# Copyright (c) DataLab Platform Developers, BSD 3-Clause license, see LICENSE file.
"""
Basic image processing
~~~~~~~~~~~~~~~~~~~~~~
.. automodule:: sigima.proc.image.base
:members:
:no-index:
Arithmetic
~~~~~~~~~~
.. automodule:: sigima.proc.image.arithmetic
:members:
:no-index:
Mathematical Operations
~~~~~~~~~~~~~~~~~~~~~~~
.. automodule:: sigima.proc.image.mathops
:members:
:no-index:
Measurements
~~~~~~~~~~~~
.. automodule:: sigima.proc.image.measurement
:members:
:no-index:
Extraction
~~~~~~~~~~
.. automodule:: sigima.proc.image.extraction
:members:
:no-index:
Filtering
~~~~~~~~~
.. automodule:: sigima.proc.image.filtering
:members:
:no-index:
Fourier
~~~~~~~
.. automodule:: sigima.proc.image.fourier
:members:
:no-index:
Thresholding
~~~~~~~~~~~~
.. automodule:: sigima.proc.image.threshold
:members:
:no-index:
Exposure correction
~~~~~~~~~~~~~~~~~~~
.. automodule:: sigima.proc.image.exposure
:members:
:no-index:
Preprocessing
~~~~~~~~~~~~~
.. automodule:: sigima.proc.image.preprocessing
:members:
:no-index:
Restoration
~~~~~~~~~~~
.. automodule:: sigima.proc.image.restoration
:members:
:no-index:
Noise
~~~~~
.. automodule:: sigima.proc.image.noise
:members:
:no-index:
Morphology
~~~~~~~~~~
.. automodule:: sigima.proc.image.morphology
:members:
:no-index:
Edge detection
~~~~~~~~~~~~~~
.. automodule:: sigima.proc.image.edges
:members:
:no-index:
Detection
~~~~~~~~~
.. automodule:: sigima.proc.image.detection
:members:
:no-index:
Geometry
~~~~~~~~
.. automodule:: sigima.proc.image.geometry
:members:
:no-index:
Transformation features
^^^^^^^^^^^^^^^^^^^^^^^
.. automodule:: sigima.proc.image.transformations
:members:
:no-index:
"""
# pylint: disable=invalid-name # Allows short reference names like x, y, ...
# MARK: Important notes
# ---------------------
# - All `guidata.dataset.DataSet` classes must also be imported
# in the `sigima.params` module.
# - All functions decorated by `computation_function` defined in the other modules
# of this package must be imported right here.
from __future__ import annotations
import guidata.dataset as gds
from sigima.config import _
from sigima.enums import PadLocation2D
from sigima.proc.image.arithmetic import (
addition,
addition_constant,
arithmetic,
average,
difference,
difference_constant,
division,
division_constant,
product,
product_constant,
quadratic_difference,
standard_deviation,
)
from sigima.proc.image.base import (
Wrap1to1Func,
compute_geometry_from_obj,
dst_1_to_1_signal,
restore_data_outside_roi,
)
from sigima.proc.image.detection import (
BlobDOGParam,
BlobDOHParam,
BlobLOGParam,
BlobOpenCVParam,
ContourShapeParam,
HoughCircleParam,
Peak2DDetectionParam,
apply_detection_rois,
blob_dog,
blob_doh,
blob_log,
blob_opencv,
contour_shape,
hough_circle_peaks,
peak_detection,
)
from sigima.proc.image.edges import (
CannyParam,
canny,
farid,
farid_h,
farid_v,
laplace,
prewitt,
prewitt_h,
prewitt_v,
roberts,
scharr,
scharr_h,
scharr_v,
sobel,
sobel_h,
sobel_v,
)
from sigima.proc.image.exposure import (
AdjustGammaParam,
AdjustLogParam,
AdjustSigmoidParam,
EqualizeAdaptHistParam,
EqualizeHistParam,
FlatFieldParam,
NormalizeParam,
RescaleIntensityParam,
adjust_gamma,
adjust_log,
adjust_sigmoid,
clip,
equalize_adapthist,
equalize_hist,
flatfield,
histogram,
normalize,
offset_correction,
rescale_intensity,
)
from sigima.proc.image.extraction import (
AverageProfileParam,
Direction,
LineProfileParam,
RadialProfileParam,
ROIGridParam,
SegmentProfileParam,
average_profile,
extract_roi,
extract_rois,
generate_image_grid_roi,
line_profile,
radial_profile,
segment_profile,
)
from sigima.proc.image.filtering import (
ButterworthParam,
GaussianFreqFilterParam,
butterworth,
gaussian_filter,
gaussian_freq_filter,
moving_average,
moving_median,
wiener,
)
from sigima.proc.image.fourier import (
fft,
ifft,
magnitude_spectrum,
phase_spectrum,
psd,
)
from sigima.proc.image.geometry import (
Resampling2DParam,
ResizeParam,
RotateParam,
TranslateParam,
UniformCoordsParam,
XYZCalibrateParam,
calibration,
fliph,
flipv,
resampling,
resize,
rotate,
rotate90,
rotate270,
set_uniform_coords,
translate,
transpose,
)
from sigima.proc.image.mathops import (
DataTypeIParam,
Log10ZPlusNParam,
absolute,
astype,
complex_from_magnitude_phase,
complex_from_real_imag,
convolution,
deconvolution,
exp,
imag,
inverse,
log10,
log10_z_plus_n,
phase,
real,
)
from sigima.proc.image.measurement import (
centroid,
enclosing_circle,
horizontal_projection,
stats,
vertical_projection,
)
from sigima.proc.image.morphology import (
MorphologyParam,
black_tophat,
closing,
dilation,
erosion,
opening,
white_tophat,
)
from sigima.proc.image.noise import (
add_gaussian_noise,
add_poisson_noise,
add_uniform_noise,
)
from sigima.proc.image.preprocessing import (
BinningParam,
ZeroPadding2DParam,
binning,
zero_padding,
)
from sigima.proc.image.restoration import (
DenoiseBilateralParam,
DenoiseTVParam,
DenoiseWaveletParam,
denoise_bilateral,
denoise_tophat,
denoise_tv,
denoise_wavelet,
erase,
)
from sigima.proc.image.threshold import (
ThresholdParam,
threshold,
threshold_isodata,
threshold_li,
threshold_mean,
threshold_minimum,
threshold_otsu,
threshold_triangle,
threshold_yen,
)
from sigima.proc.image.transformations import transformer
__all__ = [
"AdjustGammaParam",
"AdjustLogParam",
"AdjustSigmoidParam",
"AverageProfileParam",
"BinningParam",
"BlobDOGParam",
"BlobDOHParam",
"BlobLOGParam",
"BlobOpenCVParam",
"ButterworthParam",
"CannyParam",
"ContourShapeParam",
"DataTypeIParam",
"DenoiseBilateralParam",
"DenoiseTVParam",
"DenoiseWaveletParam",
"Direction",
"EqualizeAdaptHistParam",
"EqualizeHistParam",
"FlatFieldParam",
"GaussianFreqFilterParam",
"GridParam",
"HoughCircleParam",
"LineProfileParam",
"Log10ZPlusNParam",
"MorphologyParam",
"NormalizeParam",
"PadLocation2D",
"Peak2DDetectionParam",
"ROIGridParam",
"RadialProfileParam",
"Resampling2DParam",
"RescaleIntensityParam",
"ResizeParam",
"RotateParam",
"SegmentProfileParam",
"ThresholdParam",
"TranslateParam",
"UniformCoordsParam",
"Wrap1to1Func",
"XYZCalibrateParam",
"ZeroPadding2DParam",
"absolute",
"add_gaussian_noise",
"add_poisson_noise",
"add_uniform_noise",
"addition",
"addition_constant",
"adjust_gamma",
"adjust_log",
"adjust_sigmoid",
"apply_detection_rois",
"arithmetic",
"astype",
"average",
"average_profile",
"binning",
"black_tophat",
"blob_dog",
"blob_doh",
"blob_log",
"blob_opencv",
"butterworth",
"calibration",
"canny",
"centroid",
"clip",
"closing",
"complex_from_magnitude_phase",
"complex_from_real_imag",
"compute_geometry_from_obj",
"contour_shape",
"convolution",
"deconvolution",
"denoise_bilateral",
"denoise_tophat",
"denoise_tv",
"denoise_wavelet",
"difference",
"difference_constant",
"dilation",
"division",
"division_constant",
"dst_1_to_1_signal",
"enclosing_circle",
"equalize_adapthist",
"equalize_hist",
"erase",
"erosion",
"exp",
"extract_roi",
"extract_rois",
"farid",
"farid_h",
"farid_v",
"fft",
"flatfield",
"fliph",
"flipv",
"gaussian_filter",
"gaussian_freq_filter",
"generate_image_grid_roi",
"histogram",
"horizontal_projection",
"hough_circle_peaks",
"ifft",
"imag",
"inverse",
"laplace",
"line_profile",
"log10",
"log10_z_plus_n",
"magnitude_spectrum",
"moving_average",
"moving_median",
"normalize",
"offset_correction",
"opening",
"peak_detection",
"phase",
"phase_spectrum",
"prewitt",
"prewitt_h",
"prewitt_v",
"product",
"product_constant",
"psd",
"quadratic_difference",
"radial_profile",
"real",
"resampling",
"rescale_intensity",
"resize",
"restore_data_outside_roi",
"roberts",
"rotate",
"rotate90",
"rotate270",
"scharr",
"scharr_h",
"scharr_v",
"segment_profile",
"set_uniform_coords",
"sobel",
"sobel_h",
"sobel_v",
"standard_deviation",
"stats",
"threshold",
"threshold_isodata",
"threshold_li",
"threshold_mean",
"threshold_minimum",
"threshold_otsu",
"threshold_triangle",
"threshold_yen",
"transformer",
"translate",
"transpose",
"vertical_projection",
"white_tophat",
"wiener",
"zero_padding",
]
[docs]
class GridParam(gds.DataSet):
"""Grid parameters"""
_prop = gds.GetAttrProp("direction")
_directions = (("col", _("columns")), ("row", _("rows")))
direction = gds.ChoiceItem(_("Distribute over"), _directions, radio=True).set_prop(
"display", store=_prop
)
cols = gds.IntItem(_("Columns"), default=1, nonzero=True).set_prop(
"display", active=gds.FuncProp(_prop, lambda x: x == "col")
)
rows = gds.IntItem(_("Rows"), default=1, nonzero=True).set_prop(
"display", active=gds.FuncProp(_prop, lambda x: x == "row")
)
colspac = gds.FloatItem(_("Column spacing"), default=0.0, min=0.0)
rowspac = gds.FloatItem(_("Row spacing"), default=0.0, min=0.0)
