Heavy Memory consumption in training

1

Hi,
I train a model about medical image processing。
Since the data is so big that data can not load to memory once. I divide the data to thousands of csv files, each csv file consist of one sample.
Here is the implement of my dataset:

import torch
import numpy as np
import torch.utils.data as data
import pandas

class Mydataset(data.Dataset):
def init(self, csvlist):
self.csvlist = csvlist

def __len__(self):
    return len(self.csvlist)

def __getitem__(self,idx):
    
    csvfile = self.csvlist[idx]
    inputs = np.loadtxt(open(csvfile,'rb'),delimiter=",",skiprows=0) 

    inputs = torch.Tensor(inputs)
    input1 = inputs[:35937].view(1,33,33,33)
    input2 = inputs[35937:-1].view(1,33,33,33)
    label = torch.zeros(1)
    label[0] = inputs[-1]
    
    return input1, input2, label

While in third epoch, the error occurs,

1
11420×433 6.88 KB

The model runs on Desktop with Intel i7-6700K CPU , GTX 1080Ti Graphic card and 16GB memory. Does anybody have an idea? Thanks for any help.