mritopng - Convert DICOM Files to PNG

Introduction

A simple python module to make it easy to batch convert a binary DICOM file, which is usually an output from an MRI scan to a PNG image.

The MRI scanning facilities typically hand you a CD containing your MRI scans. This CD will typically not contain any image files in traditional formats that can be opened up by your default image viewing program. The CD contains a list of DICOM files, which can only be viewed by the included viewer, which is mostly only supported on a Windows machine.

This module should help you convert all the DICOM based scans to PNG files. This tool can be used as a command line tools as well as a library in your python code

Quick Start

mritopng will install a command line utility that can be used to convert individual DICOM files:

$ mritopng /DICOM/SCAN1 output.png

The utility can also be used to convert a whole folder recursively by using the -f option:

$ mritopng -f /DICOM /PNG

It's pretty easy to get up and running with mritopng in your own project

import mritopng

# Convert a since file
mritopng.convert_file('/home/user/DICOM/SCAN1', '/home/user/output.png')

# Convert a whole folder recursively
mritopng.convert_folder('/home/user/DICOM/', '/home/user/PNG/')

Installation

To have known to work dependencies use beforehand:

pip install -r requirements.txt

mritopng comes with a setup.py script to use with distutils. After unpacking the distribution, cd into the directory and execute the command:

python setup.py install

This will install two things

• The mritopng module will be installed; import mritopng will allow you to use it
• A command line utility called mritopng which can be used from the console