thresh_temp: 1e5 # The critical temperature to form stars
fg: 0.25 # The mass fraction in gas
SchmidtLawCoeff_MSUNpYRpKPC2: 1.515e-4 # The normalization of the Kennicutt-Schmidt law
SchmidtLawExponent: 1.4 # The power law of the Kennicutt-Schmidt law
SchmidtLawHighDensExponent: 2.0 # The high density exponent for the Kennicutt-Schmidt law
SchmidtLawHighDens_thresh_HpCM3: 1e3
Schaye2004: 1 # whether to use the metallicity dependent critical star formation of Schaye (2004) (1) or not (0).
thresh_norm_HpCM3: 0.1 # Critical sf normalization to use (is not a normalization when Schaye2004=0, than it is the value.
thresh_max_norm_HpCM3: 10.0 # Maximum norm of the critical sf density
MetDep_Z0: 0.002 # Scale metallicity to use for the equation (not used for Schaye2004=0)
MetDep_SFthresh_Slope: -0.64 # Scaling of the critical density with the metallicity (not used for Schaye2004=0)
thresh_MaxPhysDensOn: 0 # Default is 0.
thresh_MaxOverDens_HpCM3: 1e5 # Density at which the SF law changes
EOS_Jeans_GammaEffective: 1.3333333 # The polytropic index
EOS_Jeans_TemperatureNorm_K: 1e5 # No idea how this works
EOS_JEANS_DensityNorm_HpCM3: 0.1 # No idea what the value is.
# Parameters for the EAGLE "equation of state"
EAGLEEntropyFloor:
Jeans_density_threshold_H_p_cm3: 0.1 # Physical density above which the EAGLE Jeans limiter entropy floor kicks in expressed in Hydrogen atoms per cm^3.
Jeans_over_density_threshold: 10. # Overdensity above which the EAGLE Jeans limiter entropy floor can kick in.
Jeans_temperature_norm_K: 8000 # Temperature of the EAGLE Jeans limiter entropy floor at the density threshold expressed in Kelvin.
Jeans_gamma_effective: 1.3333333 # Slope the of the EAGLE Jeans limiter entropy floor
Cool_density_threshold_H_p_cm3: 1e-5 # Physical density above which the EAGLE Cool limiter entropy floor kicks in expressed in Hydrogen atoms per cm^3.
Cool_over_density_threshold: 10. # Overdensity above which the EAGLE Cool limiter entropy floor can kick in.
Cool_temperature_norm_K: 8000 # Temperature of the EAGLE Cool limiter entropy floor at the density threshold expressed in Kelvin.
Cool_gamma_effective: 1. # Slope the of the EAGLE Cool limiter entropy floor
examples/IsolatedGalaxy_starformation_25p_intermediate/run.sh deleted 100755 → 0
+ 0
− 8
View file @ c9692302
#!/bin/bash
if [ ! -e starforming_intermediate.hdf5 ]
then
./getIC.sh
fi
../swift --threads=32 --external-gravity --self-gravity --stars --star-formation --cooling --temperature --hydro isolated_galaxy.yml 2>&1 | tee output.log
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