[ITK] [ITK-users] Issue with Seed points in Geodesic Active contour
Dženan Zukić
dzenanz at gmail.com
Tue Feb 16 10:16:22 EST 2016
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>
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 <gunjan_naik at persistent.com>* *|** Cell:
> +91-8087996979 <%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]
> *Sent:* Tuesday, February 09, 2016 8:53 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,
>
>
>
> 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>
> 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 <gunjan_naik at persistent.com>* *|** Cell:
> +91-8087996979 <%2B91-8087996979> **| **Tel: +91-20-670 34878*
>
> *Persistent Systems Ltd. | **Partners in Innovation **| *
> *www.persistent.com* <http://www.persistent.com/>
>
>
>
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