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SWIFT
SWIFTsim
Commits
3fc307d8
Commit
3fc307d8
authored
6 years ago
by
Matthieu Schaller
Browse files
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Plain Diff
Merge branch 'fix-temp-evo' into 'master'
Fixes
#594
Closes
#594
See merge request
!849
parents
c4838d9b
a862327b
No related branches found
No related tags found
1 merge request
!849
Fixes #594
Changes
1
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1 changed file
examples/SantaBarbara/SantaBarbara-256/plotTempEvolution.py
+77
-52
77 additions, 52 deletions
examples/SantaBarbara/SantaBarbara-256/plotTempEvolution.py
with
77 additions
and
52 deletions
examples/SantaBarbara/SantaBarbara-256/plotTempEvolution.py
+
77
−
52
View file @
3fc307d8
...
...
@@ -28,32 +28,34 @@ n_snapshots = 153
snapname
=
"
santabarbara
"
import
matplotlib
matplotlib
.
use
(
"
Agg
"
)
from
pylab
import
*
import
h5py
import
os.path
# Plot parameters
params
=
{
'
axes.labelsize
'
:
10
,
'
axes.titlesize
'
:
10
,
'
font.size
'
:
9
,
'
legend.fontsize
'
:
9
,
'
xtick.labelsize
'
:
10
,
'
ytick.labelsize
'
:
10
,
'
text.usetex
'
:
True
,
'
figure.figsize
'
:
(
3.15
,
3.15
),
'
figure.subplot.left
'
:
0.14
,
'
figure.subplot.right
'
:
0.99
,
'
figure.subplot.bottom
'
:
0.12
,
'
figure.subplot.top
'
:
0.99
,
'
figure.subplot.wspace
'
:
0.15
,
'
figure.subplot.hspace
'
:
0.12
,
'
lines.markersize
'
:
6
,
'
lines.linewidth
'
:
2.
,
'
text.latex.unicode
'
:
True
params
=
{
"
axes.labelsize
"
:
10
,
"
axes.titlesize
"
:
10
,
"
font.size
"
:
9
,
"
legend.fontsize
"
:
9
,
"
xtick.labelsize
"
:
10
,
"
ytick.labelsize
"
:
10
,
"
text.usetex
"
:
True
,
"
figure.figsize
"
:
(
3.15
,
3.15
),
"
figure.subplot.left
"
:
0.14
,
"
figure.subplot.right
"
:
0.99
,
"
figure.subplot.bottom
"
:
0.12
,
"
figure.subplot.top
"
:
0.99
,
"
figure.subplot.wspace
"
:
0.15
,
"
figure.subplot.hspace
"
:
0.12
,
"
lines.markersize
"
:
6
,
"
lines.linewidth
"
:
2.0
,
"
text.latex.unicode
"
:
True
,
}
rcParams
.
update
(
params
)
rc
(
'
font
'
,
**
{
'
family
'
:
'
sans-serif
'
,
'
sans-serif
'
:[
'
Times
'
]})
rc
(
"
font
"
,
**
{
"
family
"
:
"
sans-serif
"
,
"
sans-serif
"
:
[
"
Times
"
]})
# Read the simulation data
sim
=
h5py
.
File
(
"
%s_0000.hdf5
"
%
snapname
,
"
r
"
)
...
...
@@ -63,9 +65,10 @@ scheme = sim["/HydroScheme"].attrs["Scheme"][0]
kernel
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Kernel function
"
][
0
]
neighbours
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Kernel target N_ngb
"
][
0
]
eta
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Kernel eta
"
][
0
]
alpha
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Alpha viscosity
"
][
0
]
H_mass_fraction
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Hydrogen mass fraction
"
][
0
]
H_transition_temp
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Hydrogen ionization transition temperature
"
][
0
]
H_transition_temp
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Hydrogen ionization transition temperature
"
][
0
]
T_initial
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Initial temperature
"
][
0
]
T_minimal
=
sim
[
"
/HydroScheme
"
].
attrs
[
"
Minimal temperature
"
][
0
]
git
=
sim
[
"
Code
"
].
attrs
[
"
Git Revision
"
]
...
...
@@ -85,25 +88,26 @@ unit_time_in_si = unit_time_in_cgs
# Primoridal ean molecular weight as a function of temperature
def
mu
(
T
,
H_frac
=
H_mass_fraction
,
T_trans
=
H_transition_temp
):
if
T
>
T_trans
:
return
4.
/
(
8.
-
5.
*
(
1.
-
H_frac
))
return
4.
0
/
(
8.
0
-
5.
0
*
(
1.
0
-
H_frac
))
else
:
return
4.
/
(
1.
+
3.
*
H_frac
)
return
4.0
/
(
1.0
+
3.0
*
H_frac
)
# Temperature of some primoridal gas with a given internal energy
def
T
(
u
,
H_frac
=
H_mass_fraction
,
T_trans
=
H_transition_temp
):
T_over_mu
=
(
gas_gamma
-
1.
)
*
u
*
mH_in_kg
/
k_in_J_K
T_over_mu
=
(
gas_gamma
-
1.
0
)
*
u
*
mH_in_kg
/
k_in_J_K
ret
=
np
.
ones
(
np
.
size
(
u
))
*
T_trans
# Enough energy to be ionized?
mask_ionized
=
(
T_over_mu
>
(
T_trans
+
1
)
/
mu
(
T_trans
+
1
,
H_frac
,
T_trans
)
)
if
np
.
sum
(
mask_ionized
)
>
0
:
ret
[
mask_ionized
]
=
T_over_mu
[
mask_ionized
]
*
mu
(
T_trans
*
10
,
H_frac
,
T_trans
)
mask_ionized
=
T_over_mu
>
(
T_trans
+
1
)
/
mu
(
T_trans
+
1
,
H_frac
,
T_trans
)
if
np
.
sum
(
mask_ionized
)
>
0
:
ret
[
mask_ionized
]
=
T_over_mu
[
mask_ionized
]
*
mu
(
T_trans
*
10
,
H_frac
,
T_trans
)
# Neutral gas?
mask_neutral
=
(
T_over_mu
<
(
T_trans
-
1
)
/
mu
((
T_trans
-
1
),
H_frac
,
T_trans
)
)
if
np
.
sum
(
mask_neutral
)
>
0
:
mask_neutral
=
T_over_mu
<
(
T_trans
-
1
)
/
mu
((
T_trans
-
1
),
H_frac
,
T_trans
)
if
np
.
sum
(
mask_neutral
)
>
0
:
ret
[
mask_neutral
]
=
T_over_mu
[
mask_neutral
]
*
mu
(
0
,
H_frac
,
T_trans
)
return
ret
...
...
@@ -119,7 +123,7 @@ T_max = np.zeros(n_snapshots)
# Loop over all the snapshots
for
i
in
range
(
n_snapshots
):
sim
=
h5py
.
File
(
"
%s_%04d.hdf5
"
%
(
snapname
,
i
),
"
r
"
)
sim
=
h5py
.
File
(
"
%s_%04d.hdf5
"
%
(
snapname
,
i
),
"
r
"
)
z
[
i
]
=
sim
[
"
/Cosmology
"
].
attrs
[
"
Redshift
"
][
0
]
a
[
i
]
=
sim
[
"
/Cosmology
"
].
attrs
[
"
Scale-factor
"
][
0
]
...
...
@@ -127,8 +131,8 @@ for i in range(n_snapshots):
u
=
sim
[
"
/PartType0/InternalEnergy
"
][:]
# Compute the temperature
u
*=
(
unit_length_in_si
**
2
/
unit_time_in_si
**
2
)
u
/=
a
[
i
]
**
(
3
*
(
gas_gamma
-
1.
))
u
*=
unit_length_in_si
**
2
/
unit_time_in_si
**
2
u
/=
a
[
i
]
**
(
3
*
(
gas_gamma
-
1.
0
))
Temp
=
T
(
u
)
# Gather statistics
...
...
@@ -142,34 +146,56 @@ for i in range(n_snapshots):
# CMB evolution
a_evol
=
np
.
logspace
(
-
3
,
0
,
60
)
T_cmb
=
(
1.
/
a_evol
)
**
2
*
2.72
T_cmb
=
(
1.
0
/
a_evol
)
**
2
*
2.72
# Plot the interesting quantities
figure
()
subplot
(
111
,
xscale
=
"
log
"
,
yscale
=
"
log
"
)
fill_between
(
a
,
T_mean
-
T_std
,
T_mean
+
T_std
,
color
=
'
C0
'
,
alpha
=
0.1
)
plot
(
a
,
T_max
,
ls
=
'
-.
'
,
color
=
'
C0
'
,
lw
=
1.
,
label
=
"
${
\\
rm max}~T$
"
)
plot
(
a
,
T_min
,
ls
=
'
:
'
,
color
=
'
C0
'
,
lw
=
1.
,
label
=
"
${
\\
rm min}~T$
"
)
plot
(
a
,
T_mean
,
color
=
'
C0
'
,
label
=
"
${
\\
rm mean}~T$
"
,
lw
=
1.5
)
fill_between
(
a
,
10
**
(
T_log_mean
-
T_log_std
),
10
**
(
T_log_mean
+
T_log_std
),
color
=
'
C1
'
,
alpha
=
0.1
)
plot
(
a
,
10
**
T_log_mean
,
color
=
'
C1
'
,
label
=
"
${
\\
rm mean}~{
\\
rm log} T$
"
,
lw
=
1.5
)
plot
(
a
,
T_median
,
color
=
'
C2
'
,
label
=
"
${
\\
rm median}~T$
"
,
lw
=
1.5
)
fill_between
(
a
,
T_mean
-
T_std
,
T_mean
+
T_std
,
color
=
"
C0
"
,
alpha
=
0.1
)
plot
(
a
,
T_max
,
ls
=
"
-.
"
,
color
=
"
C0
"
,
lw
=
1.0
,
label
=
"
${
\\
rm max}~T$
"
)
plot
(
a
,
T_min
,
ls
=
"
:
"
,
color
=
"
C0
"
,
lw
=
1.0
,
label
=
"
${
\\
rm min}~T$
"
)
plot
(
a
,
T_mean
,
color
=
"
C0
"
,
label
=
"
${
\\
rm mean}~T$
"
,
lw
=
1.5
)
fill_between
(
a
,
10
**
(
T_log_mean
-
T_log_std
),
10
**
(
T_log_mean
+
T_log_std
),
color
=
"
C1
"
,
alpha
=
0.1
,
)
plot
(
a
,
10
**
T_log_mean
,
color
=
"
C1
"
,
label
=
"
${
\\
rm mean}~{
\\
rm log} T$
"
,
lw
=
1.5
)
plot
(
a
,
T_median
,
color
=
"
C2
"
,
label
=
"
${
\\
rm median}~T$
"
,
lw
=
1.5
)
legend
(
loc
=
"
upper left
"
,
frameon
=
False
,
handlelength
=
1.5
)
# Expected lines
plot
([
1e-10
,
1e10
],
[
H_transition_temp
,
H_transition_temp
],
'
k--
'
,
lw
=
0.5
,
alpha
=
0.7
)
text
(
2.5e-2
,
H_transition_temp
*
1.07
,
"
$T_{
\\
rm HII
\\
rightarrow HI}$
"
,
va
=
"
bottom
"
,
alpha
=
0.7
,
fontsize
=
8
)
plot
([
1e-10
,
1e10
],
[
T_minimal
,
T_minimal
],
'
k--
'
,
lw
=
0.5
,
alpha
=
0.7
)
text
(
1e-2
,
T_minimal
*
0.8
,
"
$T_{
\\
rm min}$
"
,
va
=
"
top
"
,
alpha
=
0.7
,
fontsize
=
8
)
plot
(
a_evol
,
T_cmb
,
'
k--
'
,
lw
=
0.5
,
alpha
=
0.7
)
text
(
a_evol
[
20
],
T_cmb
[
20
]
*
0.55
,
"
$(1+z)^2
\\
times T_{
\\
rm CMB,0}$
"
,
rotation
=-
34
,
alpha
=
0.7
,
fontsize
=
8
,
va
=
"
top
"
,
bbox
=
dict
(
facecolor
=
'
w
'
,
edgecolor
=
'
none
'
,
pad
=
1.0
,
alpha
=
0.9
))
redshift_ticks
=
np
.
array
([
0.
,
1.
,
2.
,
5.
,
10.
,
20.
,
50.
,
100.
])
plot
([
1e-10
,
1e10
],
[
H_transition_temp
,
H_transition_temp
],
"
k--
"
,
lw
=
0.5
,
alpha
=
0.7
)
text
(
2.5e-2
,
H_transition_temp
*
1.07
,
"
$T_{
\\
rm HII
\\
rightarrow HI}$
"
,
va
=
"
bottom
"
,
alpha
=
0.7
,
fontsize
=
8
,
)
plot
([
1e-10
,
1e10
],
[
T_minimal
,
T_minimal
],
"
k--
"
,
lw
=
0.5
,
alpha
=
0.7
)
text
(
1e-2
,
T_minimal
*
0.8
,
"
$T_{
\\
rm min}$
"
,
va
=
"
top
"
,
alpha
=
0.7
,
fontsize
=
8
)
plot
(
a_evol
,
T_cmb
,
"
k--
"
,
lw
=
0.5
,
alpha
=
0.7
)
text
(
a_evol
[
20
],
T_cmb
[
20
]
*
0.55
,
"
$(1+z)^2
\\
times T_{
\\
rm CMB,0}$
"
,
rotation
=-
34
,
alpha
=
0.7
,
fontsize
=
8
,
va
=
"
top
"
,
bbox
=
dict
(
facecolor
=
"
w
"
,
edgecolor
=
"
none
"
,
pad
=
1.0
,
alpha
=
0.9
),
)
redshift_ticks
=
np
.
array
([
0.0
,
1.0
,
2.0
,
5.0
,
10.0
,
20.0
,
50.0
,
100.0
])
redshift_labels
=
[
"
$0$
"
,
"
$1$
"
,
"
$2$
"
,
"
$5$
"
,
"
$10$
"
,
"
$20$
"
,
"
$50$
"
,
"
$100$
"
]
a_ticks
=
1.
/
(
redshift_ticks
+
1.
)
a_ticks
=
1.
0
/
(
redshift_ticks
+
1.
0
)
xticks
(
a_ticks
,
redshift_labels
)
minorticks_off
()
...
...
@@ -180,4 +206,3 @@ xlim(9e-3, 1.1)
ylim
(
20
,
2.5e7
)
savefig
(
"
Temperature_evolution.png
"
,
dpi
=
200
)
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