import numpy as np import io import os import time from collections import defaultdict, deque import datetime import torch import torch.distributed as dist import torch.nn.functional as F import torch.nn as nn class DiceBCELoss(nn.Module): def __init__(self, weight=None, size_average=True): super(DiceBCELoss, self).__init__() def forward(self, inputs, targets, smooth=1): # comment out if your model contains a sigmoid or equivalent activation layer inputs = F.sigmoid(inputs) # flatten label and prediction tensors inputs = inputs.view(-1) targets = targets.view(-1) intersection = (inputs * targets).sum() dice_loss = 1 - (2.0 * intersection + smooth) / ( inputs.sum() + targets.sum() + smooth ) BCE = F.binary_cross_entropy(inputs, targets, reduction="mean") Dice_BCE = BCE + dice_loss return Dice_BCE class SmoothedValue(object): """Track a series of values and provide access to smoothed values over a window or the global series average. """ def __init__(self, window_size=20, fmt=None): if fmt is None: fmt = "{median:.4f} ({global_avg:.4f})" self.deque = deque(maxlen=window_size) self.total = 0.0 self.count = 0 self.fmt = fmt def update(self, value, n=1): self.deque.append(value) self.count += n self.total += value * n def synchronize_between_processes(self): """ Warning: does not synchronize the deque! """ if not is_dist_avail_and_initialized(): return t = torch.tensor([self.count, self.total], dtype=torch.float64, device="cuda") dist.barrier() dist.all_reduce(t) t = t.tolist() self.count = int(t[0]) self.total = t[1] @property def median(self): d = torch.tensor(list(self.deque)) return d.median().item() @property def avg(self): d = torch.tensor(list(self.deque), dtype=torch.float32) return d.mean().item() @property def global_avg(self): if self.count == 0: return self.total else: return self.total / self.count @property def max(self): return max(self.deque) @property def value(self): return self.deque[-1] def __str__(self): return self.fmt.format( median=self.median, avg=self.avg, global_avg=self.global_avg, max=self.max, value=self.value, ) class MetricLogger(object): def __init__(self, delimiter="\t"): self.meters = defaultdict(SmoothedValue) self.delimiter = delimiter def update(self, **kwargs): for k, v in kwargs.items(): if isinstance(v, torch.Tensor): v = v.item() assert isinstance(v, (float, int)) self.meters[k].update(v) def __getattr__(self, attr): if attr in self.meters: return self.meters[attr] if attr in self.__dict__: return self.__dict__[attr] raise AttributeError( "'{}' object has no attribute '{}'".format(type(self).__name__, attr) ) def __str__(self): loss_str = [] for name, meter in self.meters.items(): loss_str.append("{}: {}".format(name, str(meter))) return self.delimiter.join(loss_str) def global_avg(self): loss_str = [] for name, meter in self.meters.items(): loss_str.append("{}: {:.4f}".format(name, meter.global_avg)) return self.delimiter.join(loss_str) def synchronize_between_processes(self): for meter in self.meters.values(): meter.synchronize_between_processes() def add_meter(self, name, meter): self.meters[name] = meter def log_every(self, iterable, print_freq, header=None): i = 0 if not header: header = "" start_time = time.time() end = time.time() iter_time = SmoothedValue(fmt="{avg:.4f}") data_time = SmoothedValue(fmt="{avg:.4f}") space_fmt = ":" + str(len(str(len(iterable)))) + "d" log_msg = [ header, "[{0" + space_fmt + "}/{1}]", "eta: {eta}", "{meters}", "time: {time}", "data: {data}", ] if torch.cuda.is_available(): log_msg.append("max mem: {memory:.0f}") log_msg = self.delimiter.join(log_msg) MB = 1024.0 * 1024.0 for obj in iterable: data_time.update(time.time() - end) yield obj iter_time.update(time.time() - end) if i % print_freq == 0 or i == len(iterable) - 1: eta_seconds = iter_time.global_avg * (len(iterable) - i) eta_string = str(datetime.timedelta(seconds=int(eta_seconds))) if torch.cuda.is_available(): print( log_msg.format( i, len(iterable), eta=eta_string, meters=str(self), time=str(iter_time), data=str(data_time), memory=torch.cuda.max_memory_allocated() / MB, ) ) else: print( log_msg.format( i, len(iterable), eta=eta_string, meters=str(self), time=str(iter_time), data=str(data_time), ) ) i += 1 end = time.time() total_time = time.time() - start_time total_time_str = str(datetime.timedelta(seconds=int(total_time))) print( "{} Total time: {} ({:.4f} s / it)".format( header, total_time_str, total_time / len(iterable) ) ) class AttrDict(dict): def __init__(self, *args, **kwargs): super(AttrDict, self).__init__(*args, **kwargs) self.__dict__ = self def compute_acc(logits, label, reduction="mean"): ret = (torch.argmax(logits, dim=1) == label).float() if reduction == "none": return ret.detach() elif reduction == "mean": return ret.mean().item() def compute_n_params(model, return_str=True): tot = 0 for p in model.parameters(): w = 1 for x in p.shape: w *= x tot += w if return_str: if tot >= 1e6: return "{:.1f}M".format(tot / 1e6) else: return "{:.1f}K".format(tot / 1e3) else: return tot def setup_for_distributed(is_master): """ This function disables printing when not in master process """ import builtins as __builtin__ builtin_print = __builtin__.print def print(*args, **kwargs): force = kwargs.pop("force", False) if is_master or force: builtin_print(*args, **kwargs) __builtin__.print = print def is_dist_avail_and_initialized(): if not dist.is_available(): return False if not dist.is_initialized(): return False return True def get_world_size(): if not is_dist_avail_and_initialized(): return 1 return dist.get_world_size() def get_rank(): if not is_dist_avail_and_initialized(): return 0 return dist.get_rank() def is_main_process(): return get_rank() == 0 def save_on_master(*args, **kwargs): if is_main_process(): torch.save(*args, **kwargs) def init_distributed_mode(args): # os.environ['CUDA_VISIBLE_DEVICES'] = '0,1' # args.local_rank = os.environ['LOCAL_RANK'] if "RANK" in os.environ and "WORLD_SIZE" in os.environ: args.rank = int(os.environ["RANK"]) args.world_size = int(os.environ["WORLD_SIZE"]) args.local_rank = int(os.environ["LOCAL_RANK"]) elif "SLURM_PROCID" in os.environ: args.rank = int(os.environ["SLURM_PROCID"]) args.local_rank = args.rank % torch.cuda.device_count() else: print("Not using distributed mode") args.distributed = False return args.distributed = True torch.cuda.set_device(args.local_rank) args.dist_backend = "nccl" print( "| distributed init (rank {}): {}".format(args.rank, args.dist_url), flush=True ) torch.distributed.init_process_group( backend=args.dist_backend, init_method=args.dist_url, world_size=args.world_size, rank=args.rank, ) torch.distributed.barrier() setup_for_distributed(args.rank == 0)