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SWIFT
SWIFTsim
Commits
cdeb54c5
Commit
cdeb54c5
authored
Aug 10, 2016
by
Matthieu Schaller
Browse files
Updated ICs for the Gresho-Chan vortex test-case
parent
849ad16a
Changes
4
Hide whitespace changes
Inline
Side-by-side
examples/GreshoVortex/makeIC.py
View file @
cdeb54c5
...
...
@@ -21,93 +21,83 @@
import
h5py
import
random
from
numpy
import
*
import
sys
# Generates a swift IC file for the Gresho Vortex in a periodic box
# Parameters
inputFile
=
"glass_256.hdf5"
periodic
=
1
# 1 For periodic box
factor
=
3
boxSize
=
[
1.0
,
1.0
,
1.0
/
factor
]
L
=
120
# Number of particles along one axis
gamma
=
5.
/
3.
# Gas adiabatic index
eta
=
1.2349
# 48 ngbs with cubic spline kernel
rho
=
1
# Gas density
P0
=
0.
# Constant additional pressure (should have no impact on the dynamics)
fileName
=
"greshoVortex.hdf5"
vol
=
boxSize
[
0
]
*
boxSize
[
1
]
*
boxSize
[
2
]
fileOutputName
=
"greshoVortex.hdf5"
#---------------------------------------------------
numPart
=
L
**
3
/
factor
mass
=
boxSize
[
0
]
*
boxSize
[
1
]
*
boxSize
[
2
]
*
rho
/
numPart
#Generate particles
coords
=
zeros
((
numPart
,
3
))
v
=
zeros
((
numPart
,
3
))
m
=
zeros
((
numPart
,
1
))
h
=
zeros
((
numPart
,
1
))
u
=
zeros
((
numPart
,
1
))
ids
=
zeros
((
numPart
,
1
),
dtype
=
'L'
)
partId
=
0
for
i
in
range
(
L
):
for
j
in
range
(
L
):
for
k
in
range
(
L
/
factor
):
index
=
i
*
L
*
L
/
factor
+
j
*
L
/
factor
+
k
x
=
i
*
boxSize
[
0
]
/
L
+
boxSize
[
0
]
/
(
2
*
L
)
y
=
j
*
boxSize
[
0
]
/
L
+
boxSize
[
0
]
/
(
2
*
L
)
z
=
k
*
boxSize
[
0
]
/
L
+
boxSize
[
0
]
/
(
2
*
L
)
r2
=
(
x
-
boxSize
[
0
]
/
2
)
**
2
+
(
y
-
boxSize
[
1
]
/
2
)
**
2
r
=
sqrt
(
r2
)
coords
[
index
,
0
]
=
x
coords
[
index
,
1
]
=
y
coords
[
index
,
2
]
=
z
v_phi
=
0.
if
r
<
0.2
:
v_phi
=
5.
*
r
elif
r
<
0.4
:
v_phi
=
2.
-
5.
*
r
else
:
v_phi
=
0.
v
[
index
,
0
]
=
-
v_phi
*
(
y
-
boxSize
[
0
]
/
2
)
/
r
v
[
index
,
1
]
=
v_phi
*
(
x
-
boxSize
[
0
]
/
2
)
/
r
v
[
index
,
2
]
=
0.
m
[
index
]
=
mass
h
[
index
]
=
eta
*
boxSize
[
0
]
/
L
P
=
P0
if
r
<
0.2
:
P
=
P
+
5.
+
12.5
*
r2
elif
r
<
0.4
:
P
=
P
+
9.
+
12.5
*
r2
-
20.
*
r
+
4.
*
log
(
r
/
0.2
)
else
:
P
=
P
+
3.
+
4.
*
log
(
2.
)
u
[
index
]
=
P
/
((
gamma
-
1.
)
*
rho
)
ids
[
index
]
=
partId
+
1
partId
=
partId
+
1
fileInput
=
h5py
.
File
(
inputFile
,
"r"
)
header
=
fileInput
[
"/Header"
]
boxSize
=
header
.
attrs
[
"BoxSize"
][
0
]
coords
=
fileInput
[
"/PartType0/Coordinates"
][:,:]
h
=
fileInput
[
"/PartType0/SmoothingLength"
][:]
ids
=
fileInput
[
"/PartType0/ParticleIDs"
][:]
numPart
=
size
(
ids
)
m
=
ones
(
shape
(
ids
))
*
boxSize
**
2
/
numPart
u
=
zeros
(
shape
(
m
))
v
=
zeros
(
shape
(
coords
))
for
i
in
range
(
numPart
):
x
=
coords
[
i
,
0
]
y
=
coords
[
i
,
1
]
z
=
coords
[
i
,
2
]
r2
=
(
x
-
boxSize
/
2
)
**
2
+
(
y
-
boxSize
/
2
)
**
2
r
=
sqrt
(
r2
)
v_phi
=
0.
if
r
<
0.2
:
v_phi
=
5.
*
r
elif
r
<
0.4
:
v_phi
=
2.
-
5.
*
r
else
:
v_phi
=
0.
v
[
i
,
0
]
=
-
v_phi
*
(
y
-
boxSize
/
2
)
/
r
v
[
i
,
1
]
=
v_phi
*
(
x
-
boxSize
/
2
)
/
r
v
[
i
,
2
]
=
0.
P
=
P0
if
r
<
0.2
:
P
=
P
+
5.
+
12.5
*
r2
elif
r
<
0.4
:
P
=
P
+
9.
+
12.5
*
r2
-
20.
*
r
+
4.
*
log
(
r
/
0.2
)
else
:
P
=
P
+
3.
+
4.
*
log
(
2.
)
u
[
i
]
=
P
/
((
gamma
-
1.
)
*
rho
)
#File
file
=
h5py
.
File
(
fileName
,
'w'
)
file
Output
=
h5py
.
File
(
file
Output
Name
,
'w'
)
# Header
grp
=
file
.
create_group
(
"/Header"
)
grp
=
file
Output
.
create_group
(
"/Header"
)
grp
.
attrs
[
"BoxSize"
]
=
boxSize
grp
.
attrs
[
"NumPart_Total"
]
=
[
numPart
,
0
,
0
,
0
,
0
,
0
]
grp
.
attrs
[
"NumPart_Total_HighWord"
]
=
[
0
,
0
,
0
,
0
,
0
,
0
]
grp
.
attrs
[
"NumPart_ThisFile"
]
=
[
numPart
,
0
,
0
,
0
,
0
,
0
]
grp
.
attrs
[
"Time"
]
=
0.0
grp
.
attrs
[
"NumFilesPerSnapshot"
]
=
1
grp
.
attrs
[
"NumFile
Output
sPerSnapshot"
]
=
1
grp
.
attrs
[
"MassTable"
]
=
[
0.0
,
0.0
,
0.0
,
0.0
,
0.0
,
0.0
]
grp
.
attrs
[
"Flag_Entropy_ICs"
]
=
[
0
,
0
,
0
,
0
,
0
,
0
]
#Runtime parameters
grp
=
file
.
create_group
(
"/RuntimePars"
)
grp
=
file
Output
.
create_group
(
"/RuntimePars"
)
grp
.
attrs
[
"PeriodicBoundariesOn"
]
=
periodic
#Units
grp
=
file
.
create_group
(
"/Units"
)
grp
=
file
Output
.
create_group
(
"/Units"
)
grp
.
attrs
[
"Unit length in cgs (U_L)"
]
=
1.
grp
.
attrs
[
"Unit mass in cgs (U_M)"
]
=
1.
grp
.
attrs
[
"Unit time in cgs (U_t)"
]
=
1.
...
...
@@ -115,20 +105,20 @@ grp.attrs["Unit current in cgs (U_I)"] = 1.
grp
.
attrs
[
"Unit temperature in cgs (U_T)"
]
=
1.
#Particle group
grp
=
file
.
create_group
(
"/PartType0"
)
grp
=
file
Output
.
create_group
(
"/PartType0"
)
ds
=
grp
.
create_dataset
(
'Coordinates'
,
(
numPart
,
3
),
'd'
)
ds
[()]
=
coords
ds
=
grp
.
create_dataset
(
'Velocities'
,
(
numPart
,
3
),
'f'
)
ds
[()]
=
v
ds
=
grp
.
create_dataset
(
'Masses'
,
(
numPart
,
1
),
'f'
)
ds
[()]
=
m
ds
=
grp
.
create_dataset
(
'Masses'
,
(
numPart
,
1
),
'f'
)
ds
[()]
=
m
.
reshape
((
numPart
,
1
))
ds
=
grp
.
create_dataset
(
'SmoothingLength'
,
(
numPart
,
1
),
'f'
)
ds
[()]
=
h
ds
[()]
=
h
.
reshape
((
numPart
,
1
))
ds
=
grp
.
create_dataset
(
'InternalEnergy'
,
(
numPart
,
1
),
'f'
)
ds
[()]
=
u
ds
[()]
=
u
.
reshape
((
numPart
,
1
))
ds
=
grp
.
create_dataset
(
'ParticleIDs'
,
(
numPart
,
1
),
'L'
)
ds
[()]
=
ids
[:]
ds
[()]
=
ids
.
reshape
((
numPart
,
1
))
file
.
close
()
file
Output
.
close
()
examples/PerturbedPlane/makeIC.py
0 → 100644
View file @
cdeb54c5
###############################################################################
# This file is part of SWIFT.
# Copyright (c) 2016 Matthieu Schaller (matthieu.schaller@durham.ac.uk)
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published
# by the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
#
##############################################################################
import
h5py
import
sys
import
random
from
numpy
import
*
# Generates a swift IC file containing a perturbed cartesian distribution of particles
# at a constant density and pressure in a cubic box
# Parameters
periodic
=
1
# 1 For periodic box
boxSize
=
1.
L
=
int
(
sys
.
argv
[
1
])
# Number of particles along one axis
rho
=
1.
# Density
P
=
1.
# Pressure
gamma
=
5.
/
3.
# Gas adiabatic index
pert
=
0.1
# Perturbation scale (in units of the interparticle separation)
fileName
=
"perturbedPlane.hdf5"
#---------------------------------------------------
numPart
=
L
**
2
mass
=
boxSize
**
2
*
rho
/
numPart
internalEnergy
=
P
/
((
gamma
-
1.
)
*
rho
)
#Generate particles
coords
=
zeros
((
numPart
,
3
))
v
=
zeros
((
numPart
,
3
))
m
=
zeros
((
numPart
,
1
))
h
=
zeros
((
numPart
,
1
))
u
=
zeros
((
numPart
,
1
))
ids
=
zeros
((
numPart
,
1
),
dtype
=
'L'
)
for
i
in
range
(
L
):
for
j
in
range
(
L
):
index
=
i
*
L
+
j
x
=
i
*
boxSize
/
L
+
boxSize
/
(
2
*
L
)
+
random
.
random
()
*
pert
*
boxSize
/
(
2.
*
L
)
y
=
j
*
boxSize
/
L
+
boxSize
/
(
2
*
L
)
+
random
.
random
()
*
pert
*
boxSize
/
(
2.
*
L
)
z
=
0
coords
[
index
,
0
]
=
x
coords
[
index
,
1
]
=
y
coords
[
index
,
2
]
=
z
v
[
index
,
0
]
=
0.
v
[
index
,
1
]
=
0.
v
[
index
,
2
]
=
0.
m
[
index
]
=
mass
h
[
index
]
=
1.23485
*
boxSize
/
L
u
[
index
]
=
internalEnergy
ids
[
index
]
=
index
#--------------------------------------------------
#File
file
=
h5py
.
File
(
fileName
,
'w'
)
# Header
grp
=
file
.
create_group
(
"/Header"
)
grp
.
attrs
[
"BoxSize"
]
=
boxSize
grp
.
attrs
[
"NumPart_Total"
]
=
[
numPart
,
0
,
0
,
0
,
0
,
0
]
grp
.
attrs
[
"NumPart_Total_HighWord"
]
=
[
0
,
0
,
0
,
0
,
0
,
0
]
grp
.
attrs
[
"NumPart_ThisFile"
]
=
[
numPart
,
0
,
0
,
0
,
0
,
0
]
grp
.
attrs
[
"Time"
]
=
0.0
grp
.
attrs
[
"NumFilesPerSnapshot"
]
=
1
grp
.
attrs
[
"MassTable"
]
=
[
0.0
,
0.0
,
0.0
,
0.0
,
0.0
,
0.0
]
grp
.
attrs
[
"Flag_Entropy_ICs"
]
=
[
0
,
0
,
0
,
0
,
0
,
0
]
grp
.
attrs
[
"NumPart_Total"
]
=
numPart
#Runtime parameters
grp
=
file
.
create_group
(
"/RuntimePars"
)
grp
.
attrs
[
"PeriodicBoundariesOn"
]
=
periodic
#Units
grp
=
file
.
create_group
(
"/Units"
)
grp
.
attrs
[
"Unit length in cgs (U_L)"
]
=
1.
grp
.
attrs
[
"Unit mass in cgs (U_M)"
]
=
1.
grp
.
attrs
[
"Unit time in cgs (U_t)"
]
=
1.
grp
.
attrs
[
"Unit current in cgs (U_I)"
]
=
1.
grp
.
attrs
[
"Unit temperature in cgs (U_T)"
]
=
1.
#Particle group
grp
=
file
.
create_group
(
"/PartType0"
)
ds
=
grp
.
create_dataset
(
'Coordinates'
,
(
numPart
,
3
),
'd'
)
ds
[()]
=
coords
ds
=
grp
.
create_dataset
(
'Velocities'
,
(
numPart
,
3
),
'f'
)
ds
[()]
=
v
ds
=
grp
.
create_dataset
(
'Masses'
,
(
numPart
,
1
),
'f'
)
ds
[()]
=
m
ds
=
grp
.
create_dataset
(
'SmoothingLength'
,
(
numPart
,
1
),
'f'
)
ds
[()]
=
h
ds
=
grp
.
create_dataset
(
'InternalEnergy'
,
(
numPart
,
1
),
'f'
)
ds
[()]
=
u
ds
=
grp
.
create_dataset
(
'ParticleIDs'
,
(
numPart
,
1
),
'L'
)
ds
[()]
=
ids
+
1
file
.
close
()
examples/PerturbedPlane/perturbedPlane.yml
0 → 100644
View file @
cdeb54c5
# Define the system of units to use internally.
InternalUnitSystem
:
UnitMass_in_cgs
:
1
# Grams
UnitLength_in_cgs
:
1
# Centimeters
UnitVelocity_in_cgs
:
1
# Centimeters per second
UnitCurrent_in_cgs
:
1
# Amperes
UnitTemp_in_cgs
:
1
# Kelvin
# Parameters governing the time integration
TimeIntegration
:
time_begin
:
0.
# The starting time of the simulation (in internal units).
time_end
:
10.
# The end time of the simulation (in internal units).
dt_min
:
1e-6
# 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
:
perturbedPlane
# Common part of the name of output files
time_first
:
0.
# Time of the first output (in internal units)
delta_time
:
1e-1
# Time difference between consecutive outputs (in internal units)
# Parameters governing the conserved quantities statistics
Statistics
:
delta_time
:
1e-3
# Time between statistics output
# 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).
delta_neighbours
:
0.1
# The tolerance for the targetted number of neighbours.
max_smoothing_length
:
0.1
# Maximal smoothing length allowed (in internal units).
CFL_condition
:
0.1
# Courant-Friedrich-Levy condition for time integration.
# Parameters related to the initial conditions
InitialConditions
:
file_name
:
./perturbedPlane.hdf5
# The file to read
src/const.h
View file @
cdeb54c5
...
...
@@ -37,8 +37,8 @@
#define const_max_u_change 0.1f
/* Dimensionality of the problem */
#define HYDRO_DIMENSION_3D
//
#define HYDRO_DIMENSION_2D
//
#define HYDRO_DIMENSION_3D
#define HYDRO_DIMENSION_2D
//#define HYDRO_DIMENSION_1D
/* Hydrodynamical adiabatic index. */
...
...
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