def __init__(self,
frame,
config,
row=0,
module_name="Segmentation Post Processing",
font=None,
show_all=True):
self.post_frame = tkinter.Frame(frame)
self.post_style = {
"bg": "white",
"padx": 0,
"pady": 0,
"row_weights": [1, 1, 1, 1],
"columns_weights": [1],
"height": 4,
}
self.post_frame["bg"] = self.post_style["bg"]
self.font = font
self.post_frame.grid(column=0,
row=row,
padx=self.post_style["padx"],
pady=self.post_style["pady"],
sticky=stick_all)
[
tkinter.Grid.rowconfigure(self.post_frame, i, weight=w)
for i, w in enumerate(self.post_style["row_weights"])
]
[
tkinter.Grid.columnconfigure(self.post_frame, i, weight=w)
for i, w in enumerate(self.post_style["columns_weights"])
]
super().__init__(self.post_frame, module_name, font=font)
self.module = "cnn_postprocessing"
self.config = config
self.show = tkinter.BooleanVar()
if show_all:
self.show.set(True)
else:
self.show.set(self.config[self.module]["state"])
self.checkbox["variable"] = self.show
self.checkbox["command"] = self.show_options
self.obj_collection = []
self.custom_key = {
"tiff":
MenuEntry(self.post_frame,
text="Convert to tiff: ",
row=1,
column=0,
menu=["True", "False"],
default=self.config[self.module]["tiff"],
font=font),
}
self.show_options()
def __init__(self,
frame,
config,
col=0,
module_name="segmentation",
font=None,
show_all=True):
self.segmentation_frame = tkinter.Frame(frame)
self.segmentation_style = {
"bg": "white",
"padx": 10,
"pady": 10,
"row_weights": [2, 1, 1, 1, 1, 1, 1, 1, 1, 1],
"columns_weights": [1],
"height": 4,
}
self.segmentation_frame["bg"] = self.segmentation_style["bg"]
self.segmentation_frame.grid(column=col,
row=0,
padx=self.segmentation_style["padx"],
pady=self.segmentation_style["pady"],
sticky=stick_new)
[
tkinter.Grid.rowconfigure(self.segmentation_frame, i, weight=w)
for i, w in enumerate(self.segmentation_style["row_weights"])
]
[
tkinter.Grid.columnconfigure(self.segmentation_frame, i, weight=w)
for i, w in enumerate(self.segmentation_style["columns_weights"])
]
super().__init__(self.segmentation_frame, module_name, font)
self.module = "segmentation"
self.config = config
self.show = tkinter.BooleanVar()
if show_all:
self.show.set(True)
else:
self.show.set(self.config[self.module]["state"])
self.checkbox["variable"] = self.show
self.checkbox["command"] = self.show_options
self.obj_collection = []
self.custom_key = {
"name":
MenuEntry(self.segmentation_frame,
text="Algorithm: ",
row=1,
column=0,
menu={"MultiCut", "GASP", "MutexWS", "DtWatershed"},
is_segmentation=True,
default=config[self.module]["name"],
font=font),
"save_directory":
SimpleEntry(self.segmentation_frame,
text="Save Directory: ",
row=2,
column=0,
_type=str,
_font=font),
"beta":
SliderEntry(self.segmentation_frame,
text="Under-/Over-segmentation factor: ",
row=3,
column=0,
is_not_in_dtws=True,
_type=float,
_font=font),
"ws_2D":
MenuEntry(self.segmentation_frame,
text="Run Watershed in 2D: ",
row=4,
column=0,
menu={"True", "False"},
default=config[self.module]["ws_2D"],
font=font),
"ws_threshold":
SliderEntry(self.segmentation_frame,
text="CNN Predictions Threshold: ",
row=5,
column=0,
_type=float,
_font=font),
"ws_sigma":
SliderEntry(self.segmentation_frame,
text="Watershed Seeds Sigma: ",
row=6,
column=0,
data_range=(0, 5, 0.2),
_type=float,
_font=font),
"ws_w_sigma":
SliderEntry(self.segmentation_frame,
text="Watershed Boundary Sigma: ",
row=7,
column=0,
data_range=(0, 5, 0.2),
_type=float,
_font=font),
"ws_minsize":
SimpleEntry(self.segmentation_frame,
text="Superpixels Minimum Size (voxels): ",
row=8,
column=0,
_type=int,
_font=font),
"post_minsize":
SimpleEntry(self.segmentation_frame,
text="Cell Minimum Size (voxels): ",
row=9,
column=0,
_type=int,
_font=font),
}
self.show_options()
def __init__(self,
frame,
config,
col=0,
module_name="preprocessing",
font=None,
show_all=True):
self.prediction_frame = tkinter.Frame(frame)
self.prediction_style = {
"bg": "white",
"padx": 10,
"pady": 10,
"row_weights": [2, 1, 1, 1, 1],
"columns_weights": [1],
"height": 4,
}
self.prediction_frame["bg"] = self.prediction_style["bg"]
self.prediction_frame.grid(column=col,
row=0,
padx=self.prediction_style["padx"],
pady=self.prediction_style["pady"],
sticky=stick_new)
[
tkinter.Grid.rowconfigure(self.prediction_frame, i, weight=w)
for i, w in enumerate(self.prediction_style["row_weights"])
]
[
tkinter.Grid.columnconfigure(self.prediction_frame, i, weight=w)
for i, w in enumerate(self.prediction_style["columns_weights"])
]
super().__init__(self.prediction_frame, module_name, font=font)
self.module = "cnn_prediction"
self.config = config
self.show = tkinter.BooleanVar()
if show_all:
self.show.set(True)
else:
self.show.set(self.config[self.module]["state"])
self.checkbox["variable"] = self.show
self.checkbox["command"] = self.show_options
self.obj_collection = []
self.custom_key = {
"model_name":
MenuEntry(self.prediction_frame,
text="Model Name: ",
row=1,
column=0,
menu=list_models(),
default=config[self.module]["model_name"],
is_model=True,
font=font),
"patch":
ListEntry(self.prediction_frame,
text="Patch Size: ",
row=2,
column=0,
type=int,
font=font),
"stride":
MenuEntry(self.prediction_frame,
text="Stride: ",
row=3,
column=0,
menu=[STRIDE_ACCURATE, STRIDE_BALANCED, STRIDE_DRAFT],
default=config[self.module]["stride"],
font=font),
"device":
MenuEntry(self.prediction_frame,
text="Device Type: ",
row=4,
column=0,
menu=["cuda", "cpu"],
default=config[self.module]["device"],
font=font),
}
self.show_options()
def __init__(self,
frame,
config,
col=0,
module_name="preprocessing",
font=None,
show_all=True):
self.preprocessing_frame = tkinter.Frame(frame)
self.preprocessing_style = {
"bg": "white",
"padx": 10,
"pady": 10,
"row_weights": [2, 1, 1, 1, 1],
"columns_weights": [1],
"height": 4,
}
self.preprocessing_frame["bg"] = self.preprocessing_style["bg"]
self.preprocessing_frame.grid(column=col,
row=0,
padx=self.preprocessing_style["padx"],
pady=self.preprocessing_style["pady"],
sticky=stick_new)
[
tkinter.Grid.rowconfigure(self.preprocessing_frame, i, weight=w)
for i, w in enumerate(self.preprocessing_style["row_weights"])
]
[
tkinter.Grid.columnconfigure(self.preprocessing_frame, i, weight=w)
for i, w in enumerate(self.preprocessing_style["columns_weights"])
]
super().__init__(self.preprocessing_frame, module_name, font=font)
self.module = "preprocessing"
self.config = config
self.show = tkinter.BooleanVar()
if show_all:
self.show.set(True)
else:
self.show.set(self.config[self.module]["state"])
self.checkbox["variable"] = self.show
self.checkbox["command"] = self.show_options
self.obj_collection = []
self.custom_key = {
"save_directory":
SimpleEntry(self.preprocessing_frame,
text="Save Directory: ",
row=1,
column=0,
_type=str,
_font=font),
"factor":
RescaleEntry(self.preprocessing_frame,
text="Rescaling (z,x,y):",
row=2,
column=0,
font=font),
"order":
MenuEntry(self.preprocessing_frame,
text="Interpolation: ",
row=3,
column=0,
menu=[0, 1, 2],
default=2,
font=font),
"filter":
FilterEntry(self.preprocessing_frame,
text="Filter (Optional): ",
row=4,
column=0,
font=font),
}
self.show_options()
