[ITK] [ITK-users] Issue with Seed points in Geodesic Active contour
Gunjan Naik
gunjan_naik at persistent.com
Wed Feb 24 00:34:38 EST 2016
Thanks Dženan.
It worked after I set origin to (0,0).
Regards,
Gunjan Naik
Gunjan G. Naik | Persistent LABS | PhD Student – University of Pune
gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com> | Cell: +91-8087996979 | Tel: +91-20-670 34878
Persistent Systems Ltd. | Partners in Innovation | www.persistent.com<http://www.persistent.com/>
From: Dženan Zukić [mailto:dzenanz at gmail.com]
Sent: Tuesday, February 16, 2016 8:46 PM
To: Gunjan Naik <gunjan_naik at persistent.com>
Cc: insight-users at itk.org
Subject: Re: [ITK-users] Issue with Seed points in Geodesic Active contour
Hi Naik,
with directions being identity matrix and
Size: [240, 240, 155]
Spacing: [1, 1, 1]
Origin: [0, -239, 0]
the physical extent of your image is x: -0.5 to 239.5, y: -239.5 to 0.5 and z: -0.5 to 154.5 (all millimeters). In other words, x and z are positive, while y is negative.
HTH,
Dženan
On Tue, Feb 16, 2016 at 7:40 AM, Gunjan Naik <gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com>> wrote:
Hi Dženan
I am using T1 weighted brain tumor image from BRATS challenge.
The meta information is as follows:
Image (00000000193D62F0)
RTTI typeinfo: class itk::Image<short,3>
Reference Count: 1
Modified Time: 1194
Debug: Off
Object Name:
Observers:
none
Source: (none)
Source output name: (none)
Release Data: Off
Data Released: False
Global Release Data: Off
PipelineMTime: 1034
UpdateMTime: 1193
RealTimeStamp: 0 seconds
LargestPossibleRegion:
Dimension: 3
Index: [0, 0, 0]
Size: [240, 240, 155]
BufferedRegion:
Dimension: 3
Index: [0, 0, 0]
Size: [240, 240, 155]
RequestedRegion:
Dimension: 3
Index: [0, 0, 0]
Size: [240, 240, 155]
Spacing: [1, 1, 1]
Origin: [0, -239, 0]
Direction:
1 0 0
0 1 0
0 0 1
IndexToPointMatrix:
1 0 0
0 1 0
0 0 1
PointToIndexMatrix:
1 0 0
0 1 0
0 0 1
Inverse Direction:
1 0 0
0 1 0
0 0 1
PixelContainer:
ImportImageContainer (000000001917BD50)
RTTI typeinfo: class itk::ImportImageContainer<unsigned __int64,short>
Reference Count: 1
Modified Time: 1190
Debug: Off
Object Name:
Observers:
none
Pointer: 000000001B8E0040
Container manages memory: true
Size: 8928000
Capacity: 8928000
I am passing co-ordinate to tumor region using Opencv.
Thanks and Regards,
Gunjan Naik
Gunjan G. Naik | Persistent LABS | PhD Student – University of Pune
gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com> | Cell: +91-8087996979<tel:%2B91-8087996979> | Tel: +91-20-670 34878
Persistent Systems Ltd. | Partners in Innovation | www.persistent.com<http://www.persistent.com/>
From: Dženan Zukić [mailto:dzenanz at gmail.com<mailto:dzenanz at gmail.com>]
Sent: Tuesday, February 09, 2016 8:53 PM
To: Gunjan Naik <gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com>>
Cc: insight-users at itk.org<mailto:insight-users at itk.org>
Subject: Re: [ITK-users] Issue with Seed points in Geodesic Active contour
Hi Naik,
you should provide your image's meta-information e.g. by:
std::cout<<theImageInQuestion;
as well as coordinates of the point which you try to pass. Then we will be able to tell you what is wrong.
Regards,
Dženan
On Tue, Feb 9, 2016 at 1:12 AM, Gunjan Naik <gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com>> wrote:
Hi All,
I am using geodesic active contour for brain tumor segmentation.
In that, I have to give seed points for creating level set.
I have calculated seed points using opencv, but when I input these points using ‘TransformPhysicalPointToIndex’ it throws error stating that index out of bounds.
It works for only points [(0,0)].
Please provide me directions.
Thanks and Regards,
Gunjan Naik
Gunjan G. Naik | Persistent LABS | PhD Student – University of Pune
gunjan_naik at persistent.com<mailto:gunjan_naik at persistent.com> | Cell: +91-8087996979<tel:%2B91-8087996979> | Tel: +91-20-670 34878
Persistent Systems Ltd. | Partners in Innovation | www.persistent.com<http://www.persistent.com/>
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