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GUI for parameter settting #1

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a328640
GUI update
SpikeRXWong Mar 27, 2025
3684b4d
Merge branch 'main' of https://github.com/Li-Lab-SUSTech/LiteLoc
SpikeRXWong Mar 27, 2025
f9db703
update demo description
SpikeRXWong Mar 28, 2025
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35 changes: 34 additions & 1 deletion .gitignore
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Original file line number Diff line number Diff line change
Expand Up @@ -6,4 +6,37 @@ __pycache__
!datasets/placeholder.txt
/results/*
!results/placeholder.txt
/only_local
/only_local
test.yaml
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_1/Astigmatism_Tetraspeck_beads_2um_50nm_256_1_MMStack_Pos0.ome.tif
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_1/Astigmatism_Tetraspeck_beads_2um_50nm_256_1_MMStack_Pos0_metadata.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_1/comments.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_1/DisplaySettings.json
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_1_MMStack_Pos0.ome_3dcal.fig
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_1_MMStack_Pos0.ome_3dcal.mat
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_2/Astigmatism_Tetraspeck_beads_2um_50nm_256_2_MMStack_Pos0.ome.tif
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_2/Astigmatism_Tetraspeck_beads_2um_50nm_256_2_MMStack_Pos0_metadata.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_2/comments.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_2/DisplaySettings.json
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_3/Astigmatism_Tetraspeck_beads_2um_50nm_256_3_MMStack_Pos0.ome.tif
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_3/Astigmatism_Tetraspeck_beads_2um_50nm_256_3_MMStack_Pos0_metadata.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_3/comments.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_3/DisplaySettings.json
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_4/Astigmatism_Tetraspeck_beads_2um_50nm_256_4_MMStack_Pos0.ome.tif
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_4/Astigmatism_Tetraspeck_beads_2um_50nm_256_4_MMStack_Pos0_metadata.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_4/comments.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_4/DisplaySettings.json
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_5/Astigmatism_Tetraspeck_beads_2um_50nm_256_5_MMStack_Pos0.ome.tif
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_5/Astigmatism_Tetraspeck_beads_2um_50nm_256_5_MMStack_Pos0_metadata.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_5/comments.txt
calibrate_mat/demo-fig3a/Astigmatism_Tetraspeck_beads_2um_50nm_256_5/DisplaySettings.json
calibrate_mat/demo-fig3a/Parameter settings.jpg
calibrate_mat/demo-fig3d/DMO_6um_Crimson_645_beads_defoucs_0_step_100nm_1/comments.txt
calibrate_mat/demo-fig3d/DMO_6um_Crimson_645_beads_defoucs_0_step_100nm_1/DisplaySettings.json
calibrate_mat/demo-fig3d/DMO_6um_Crimson_645_beads_defoucs_0_step_100nm_1/DMO_6um_Crimson_645_beads_defoucs_0_step_100nm_1_MMStack_Pos0.ome.tif
calibrate_mat/demo-fig3d/DMO_6um_Crimson_645_beads_defoucs_0_step_100nm_1/DMO_6um_Crimson_645_beads_defoucs_0_step_100nm_1_MMStack_Pos0_metadata.txt
calibrate_mat/demo-fig3d/DMO_6um_Crimson_645_beads_defoucs_0_step_100nm_1_MMStack_Pos0.ome_3dcal.fig
calibrate_mat/demo-fig3d/DMO_6um_Crimson_645_beads_defoucs_0_step_100nm_1_MMStack_Pos0.ome_3dcal.mat
calibrate_mat/demo-fig3d/Parameter settings.jpg
test2.yaml
Untitled5.ipynb
9 changes: 7 additions & 2 deletions demo/demo-fig3a/liteloc_infer_demo_fig3a.py
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Expand Up @@ -10,11 +10,16 @@
import time
from network import multi_process
from utils.help_utils import load_yaml_infer
import argparse

if __name__ == '__main__':

parser = argparse.ArgumentParser()
parser.add_argument('-p', '--infer_params_path', type=str, default='infer_params_demo_fig3a.yaml')
args = parser.parse_args()

yaml_file = 'infer_params_demo_fig3a.yaml' # remember to change p probability
infer_params = load_yaml_infer(yaml_file)
# yaml_file = 'infer_params_demo_fig3a.yaml' # remember to change p probability
infer_params = load_yaml_infer(args.infer_params_path)

liteloc = torch.load(infer_params.Loc_Model.model_path)

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2 changes: 1 addition & 1 deletion demo/demo-fig3a/liteloc_train_demo_fig3a.py
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Expand Up @@ -12,7 +12,7 @@
setup_seed(15)

parser = argparse.ArgumentParser()
parser.add_argument('--train_params_path', type=str, default='train_params_demo_fig3a.yaml')
parser.add_argument('-p', '--train_params_path', type=str, default='train_params_demo_fig3a.yaml')
args = parser.parse_args()

params = load_yaml_train(args.train_params_path)
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