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Commit 2d711661 authored by fresleven's avatar fresleven
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Starting on stopping overlap and non-beetles

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%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
import glob import glob
from PIL import Image from PIL import Image
import pillow_heif import pillow_heif
import pandas as pd import pandas as pd
import numpy as np import numpy as np
from torchvision.utils import save_image from torchvision.utils import save_image
import torchvision.transforms.functional as fn import torchvision.transforms.functional as fn
import torchvision.transforms as transforms
import matplotlib.pyplot as plt
``` ```
%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
# TODO: overlap? # generates new dataset by pasting beetles and non-beetles in the same picture.
#returns array of new images and coordinates
#TODO: make sure that the beetles and non-beetles don't overlap with each other
def generate_data(bg: list[Image], beetle_set: list[Image], num_beetles_arr: list[int]): def generate_data(bg: list[Image], beetle_set: list[Image], num_beetles_arr: list[int]):
set_size = len(beetle_set) set_size = len(beetle_set)
set_bg_size = len(bg) set_bg_size = len(bg)
sim_arr, coords_arr = [],[] sim_arr, coords_arr = [],[]
for num_beetles in num_beetles_arr: for num_beetles in num_beetles_arr:
bg_id = np.random.randint(0, set_bg_size) bg_id = np.random.randint(0, set_bg_size)
bg_temp = bg[bg_id].copy() bg_temp = bg[bg_id].copy()
width, height = bg_temp.size width, height = bg_temp.size
beetle_coords = [] beetle_coords = []
for _ in range(num_beetles): for _ in range(num_beetles):
# get random beetle image # get random beetle image
beetle_id = np.random.randint(0, set_size) beetle_id = np.random.randint(0, set_size)
beetle_img = beetle_set[beetle_id] beetle_img = beetle_set[beetle_id]
beetle_width, beetle_height = beetle_img.size beetle_width, beetle_height = beetle_img.size
# get random x,y coords to paste beetle # get random x,y coords to paste beetle
x = randint(0, width - beetle_width) x = np.random.randint(0, width - beetle_width)
y = randint(0, height - beetle_height) y = np.random.randint(0, height - beetle_height)
# get random beetle rotation # get random beetle rotation
angle = randint(0, 359) angle = np.random.randint(0, 360)
beetle_img = beetle_img.rotate(angle, resample=Image.BICUBIC) beetle_img = beetle_img.rotate(angle, resample=Image.BICUBIC)
bg_temp.paste(beetle_img, box=(x,y), mask=beetle_img) bg_temp.paste(beetle_img, box=(x,y), mask=beetle_img)
#centers x and y for YOLOv5 PyTorch label
x += beetle_width/2
y += beetle_height/2
beetle_coords.append((beetle_id, x, y, beetle_width, beetle_height, angle)) beetle_coords.append((beetle_id, x, y, beetle_width, beetle_height, angle))
sim_arr.append(bg_temp) sim_arr.append(bg_temp)
coords_arr.append(beetle_coords) coords_arr.append(beetle_coords)
return sim_arr, coords_arr return sim_arr, coords_arr
``` ```
%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
#???
def find_coeffs(source_coords, target_coords): def find_coeffs(source_coords, target_coords):
matrix = [] matrix = []
for s, t in zip(source_coords, target_coords): for s, t in zip(source_coords, target_coords):
matrix.append([t[0], t[1], 1, 0, 0, 0, -s[0]*t[0], -s[0]*t[1]]) matrix.append([t[0], t[1], 1, 0, 0, 0, -s[0]*t[0], -s[0]*t[1]])
matrix.append([0, 0, 0, t[0], t[1], 1, -s[1]*t[0], -s[1]*t[1]]) matrix.append([0, 0, 0, t[0], t[1], 1, -s[1]*t[0], -s[1]*t[1]])
A = np.matrix(matrix, dtype=float) A = np.matrix(matrix, dtype=float)
B = np.array(source_coords).reshape(8) B = np.array(source_coords).reshape(8)
res = np.dot(np.linalg.inv(A.T * A) * A.T, B) res = np.dot(np.linalg.inv(A.T * A) * A.T, B)
return np.array(res).reshape(8) return np.array(res).reshape(8)
``` ```
%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
bg = Image.open("bg.png") bg = Image.open("imgs/bg.png")
beetles = [] beetles = []
for file in glob.glob(r"/raid/projects/akhot2/group-01-phys371-sp2023/crop/beetles/*"): for file in glob.glob(r"/raid/projects/akhot2/group-01-phys371-sp2023/crop/beetles/*"):
b0 = Image.open(file) b0 = Image.open(file)
beetles.append(b0); beetles.append(b0);
# map corners of trap to corners of image # map corners of trap to corners of image
coeffs = find_coeffs([(128,6), (1904,62), (2113,3137), (3,3228)], coeffs = find_coeffs([(128,6), (1904,62), (2113,3137), (3,3228)],
[(0,0), (bg.size[0], 0), (bg.size[0], bg.size[1]), (0, bg.size[1])]) [(0,0), (bg.size[0], 0), (bg.size[0], bg.size[1]), (0, bg.size[1])])
bg_flat = bg.transform(bg.size, Image.PERSPECTIVE, coeffs, Image.BICUBIC) bg_flat = bg.transform(bg.size, Image.PERSPECTIVE, coeffs, Image.BICUBIC)
``` ```
%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
beetle_counts = np.random.randint(0, 6, size=1) beetle_counts = np.random.randint(0, 6, size=1250)
sim_img_arr, coords_arr = generate_data([bg_flat], beetles, beetle_counts) sim_img_arr, coords_arr = generate_data([bg_flat], beetles, beetle_counts)
``` ```
%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
#exports images and coordinates in YOLOv5 PyTorch format
def export(img_arr, coords_arr): def export(img_arr, coords_arr):
transform = transforms.Compose([transforms.ToTensor()])
s = "" s = ""
image_set = "train" image_set = "train"
change = len(img_arr)*0.8 change = len(img_arr)*0.8
for i in range(len(img_arr)): for i in range(len(img_arr)):
s = "" s = ""
img = img_arr[i]
for coord in coords_arr[i]: for coord in coords_arr[i]:
c, x, y, w, h, a = coord c, x, y, w, h, a = coord
img = img_arr[i]
s += f"{0} {x/img.size[0]} {y/img.size[1]} {w/img.size[0]} {h/img.size[1]}\n" s += f"{0} {x/img.size[0]} {y/img.size[1]} {w/img.size[0]} {h/img.size[1]}\n"
print(i)
if i > change: if i > change:
image_set = "test" image_set = "test"
with open("data/" +image_set+ f"/labels/sim{i}.txt", "w") as f: with open("data/" +image_set+ f"/labels/sim{i}.txt", "w") as f:
f.write(s) f.write(s)
save_image(img, "data/" +image_set+ f"/images/sim{i}.png") img.save("data/" +image_set+ f"/images/sim{i}.png")
``` ```
%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
export(sim_img_arr, coords_arr) export(sim_img_arr, coords_arr)
``` ```
%% Output %% Output
--------------------------------------------------------------------------- 0
TypeError Traceback (most recent call last) 1
Input In [51], in <cell line: 1>() 2
----> 1 export(sim_img_arr, coords_arr) 3
Input In [50], in export(img_arr, coords_arr) 4
13 with open("data/" +image_set+ f"/labels/sim{i}.txt", "w") as f: 5
14 f.write(s) 6
---> 15 save_image(img, "data/" +image_set+ f"/images/sim{i}.png") 7
File /raid/projects/akhot2/conda/envs/akhot2/lib/python3.9/site-packages/torch/autograd/grad_mode.py:27, in _DecoratorContextManager.__call__.<locals>.decorate_context(*args, **kwargs) 8
24 @functools.wraps(func) 9
25 def decorate_context(*args, **kwargs): 10
26 with self.clone(): 11
---> 27 return func(*args, **kwargs) 12
File /raid/projects/akhot2/conda/envs/akhot2/lib/python3.9/site-packages/torchvision/utils.py:152, in save_image(tensor, fp, format, **kwargs) 13
150 if not torch.jit.is_scripting() and not torch.jit.is_tracing(): 14
151 _log_api_usage_once(save_image) 15
--> 152 grid = make_grid(tensor, **kwargs) 16
153 # Add 0.5 after unnormalizing to [0, 255] to round to nearest integer 17
154 ndarr = grid.mul(255).add_(0.5).clamp_(0, 255).permute(1, 2, 0).to("cpu", torch.uint8).numpy() 18
File /raid/projects/akhot2/conda/envs/akhot2/lib/python3.9/site-packages/torch/autograd/grad_mode.py:27, in _DecoratorContextManager.__call__.<locals>.decorate_context(*args, **kwargs) 19
24 @functools.wraps(func) 20
25 def decorate_context(*args, **kwargs): 21
26 with self.clone(): 22
---> 27 return func(*args, **kwargs) 23
File /raid/projects/akhot2/conda/envs/akhot2/lib/python3.9/site-packages/torchvision/utils.py:60, in make_grid(tensor, nrow, padding, normalize, value_range, scale_each, pad_value, **kwargs) 24
58 _log_api_usage_once(make_grid) 25
59 if not (torch.is_tensor(tensor) or (isinstance(tensor, list) and all(torch.is_tensor(t) for t in tensor))): 26
---> 60 raise TypeError(f"tensor or list of tensors expected, got {type(tensor)}") 27
62 if "range" in kwargs.keys(): 28
63 warnings.warn( 29
64 "The parameter 'range' is deprecated since 0.12 and will be removed in 0.14. " 30
65 "Please use 'value_range' instead." 31
66 ) 32
TypeError: tensor or list of tensors expected, got <class 'PIL.Image.Image'> 33
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%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
format format
0 x y width height (each value normalized to size of image) 0 x y width height (each value normalized to size of image)
``` ```
%% Cell type:code id: tags: %% Cell type:code id: tags:
``` python ``` python
len(beetle_counts) from torchvision.utils import draw_bounding_boxes
import torch
import torchvision
transform = transforms.Compose([transforms.ToTensor()])
for i in range(len(sim_img_arr)):
print(sim_img_arr[i].mode)
tensor = transform(sim_img_arr[i].convert("RGB")).type(torch.uint8)
coords_list = np.zeros((len(coords_arr[i]), 4))
j=0
for k in coords_arr[i]:
c, x, y, w, h, a = k
coords_list[j, 0] = x
coords_list[j, 1] = y
coords_list[j, 2] = int(x+w)
coords_list[j, 3] = int(y+h)
j+=1
print(coords_list.shape)
draw_bounding_boxes(tensor, torch.Tensor(coords_list))
plt.imshow(tensor.permute(1,2,0)[:,:,0:3])
plt.show()
break
``` ```
%% Output %% Output
100 RGBA
(2, 4)
%% Cell type:code id: tags:
``` python
```
%% Cell type:markdown id: tags:
First:
- created 1000 images on a clean background variable 1 to 5 of the same beetle, model detected well on test set of 100 images (val/exp or exp2 or exp3) (proof of concept)
- created 1000 images on a clean background variable 0 to 5 beetles of 6 different types of beetles, performing
TODO:
- created 1000 images on a clean background variable 0 to 5 beetles of 6 different images and 0 to 5 non-beetles of _ different images, performing
- created 1000 images on a clean background variable 0 to 10 beetles of 15 different images and 0 to 10 non-beetles of _ different images
- created 1000 images on a clean background variable 0 to 10 beetles of 15 different images and 0 to 10 non-beetles of _ different images on a dirty background
- perform auto cropping on arduino and include
......
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