Convert png/JPEG to DICOM format

SELVA_MUTHU_KUMARAN · June 25, 2019, 3:10am

Hello Everyone,

I have a folder of png images. Each image represents skin lesion.

I would like to convert these png images to dicom format.

Can you please let me know if there any converter available to transform this png to dicom image?

Thanks
Selva

Hiroaki_Inomata · June 25, 2019, 3:48am

Hi,

Many DICOM Viewers can convert .png file into DICOM file.

I developed HorliX, my customized version of Horos/OsiriX.

HorliX/Horos/OsiriX maybe can do it using plugin.
See attached files.

Then, you should transferred these dicom files into Orthanc, conquest,
dcm4chee...etc.
Ref: https://www.youtube.com/watch?v=83cSqXo_cLs

Hiroaki Inomata
MD: psychiatry
BSc: physics
PHAZOR, LLC
https://phazor.info

SELVA_MUTHU_KUMARAN · June 25, 2019, 4:09am

Hello Hiroaki Inomata,

Thank you for the help. Can I know whether the below two things is posible?

png to mhd format?
dicom to mhd format?

Is there any converter to do the same? I did search online but found something like SimpleITK which requires us to code

Thanks
Selva

Hiroaki_Inomata · June 25, 2019, 4:24am

Hi,

I am not familiar with mhd format.
Could you present mhd format and associated resources on internet?

Hiroaki Inomata
PHAZOR, LLC
https://phazor.info

Hiroaki_Inomata · June 25, 2019, 5:52am

Hi,

mhd format is ITK-specific one?
Ref: https://itk.org/Wiki/ITK/MetaIO/Documentation

In that page, I fount sample .mhd like:

Hiroaki_Inomata · June 25, 2019, 7:31am

2) dicom to mhd format?

I think that it can do in various ways.
DCMTK, well-known great free software, be able to extract DICOM tag
information from DICOM file.

You can get a number of column pixels, for example, in DICOM image
like the following code:
------------------ C++

SELVA_MUTHU_KUMARAN · June 25, 2019, 7:37am

Hello Hiroaki,

I have attached a skin lesion image which is in png format of 2 dimensions which is 224,224. But then for color, I guess it can be 224,224,3

When I convert this to dicom, it becomes 224,224,1. How can I retain it to be 224,224,3?

img.png - 224,224,3

img_1.dcm - 224,224,1

How can I make img_1.dcm as 224,224,3?

Can you please help?

img_1.dcm (148 KB)

Hiroaki_Inomata · June 25, 2019, 7:53am

I guess that (224, 224, 3) in mhd format is (columns, rows, a number of slices).
3 does not mean photmetricinterpretation(RGB).

jodogne · June 25, 2019, 7:59am

Hello,

You can do this directly using the REST API of Orthanc, with URI “/tools/create-dicom”. Here is a full sample script in bash:

#!/bin/bash

set -ex

IMAGE=cat Lena.png | base64 -w 0

cat < /tmp/request.json
{
“Tags” : {
“PatientID” : “123”,
“PatientName” : “LENA”,
“StudyDescription” : “FROM^PNG”
},
“Content” : “data:image/png;base64,${IMAGE}”
}
EOF

curl -H ‘Expect:’ http://localhost:8042/tools/create-dicom -d @/tmp/request.json

Note that the integration tests of Orthanc contain more samples (notably to create a DICOM instance from a PDF file):
https://bitbucket.org/sjodogne/orthanc-tests/src/default/Tests/Tests.py

HTH,
Sébastien-