I am trying to get the DDSM dataset in a readable format.
Does anyone have a working version of DDSM’s heathusf program that works on linux or windows with normalization? I know there is a working version of DDSM's jpeg program for linux at http://www.cs.unibo.it/~roffilli/sw.html I compiled and tested it. I used the MATLAB code as described here to view the images. It displays correctly only for some scanners.
As described in the paper http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.111.3846 when properly compiled, the DDSM software outputs the image data as a stream of raw bytes; one then has to normalise these according to the model of digitiser used to image the original films and then create an image file that is readable by one’s image analysis software environment. Does anyone have a solution for normalizing the image data?
Any help is greatly appreciated. Thank You!
Cheng
Full field digital mammography (FFDM, also known simply as "digital mammography") is a mammography system where the x-ray film used in screen-film mammography is replaced by solid-state detectors, similar to those found in digital cameras, which convert x-rays into electrical signals.
3-D mammography takes multiple images, or X-rays, of breast tissue to recreate a 3-D picture of the breast. It's different from digital mammography in that digital mammography obtains just a single image. Images from both technologies are read on a computer.
There are two kinds of mammograms: digital and conventional. Both use X-ray radiation to produce an image of the breast, but conventional mammograms are read and stored on film, where digital mammograms are read and stored in a computer so the data can be enhanced, magnified, or manipulated for further evaluation.
DDSM images are compressed in .LJPEG format and they need to be decompressed first before processing them.
I've figured out a way to convert DDSM images into raw images, but it is a long way, and I don't have a better way.
Reading DDSM dataset images in steps:
jpeg.exe
and ddsmraw2pnm.exe
].2- Download and install cygwin.
3- Download and setup Matlab pnmreader code.
4- Create a folder and make its contents like the following:
5- the ConvertDDSMImageToRaw
function implementation.
function ConvertDDSMImageToRaw(filename, columns, rows, digitizer)
%// ConvertDDSMImageToRaw Convert an image of ddsm database to raw image.
%// -------------------------------------------------------------------------
%// Input:-
%// o filename : String representing ddsm image file name.
%// o columns : Double representing number of columns in the image.
%// o rows : Double representing number of rows in the image.
%// o digitizer: String representing image normalization function name,
%// which differ from one case to another and have the set of
%// values ['dba', 'howtek-mgh', 'howtek-ismd' and 'lumisys' ]
%// -------------------------------------------------------------------------
%// Prepare and execute command of image decompression
commandDecompression = [which('jpeg.exe') ' -d -s ' filename];
dos(commandDecompression);
%// -------------------------------------------------------------------------
%// Prepare and execute command that convert the decompressed image to pnm format.
rawFileName = [ filename '.1'];
columns = num2str(columns);
rows = num2str(rows);
digitizer = ['"' digitizer '"'];
commandConversion =[ which('pnm.exe') ,' ',rawFileName,' ',columns,' ',rows,' ',digitizer];
dos(commandConversion);
%// -------------------------------------------------------------------------
%// Wrtie the image into raw format
pnmFileName = [rawFileName '-ddsmraw2pnm.pnm'];
image = pnmread(pnmFileName);
imwrite(image,[filename '.raw']);
end
6- get the image information [cols,rows,digitizer]
from the .ics file:
if the digitizer is 'howtek' use it as 'howtek-mgh', that's what I've figured out.
7- convert you image now using the function we've impelemented, like the following:
filename = 'A_1709_1.LEFT_CC.LJPEG';
digitizer = 'howtek-mgh';
imageSize = [ 5341 2806 ];
ConvertDDSMImageToRaw(filename, imageSize(1) , imageSize(2), digitizer);
I found a complete solution that downloads, normalizes (based on the scanner) and converts the DDSM image to PNG format. Dr. Chris Rose wrote that program, and it is available on GitHub at https://github.com/multinormal/ddsm
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