<div dir="ltr"><div class="gmail_default" style="font-family:verdana,sans-serif;font-size:small">Hi Naik,</div><div class="gmail_default" style="font-family:verdana,sans-serif;font-size:small"><br></div><div class="gmail_default" style="font-family:verdana,sans-serif;font-size:small">with directions being identity matrix and </div><div class="gmail_default" style="font-family:verdana,sans-serif;font-size:small"><div class="gmail_default"><br></div><div class="gmail_default">Size: [240, 240, 155]</div><div class="gmail_default">Spacing: [1, 1, 1]</div><div class="gmail_default">Origin: [0, -239, 0]</div><div class="gmail_default"><br></div><div class="gmail_default">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.<br></div><div class="gmail_default"><br></div><div class="gmail_default">HTH,</div><div class="gmail_default">Dženan</div></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Tue, Feb 16, 2016 at 7:40 AM, Gunjan Naik <span dir="ltr"><<a href="mailto:gunjan_naik@persistent.com" target="_blank">gunjan_naik@persistent.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div lang="EN-US" link="blue" vlink="purple">
<div>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">Hi Dženan<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">I am using T1 weighted brain tumor image from BRATS challenge.<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">The meta information is as follows:<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">Image (00000000193D62F0)<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> RTTI typeinfo: class itk::Image<short,3><u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Reference Count: 1<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Modified Time: 1194<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Debug: Off<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Object Name:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Observers:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> none<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Source: (none)<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Source output name: (none)<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Release Data: Off<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Data Released: False<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Global Release Data: Off<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> PipelineMTime: 1034<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> UpdateMTime: 1193<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> RealTimeStamp: 0 seconds
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> LargestPossibleRegion:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Dimension: 3<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Index: [0, 0, 0]<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Size: [240, 240, 155]<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> BufferedRegion:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Dimension: 3<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Index: [0, 0, 0]<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Size: [240, 240, 155]<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> RequestedRegion:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Dimension: 3<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Index: [0, 0, 0]<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Size: [240, 240, 155]<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Spacing: [1, 1, 1]<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Origin: [0, -239, 0]<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Direction:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">1 0 0<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">0 1 0<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">0 0 1<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> IndexToPointMatrix:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">1 0 0<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">0 1 0<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">0 0 1<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> PointToIndexMatrix:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">1 0 0<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">0 1 0<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">0 0 1<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Inverse Direction:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">1 0 0<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">0 1 0<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">0 0 1<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> PixelContainer:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> ImportImageContainer (000000001917BD50)<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> RTTI typeinfo: class itk::ImportImageContainer<unsigned __int64,short><u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Reference Count: 1<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Modified Time: 1190<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Debug: Off<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Object Name:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Observers:
<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> none<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Pointer: 000000001B8E0040<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Container manages memory: true<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Size: 8928000<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Capacity: 8928000<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">I am passing co-ordinate to tumor region using Opencv.<u></u><u></u></span></p><span class="">
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">Thanks and Regards,<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d">Gunjan Naik<u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
<p class="MsoNormal"><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:#1f497d">Gunjan G. Naik
</span></b><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:black">|</span></b><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Persistent LABS | PhD Student – University of Pune<u></u><u></u></span></b></p>
<p class="MsoNormal"><b><u><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><a href="mailto:gunjan_naik@persistent.com" target="_blank">gunjan_naik@persistent.com</a></span></u></b><span style="font-family:"Calibri",sans-serif;color:black">
</span><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:black">|</span></b><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:#1f497d"> Cell: <a href="tel:%2B91-8087996979" value="+918087996979" target="_blank">+91-8087996979</a>
</span></b><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:black">|
</span></b><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:#1f497d">Tel: +91-20-670 34878<u><u></u><u></u></u></span></b></p>
<p class="MsoNormal"><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:black">Persistent Systems Ltd. |
</span></b><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:#e36c0a">Partners in Innovation
</span></b><b><span style="font-size:9.0pt;font-family:"Calibri",sans-serif;color:black">| </span></b><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><a href="http://www.persistent.com/" target="_blank"><b><span style="font-size:9.0pt;color:#1f497d">www.persistent.com</span></b></a><u></u><u></u></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1f497d"><u></u> <u></u></span></p>
</span><p class="MsoNormal"><b><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">From:</span></b><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> Dženan Zukić [mailto:<a href="mailto:dzenanz@gmail.com" target="_blank">dzenanz@gmail.com</a>]
<br>
<b>Sent:</b> Tuesday, February 09, 2016 8:53 PM<br>
<b>To:</b> Gunjan Naik <<a href="mailto:gunjan_naik@persistent.com" target="_blank">gunjan_naik@persistent.com</a>><br>
<b>Cc:</b> <a href="mailto:insight-users@itk.org" target="_blank">insight-users@itk.org</a><br>
<b>Subject:</b> Re: [ITK-users] Issue with Seed points in Geodesic Active contour<u></u><u></u></span></p><div><div class="h5">
<p class="MsoNormal"><u></u> <u></u></p>
<div>
<div>
<p class="MsoNormal"><span style="font-family:"Verdana",sans-serif">Hi Naik,<u></u><u></u></span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-family:"Verdana",sans-serif"><u></u> <u></u></span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-family:"Verdana",sans-serif">you should provide your image's meta-information e.g. by:<u></u><u></u></span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-family:"Verdana",sans-serif">std::cout<<theImageInQuestion;<u></u><u></u></span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-family:"Verdana",sans-serif">as well as coordinates of the point which you try to pass. Then we will be able to tell you what is wrong.<u></u><u></u></span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-family:"Verdana",sans-serif"><u></u> <u></u></span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-family:"Verdana",sans-serif">Regards,<u></u><u></u></span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-family:"Verdana",sans-serif">Dženan<u></u><u></u></span></p>
</div>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
<div>
<p class="MsoNormal">On Tue, Feb 9, 2016 at 1:12 AM, Gunjan Naik <<a href="mailto:gunjan_naik@persistent.com" target="_blank">gunjan_naik@persistent.com</a>> wrote:<u></u><u></u></p>
<blockquote style="border:none;border-left:solid #cccccc 1.0pt;padding:0in 0in 0in 6.0pt;margin-left:4.8pt;margin-right:0in">
<div>
<div>
<p class="MsoNormal">Hi All,<u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
<p class="MsoNormal">I am using geodesic active contour for brain tumor segmentation.<u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
<p class="MsoNormal">In that, I have to give seed points for creating level set.<u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
<p class="MsoNormal">I have calculated seed points using opencv, but when I input these points using ‘TransformPhysicalPointToIndex’ it throws error stating that index out of bounds.<u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
<p class="MsoNormal">It works for only points [(0,0)].<u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
<p class="MsoNormal">Please provide me directions.<u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
<p class="MsoNormal">Thanks and Regards,<u></u><u></u></p>
<p class="MsoNormal">Gunjan Naik<u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
<p class="MsoNormal"><b><span style="font-size:9.0pt;color:#1f497d">Gunjan G. Naik
</span></b><b><span style="font-size:9.0pt;color:black">|</span></b><b><span style="font-size:9.0pt;color:#1f497d"> Persistent LABS | PhD Student – University of Pune</span></b><u></u><u></u></p>
<p class="MsoNormal"><b><u><span style="font-size:9.0pt;color:#1f497d"><a href="mailto:gunjan_naik@persistent.com" target="_blank">gunjan_naik@persistent.com</a></span></u></b><span style="color:black">
</span><b><span style="font-size:9.0pt;color:black">|</span></b><b><span style="font-size:9.0pt;color:#1f497d"> Cell:
<a href="tel:%2B91-8087996979" target="_blank">+91-8087996979</a> </span></b><b><span style="font-size:9.0pt;color:black">|
</span></b><b><span style="font-size:9.0pt;color:#1f497d">Tel: +91-20-670 34878</span></b><u></u><u></u></p>
<p class="MsoNormal"><b><span style="font-size:9.0pt;color:black">Persistent Systems Ltd. |
</span></b><b><span style="font-size:9.0pt;color:#e36c0a">Partners in Innovation </span>
</b><b><span style="font-size:9.0pt;color:black">| </span></b><span style="color:#1f497d"><a href="http://www.persistent.com/" target="_blank"><b><span style="font-size:9.0pt;color:#1f497d">www.persistent.com</span></b></a></span><u></u><u></u></p>
<p class="MsoNormal"> <u></u><u></u></p>
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