#!/usr/bin/env python3
# -*- coding: utf-8 -*-
__author__ = "Christian Heider Nielsen"
__doc__ = r"""
Created on 22/03/2020
"""
import copy
from collections import namedtuple
from enum import Enum
from pathlib import Path
from typing import Any, List, Mapping, Sequence, Tuple, Union
import torch
import torch.utils.data
import torchvision
from numpy.core.multiarray import ndarray
from pycocotools import mask
from pycocotools.coco import COCO
from pycocotools.mask import decode, frPyObjects
from torch.utils.data import Dataset
from torchvision.transforms import Compose
__all__ = [
"FilterAndRemapCocoCategories",
"convert_coco_poly_to_mask",
"ConvertCocoPolysToMask",
"_coco_remove_images_without_annotations",
"convert_to_coco_api",
"get_coco_api_from_dataset",
"CocoDetection",
"get_coco_ins",
"get_coco_kp",
"CocoMask",
"CocoPolyAnnotation",
"CocoModeEnum",
]
from draugr.numpy_utilities import SplitEnum
from draugr.torch_utilities import NamedTensorTuple
[docs]class CocoModeEnum(Enum):
instances = "instances"
person_keypoints = "person_keypoints"
CocoPolyAnnotation = namedtuple(
"CocoPolyAno",
(
"image_id",
"bbox",
"category_id",
"area",
"iscrowd",
"id",
"segmentation",
"keypoints",
"num_keypoints",
),
)
CocoMask = namedtuple(
"CocoMask", ("boxes", "labels", "masks", "image_id", "area", "iscrowd", "keypoints")
)
[docs]class FilterAndRemapCocoCategories(object):
"""description"""
[docs] def __init__(self, categories: List[str], remap: bool = True):
self._categories = categories
self._remap = remap
def __call__(self, image, target: Mapping[str, Any]) -> Tuple:
anno = target["annotations"]
anno = [obj for obj in anno if obj["category_id"] in self._categories]
if not self._remap:
target["annotations"] = anno
return image, target
anno = copy.deepcopy(anno)
for obj in anno:
obj["category_id"] = self._categories.index(obj["category_id"])
target["annotations"] = anno
return image, target
[docs]def convert_coco_poly_to_mask(
segmentations: Sequence, height: int, width: int
) -> NamedTensorTuple:
"""
:param segmentations:
:type segmentations:
:param height:
:type height:
:param width:
:type width:
:return:
:rtype:"""
masks = []
for polygons in segmentations:
rles = frPyObjects(polygons, height, width)
mask = decode(rles)
if len(mask.shape) < 3:
mask = mask[..., None]
mask = torch.as_tensor(mask, dtype=torch.uint8)
mask = mask.any(dim=2)
masks.append(mask)
if masks:
masks = torch.stack(masks, dim=0)
else:
masks = torch.zeros((0, height, width), dtype=torch.uint8)
return NamedTensorTuple(masks=masks)
[docs]class ConvertCocoPolysToMask(object):
def __call__(self, image: ndarray, target: Mapping[str, Any]) -> Tuple:
w, h = image.size
image_id = torch.tensor([target["image_id"]])
anno = [obj for obj in target["annotations"] if obj.iscrowd == 0]
boxes = [obj.BoundingBox for obj in anno]
# guard against no boxes via resizing
boxes = torch.as_tensor(boxes, dtype=torch.float32).reshape(-1, 4)
boxes[:, 2:] += boxes[:, :2]
boxes[:, 0::2].clamp_(min=0, max=w)
boxes[:, 1::2].clamp_(min=0, max=h)
classes = torch.tensor([obj.category_id for obj in anno], dtype=torch.int64)
masks = convert_coco_poly_to_mask([obj.segmentation for obj in anno], h, w)
keypoints = None
if anno and anno[0].Keypoints is not None:
keypoints = [obj.Keypoints for obj in anno]
keypoints = torch.as_tensor(keypoints, dtype=torch.float32)
num_keypoints = keypoints.shape[0]
if num_keypoints:
keypoints = keypoints.view(num_keypoints, -1, 3)
keep = (boxes[:, 3] > boxes[:, 1]) & (boxes[:, 2] > boxes[:, 0])
target = CocoMask(
boxes=boxes[keep],
labels=classes[keep],
masks=masks[keep],
image_id=image_id,
area=torch.tensor([obj.area for obj in anno]),
iscrowd=torch.tensor([obj.iscrowd for obj in anno]),
keypoints=None,
)
if keypoints is not None:
target.keypoints = keypoints[keep]
return image, target
def _coco_remove_images_without_annotations(
dataset: Dataset,
category_list: Sequence[CocoPolyAnnotation] = None,
min_keypoints_per_image: int = 10,
) -> Dataset:
def _has_only_empty_bbox(anno: List[CocoPolyAnnotation]) -> bool:
return all(any(o <= 1 for o in obj.bbox[2:]) for obj in anno)
def _count_visible_keypoints(anno: List[CocoPolyAnnotation]) -> int:
return sum(sum(1 for v in ann.keypoints[2::3] if v > 0) for ann in anno)
def _has_valid_annotation(anno: List[CocoPolyAnnotation]) -> bool:
# if it's empty, there is no annotation
if len(anno) == 0:
return False
# if all boxes have close to zero area, there is no annotation
if _has_only_empty_bbox(anno):
return False
# keypoints task have a slight different critera for considering
# if an annotation is valid
if anno[0].keypoints is None:
return True
# for keypoint detection tasks, only consider valid images those
# containing at least min_keypoints_per_image
if _count_visible_keypoints(anno) >= min_keypoints_per_image:
return True
return False
assert isinstance(dataset, torchvision.datasets.CocoDetection)
ids = []
for ds_idx, img_id in enumerate(dataset.ids):
ann_ids = dataset.coco.getAnnIds(imgIds=img_id, iscrowd=None)
anno = dataset.coco.loadAnns(ann_ids)
if category_list:
anno = [obj for obj in anno if obj.category_id in category_list]
if _has_valid_annotation(anno):
ids.append(ds_idx)
dataset = torch.utils.data.Subset(dataset, ids)
return dataset
[docs]def convert_to_coco_api(ds):
"""
:param ds:
:type ds:
:return:
:rtype:"""
coco_ds = COCO()
ann_id = 0
dataset = {"images": [], "categories": [], "annotations": []}
categories = set()
for img_idx in range(len(ds)):
# find better way to get target
# targets = ds.get_annotations(img_idx)
img, targets = ds[img_idx]
image_id = targets["image_id"].item()
dataset["images"].append(
{"id": image_id, "height": img.shape[-2], "width": img.shape[-1]}
)
bboxes = targets["boxes"]
bboxes[:, 2:] -= bboxes[:, :2]
bboxes = bboxes.tolist()
labels = targets["labels"].tolist()
areas = targets["area"].tolist()
iscrowd = targets["iscrowd"].tolist()
if "masks" in targets:
masks = targets["masks"]
# make masks Fortran contiguous for coco_mask
masks = masks.permute(0, 2, 1).contiguous().permute(0, 2, 1)
if "keypoints" in targets:
keypoints = targets["keypoints"]
keypoints = keypoints.reshape(keypoints.shape[0], -1).tolist()
num_objs = len(bboxes)
for i in range(num_objs):
ann = CocoPolyAnnotation(
image_id=image_id,
bbox=bboxes[i],
category_id=labels[i],
area=areas[i],
iscrowd=iscrowd[i],
id=ann_id,
segmentation=None,
keypoints=None,
num_keypoints=None,
)
categories.add(labels[i])
if "masks" in targets:
ann.segmentation = mask.encode(masks[i].numpy())
if "keypoints" in targets:
ann.keypoints = keypoints[i]
ann.num_keypoints = sum(k != 0 for k in keypoints[i][2::3])
dataset["annotations"].append(ann)
ann_id += 1
dataset["categories"] = [{"id": i} for i in sorted(categories)]
coco_ds.dataset = dataset
coco_ds.createIndex()
return coco_ds
[docs]def get_coco_api_from_dataset(
dataset: Union[torch.utils.data.Subset, torchvision.datasets.CocoDetection]
) -> COCO:
"""
:param dataset:
:type dataset:
:return:
:rtype:"""
for i in range(10):
if isinstance(dataset, torchvision.datasets.CocoDetection):
break
if isinstance(dataset, torch.utils.data.Subset):
dataset = dataset.dataset
if isinstance(dataset, torchvision.datasets.CocoDetection):
return dataset.coco
return convert_to_coco_api(dataset)
[docs]class CocoDetection(torchvision.datasets.CocoDetection):
"""description"""
[docs] def __init__(self, img_folder, ann_file, transforms):
super(CocoDetection, self).__init__(img_folder, ann_file)
self._transforms = transforms
def __getitem__(self, idx):
img, target = super().__getitem__(idx)
image_id = self.ids[idx]
target = NamedTensorTuple(image_id=image_id, annotations=target)
if self._transforms is not None:
img, target = self._transforms(img, target)
return img, target
[docs]def get_coco_ins(
root_path: Path,
image_set: SplitEnum,
transforms,
mode: CocoModeEnum = CocoModeEnum.instances,
):
"""
:param root_path:
:type root_path:
:param image_set:
:type image_set:
:param transforms:
:type transforms:
:param mode:
:type mode:
:return:
:rtype:"""
assert image_set in SplitEnum
assert image_set != SplitEnum.testing
annotations_path = Path("annotations")
PATHS = {
SplitEnum.training: (
"train2017",
annotations_path / f"{mode}_{'train'}2017.json",
),
SplitEnum.validation: (
"val2017",
annotations_path / f"{mode}_{'val'}2017.json",
),
}
t = [ConvertCocoPolysToMask()]
if transforms is not None:
t.append(transforms)
transforms = Compose(t)
img_folder, ann_file = PATHS[image_set]
dataset = CocoDetection(
root_path / img_folder, root_path / ann_file, transforms=transforms
)
if image_set == SplitEnum.training:
dataset = _coco_remove_images_without_annotations(dataset)
# dataset = torch.utils.data.Subset(dataset, [i for i in range(500)])
return dataset
[docs]def get_coco_kp(root, image_set, transforms):
"""
:param root:
:type root:
:param image_set:
:type image_set:
:param transforms:
:type transforms:
:return:
:rtype:"""
return get_coco_ins(root, image_set, transforms, mode=CocoModeEnum.person_keypoints)
