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anisotropic_thin -> oriented_thick #378

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merged 1 commit into from
Jun 14, 2023
+7 −7
Merged

anisotropic_thin -> oriented_thick #378

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10 changes: 5 additions & 5 deletions recOrder/cli/apply_inverse_transfer_function.py
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Original file line number Diff line number Diff line change
Expand Up @@ -15,7 +15,7 @@
)
from recOrder.io import utils
from waveorder.models import (
inplane_anisotropic_thin_pol3d,
inplane_oriented_thick_pol3d,
isotropic_thin_3d,
phase_thick_3d,
)
Expand Down Expand Up @@ -168,7 +168,7 @@ def apply_inverse_transfer_function_cli(
for time_index in range(t_shape):
# Apply
reconstructed_parameters = (
inplane_anisotropic_thin_pol3d.apply_inverse_transfer_function(
inplane_oriented_thick_pol3d.apply_inverse_transfer_function(
tczyx_data[time_index],
intensity_to_stokes_matrix,
wavelength,
Expand Down Expand Up @@ -277,7 +277,7 @@ def apply_inverse_transfer_function_cli(

for time_index in range(t_shape):
# Apply
reconstructed_parameters_2d = inplane_anisotropic_thin_pol3d.apply_inverse_transfer_function(
reconstructed_parameters_2d = inplane_oriented_thick_pol3d.apply_inverse_transfer_function(
tczyx_data[time_index],
intensity_to_stokes_matrix,
wavelength,
Expand All @@ -286,7 +286,7 @@ def apply_inverse_transfer_function_cli(
**biref_inverse_dict,
)

reconstructed_parameters_3d = inplane_anisotropic_thin_pol3d.apply_inverse_transfer_function(
reconstructed_parameters_3d = inplane_oriented_thick_pol3d.apply_inverse_transfer_function(
tczyx_data[time_index],
intensity_to_stokes_matrix,
wavelength,
Expand Down Expand Up @@ -339,7 +339,7 @@ def apply_inverse_transfer_function_cli(

# Apply
for time_index in range(t_shape):
reconstructed_parameters_3d = inplane_anisotropic_thin_pol3d.apply_inverse_transfer_function(
reconstructed_parameters_3d = inplane_oriented_thick_pol3d.apply_inverse_transfer_function(
tczyx_data[time_index],
intensity_to_stokes_matrix,
wavelength,
Expand Down
4 changes: 2 additions & 2 deletions recOrder/cli/compute_transfer_function.py
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Original file line number Diff line number Diff line change
Expand Up @@ -6,7 +6,7 @@
from recOrder.cli.settings import TransferFunctionSettings
from recOrder.cli.parsing import config_path_option, output_dataset_options
from waveorder.models import (
inplane_anisotropic_thin_pol3d,
inplane_oriented_thick_pol3d,
isotropic_thin_3d,
phase_thick_3d,
)
Expand Down Expand Up @@ -41,7 +41,7 @@ def compute_transfer_function_cli(config_path, output_path):

# Calculate transfer functions
intensity_to_stokes_matrix = (
inplane_anisotropic_thin_pol3d.calculate_transfer_function(
inplane_oriented_thick_pol3d.calculate_transfer_function(
**settings.birefringence_transfer_function_settings.dict()
)
)
Expand Down