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test_intermolecular_pressure.py
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Created
Mon, Nov 11, 11:36
Size
1 KB
Mime Type
text/x-python
Expires
Wed, Nov 13, 11:36 (2 d)
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blob
Format
Raw Data
Handle
22268004
Attached To
R4670 PySONIC (old)
test_intermolecular_pressure.py
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import
logging
import
numpy
as
np
from
PointNICE.utils
import
logger
,
si_format
,
PmCompMethod
,
rmse
,
rsquared
from
PointNICE.neurons
import
CorticalRS
from
PointNICE.solvers
import
BilayerSonophore
from
PointNICE.constants
import
*
# Set logging level
logger
.
setLevel
(
logging
.
INFO
)
# Create standard bls object
neuron
=
CorticalRS
()
A
=
100e3
f
=
500e3
a
=
32e-9
Cm0
=
neuron
.
Cm0
Qm0
=
neuron
.
Vm0
*
Cm0
*
1e-3
Qm
=
Qm0
# Create sonophore object
bls
=
BilayerSonophore
(
a
,
f
,
Cm0
,
Qm0
)
# Run simulation with integrated intermolecular pressure
_
,
y
,
_
=
bls
.
run
(
f
,
A
,
Qm
,
Pm_comp_method
=
PmCompMethod
.
direct
)
Z1
,
_
=
y
[:,
-
NPC_FULL
:]
deltaZ1
=
Z1
.
max
()
-
Z1
.
min
()
logger
.
info
(
'simulation with standard Pm: Zmin =
%.2f
nm, Zmax =
%.2f
nm, dZ =
%.2f
nm'
,
Z1
.
min
()
*
1e9
,
Z1
.
max
()
*
1e9
,
deltaZ1
*
1e9
)
# Run simulation with predicted intermolecular pressure
_
,
y
,
_
=
bls
.
run
(
f
,
A
,
Qm
,
Pm_comp_method
=
PmCompMethod
.
predict
)
Z2
,
_
=
y
[:,
-
NPC_FULL
:]
deltaZ2
=
Z2
.
max
()
-
Z2
.
min
()
logger
.
info
(
'simulation with predicted Pm: Zmin =
%.2f
nm, Zmax =
%.2f
nm, dZ =
%.2f
nm'
,
Z2
.
min
()
*
1e9
,
Z2
.
max
()
*
1e9
,
deltaZ2
*
1e9
)
error_Z
=
rmse
(
Z1
,
Z2
)
r2_Z
=
rsquared
(
Z1
,
Z2
)
logger
.
info
(
'Z-error: R2 =
%.4f
, RMSE =
%.4f
nm (
%.4f%%
dZ)'
,
r2_Z
,
error_Z
*
1e9
,
error_Z
/
deltaZ1
*
1e2
)
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