hcp_nparray_2_png.py

#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Tue Aug  6 15:57:55 2019
@author: jeffreydurieux
email: j.durieux@fsw.leidenuniv.nl

Warning! change absolute paths 
need to make a folder with <absolutpath>/pngimages
all subfolders in pngimages are made on the fly

"""


import os
import numpy as np
import imageio

def run_create_png(subjectrange):
    '''
    function for creating png images based on subjectrange (max = 1112)
    '''
    
    for subject in range(2):
        os.chdir('/home/ubuntu/data/hcp_npy_data/')
        datasubject = np.load('hcp_data_{}.npy'.format(subject))
        datasubject = datasubject[0]
        
        os.chdir('/home/ubuntu/data/hcp_pngimages/')
        os.makedirs('subject{}'.format(subject))
        os.chdir('subject{}'.format(subject))
    
    
        idxim = np.shape(datasubject)
    
        os.makedirs('axis0')
        os.makedirs('axis1')
        os.makedirs('axis2')
    
        for ax0 in range(idxim[0]):
            os.chdir('/home/ubuntu/data/hcp_pngimages/subject{}/axis0/'.format(subject))
            imageio.imwrite('{}.png'.format(ax0), datasubject[ax0, :, :])
        for ax1 in range(idxim[1]):
            os.chdir('/home/ubuntu/data/hcp_pngimages/subject{}/axis1/'.format(subject))
            imageio.imwrite('{}.png'.format(ax1), datasubject[:, ax1, :])
        for ax2 in range(idxim[2]):
            os.chdir('/home/ubuntu/data/hcp_pngimages/subject{}/axis2/'.format(subject))
            imageio.imwrite('{}.png'.format(ax2), datasubject[:, :, ax2])