hello guyz,<br>i have a doubt...as far as i know even ConnectedComponentFilter does not produce labels in raster order...it also labels the components according to the size and the relabel image filter assigns only just a predefined specific color according the label...<br>
<br>plz tell me if i m wrong...<br><br><div class="gmail_quote">On Tue, Aug 10, 2010 at 5:10 AM, Richard Beare <span dir="ltr"><<a href="mailto:richard.beare@gmail.com">richard.beare@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">The default labeling behavior provided in the<br>
itk::ConnectedComponentImageFilter does this. If you are starting with<br>
a binary image and want to label separate components then<br>
ConnectedComponentImageFilter will produce labels in raster order. If<br>
you already have a labelled image then different strategies might be<br>
needed, depending on how it was produced and what the characteristics<br>
are (i.e whether labelled regions touch.)<br>
<div><div></div><div class="h5"><br>
On Tue, Aug 10, 2010 at 8:45 AM, Emma Ryan <<a href="mailto:eryanvtk@yahoo.com">eryanvtk@yahoo.com</a>> wrote:<br>
> Hello All,<br>
><br>
> By default the itk::RelabelComponentImageFilter seems to be sorting the<br>
> labels by size. I would like the label to be number according to their<br>
> raster position. Is there a way to turn off the sorting ?<br>
><br>
> Thank you,<br>
> Emma<br>
><br>
> ________________________________<br>
> From: "<a href="mailto:insight-users-request@itk.org">insight-users-request@itk.org</a>" <<a href="mailto:insight-users-request@itk.org">insight-users-request@itk.org</a>><br>
> To: <a href="mailto:insight-users@itk.org">insight-users@itk.org</a><br>
> Sent: Mon, August 9, 2010 12:42:15 PM<br>
> Subject: Insight-users Digest, Vol 76, Issue 24<br>
><br>
> Send Insight-users mailing list submissions to<br>
> <a href="mailto:insight-users@itk.org">insight-users@itk.org</a><br>
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> When replying, please edit your Subject line so it is more specific<br>
> than "Re: Contents of Insight-users digest..."<br>
><br>
><br>
> Today's Topics:<br>
><br>
> 1. Tcon Agenda Posted (Tuesday 1pm EST) (Luis Ibanez)<br>
> 2. Re: Tcon Agenda Posted (Tuesday 1pm EST) (Bradley Lowekamp)<br>
> 3. Re: [Insight-developers] Tcon Agenda Posted (Tuesday 1pm EST)<br>
> (Arnaud GELAS)<br>
> 4. itk::BilateralImageFilter extremely slow (Oleksandr Dzyubak)<br>
> 5. Re: Problem with passing images to functions (habibbaluwala2010)<br>
><br>
><br>
> ----------------------------------------------------------------------<br>
><br>
> Message: 1<br>
> Date: Mon, 9 Aug 2010 14:35:09 -0400<br>
> From: Luis Ibanez <<a href="mailto:luis.ibanez@kitware.com">luis.ibanez@kitware.com</a>><br>
> Subject: [Insight-users] Tcon Agenda Posted (Tuesday 1pm EST)<br>
> To: itk <<a href="mailto:Insight-users@itk.org">Insight-users@itk.org</a>>, Insight Developers<br>
> <<a href="mailto:Insight-developers@itk.org">Insight-developers@itk.org</a>><br>
> Message-ID:<br>
> <AANLkTi=OgJ1OyJRuRDOqY=<a href="mailto:t70iSYpWT1JAVZcj_5HC5Y@mail.gmail.com">t70iSYpWT1JAVZcj_5HC5Y@mail.gmail.com</a>><br>
> Content-Type: text/plain; charset="iso-8859-1"<br>
><br>
> The Agenda for tomorrow's tcon has been posted at:<br>
><br>
> <a href="http://www.itk.org/Wiki/Agenda%26Status_081010" target="_blank">http://www.itk.org/Wiki/Agenda%26Status_081010</a><br>
><br>
> As discussed in the last tcon,<br>
> we are inverting the order of the agenda,<br>
> in order to address some topics for which<br>
> we have run out of time in previous calls.<br>
><br>
> Please feel free to add any topics of your interest.<br>
><br>
><br>
> Luis<br>
> -------------- next part --------------<br>
> An HTML attachment was scrubbed...<br>
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><br>
> ------------------------------<br>
><br>
> Message: 2<br>
> Date: Mon, 9 Aug 2010 15:06:45 -0400<br>
> From: Bradley Lowekamp <<a href="mailto:blowekamp@mail.nih.gov">blowekamp@mail.nih.gov</a>><br>
> Subject: Re: [Insight-users] Tcon Agenda Posted (Tuesday 1pm EST)<br>
> To: Luis Ibanez <<a href="mailto:luis.ibanez@kitware.com">luis.ibanez@kitware.com</a>><br>
> Cc: itk <<a href="mailto:Insight-users@itk.org">Insight-users@itk.org</a>>, Insight Developers<br>
> <<a href="mailto:Insight-developers@itk.org">Insight-developers@itk.org</a>><br>
> Message-ID: <<a href="mailto:3640D14E-D614-41AA-BE09-5223002184CB@mail.nih.gov">3640D14E-D614-41AA-BE09-5223002184CB@mail.nih.gov</a>><br>
> Content-Type: text/plain; charset="us-ascii"<br>
><br>
> Hello Luis,<br>
><br>
> Looking over the agenda for tomorrow, I can't help but think that the<br>
> Microscopy should be a break out t-con (unless I missed it, and this is a<br>
> summary). I have had experience with streaming and many related issues to<br>
> the large datasets complications, so I would like to participate in such a<br>
> break out.<br>
><br>
> Perhaps the agenda item should just be to schedule such a meeting?<br>
><br>
> Brad<br>
><br>
> On Aug 9, 2010, at 2:35 PM, Luis Ibanez wrote:<br>
><br>
>><br>
>> The Agenda for tomorrow's tcon has been posted at:<br>
>><br>
>> <a href="http://www.itk.org/Wiki/Agenda%26Status_081010" target="_blank">http://www.itk.org/Wiki/Agenda%26Status_081010</a><br>
>><br>
>> As discussed in the last tcon,<br>
>> we are inverting the order of the agenda,<br>
>> in order to address some topics for which<br>
>> we have run out of time in previous calls.<br>
>><br>
>> Please feel free to add any topics of your interest.<br>
>><br>
>><br>
>> Luis<br>
>><br>
>><br>
>> <ATT00001..txt><br>
><br>
> ========================================================<br>
> Bradley Lowekamp<br>
> Lockheed Martin Contractor for<br>
> Office of High Performance Computing and Communications<br>
> National Library of Medicine<br>
> <a href="mailto:blowekamp@mail.nih.gov">blowekamp@mail.nih.gov</a><br>
><br>
><br>
> -------------- next part --------------<br>
> An HTML attachment was scrubbed...<br>
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><br>
> ------------------------------<br>
><br>
> Message: 3<br>
> Date: Mon, 9 Aug 2010 15:16:54 -0400<br>
> From: Arnaud GELAS <<a href="mailto:arnaud_gelas@hms.harvard.edu">arnaud_gelas@hms.harvard.edu</a>><br>
> Subject: Re: [Insight-users] [Insight-developers] Tcon Agenda Posted<br>
> (Tuesday 1pm EST)<br>
> To: Bradley Lowekamp <<a href="mailto:blowekamp@mail.nih.gov">blowekamp@mail.nih.gov</a>><br>
> Cc: itk <<a href="mailto:Insight-users@itk.org">Insight-users@itk.org</a>>, Insight Developers<br>
> <<a href="mailto:Insight-developers@itk.org">Insight-developers@itk.org</a>>, Luis Ibanez <<a href="mailto:luis.ibanez@kitware.com">luis.ibanez@kitware.com</a>>,<br>
> "Megason, Sean" <<a href="mailto:Sean_Megason@hms.harvard.edu">Sean_Megason@hms.harvard.edu</a>><br>
> Message-ID: <<a href="mailto:4C605426.4080103@hms.harvard.edu">4C605426.4080103@hms.harvard.edu</a>><br>
> Content-Type: text/plain; charset="iso-8859-1"; Format="flowed"<br>
><br>
> Hi Brad,<br>
><br>
> I think we should do both, first to present problems from the microscopy<br>
> community. At least everyone can understand some of the related problems<br>
> in terms of design. Then interested people and people that have ideas on<br>
> how to address these issues can then meet in another break out t-con.<br>
><br>
> It seems to be important to discuss at least in the main t-conf:<br>
><br>
> * how to deal with time?<br>
> * how to deal with channels? (Note that for one channel, the pixel<br>
> type could be a scalar, vector or tensor)...<br>
><br>
> Then we could discuss other details in the break out one...<br>
><br>
> Arnaud<br>
><br>
> On 08/09/2010 03:06 PM, Bradley Lowekamp wrote:<br>
>> Hello Luis,<br>
>><br>
>> Looking over the agenda for tomorrow, I can't help but think that the<br>
>> Microscopy should be a break out t-con (unless I missed it, and this<br>
>> is a summary). I have had experience with streaming and many related<br>
>> issues to the large datasets complications, so I would like to<br>
>> participate in such a break out.<br>
>><br>
>> Perhaps the agenda item should just be to schedule such a meeting?<br>
>><br>
>> Brad<br>
>><br>
>> On Aug 9, 2010, at 2:35 PM, Luis Ibanez wrote:<br>
>><br>
>>><br>
>>> The Agenda for tomorrow's tcon has been posted at:<br>
>>><br>
>>> <a href="http://www.itk.org/Wiki/Agenda%26Status_081010" target="_blank">http://www.itk.org/Wiki/Agenda%26Status_081010</a><br>
>>><br>
>>> As discussed in the last tcon,<br>
>>> we are inverting the order of the agenda,<br>
>>> in order to address some topics for which<br>
>>> we have run out of time in previous calls.<br>
>>><br>
>>> Please feel free to add any topics of your interest.<br>
>>><br>
>>><br>
>>> Luis<br>
>>><br>
>>><br>
>>> <ATT00001..txt><br>
>><br>
>> ========================================================<br>
>><br>
>> Bradley Lowekamp<br>
>><br>
>> Lockheed Martin Contractor for<br>
>><br>
>> Office of High Performance Computing and Communications<br>
>><br>
>> National Library of Medicine<br>
>><br>
>> <a href="mailto:blowekamp@mail.nih.gov">blowekamp@mail.nih.gov</a> <mailto:<a href="mailto:blowekamp@mail.nih.gov">blowekamp@mail.nih.gov</a>><br>
>><br>
>><br>
>><br>
><br>
> -------------- next part --------------<br>
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><br>
> ------------------------------<br>
><br>
> Message: 4<br>
> Date: Mon, 09 Aug 2010 14:35:37 -0500<br>
> From: Oleksandr Dzyubak <<a href="mailto:adzyubak@gmail.com">adzyubak@gmail.com</a>><br>
> Subject: [Insight-users] itk::BilateralImageFilter extremely slow<br>
> To: insight-users <<a href="mailto:Insight-users@itk.org">Insight-users@itk.org</a>><br>
> Message-ID: <<a href="mailto:4C605889.6020103@gmail.com">4C605889.6020103@gmail.com</a>><br>
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed<br>
><br>
><br>
> Dear ITK users and developers,<br>
><br>
> A while ago for my experiments I ran into a need of using<br>
> a narrow kernel bilateral filter so I decided to give<br>
> the itk:: BilateralImageFilter class a try.<br>
> After some pre-tests with small test images, I ran a filter on real images.<br>
> Well, my first impression is somewhat discouraging.<br>
> But it might be that I am doing some terrible mistake which I do not see.<br>
><br>
> My setup.<br>
> 1) Hardware: 4x4 core server with 64 bit Debian Linux.<br>
> 2) ITK-3.18 with p-threads support ON.<br>
> 3) Image 561x561x478.<br>
><br>
> I followed the recommendations from the ITK user guide<br>
> and below are results.<br>
><br>
> dzyubak@helium: /H61_Mo_721Views_July_31_2009$ time<br>
> ./Bilateral_LessAgressive h61_with_psf.hdr h61_with_psf_ds05_rs4.hdr 0.5 4.0<br>
><br>
> With all 16 CPUs 100% busy after 1241m29.741s it was still running.<br>
> Thus I should cancel the run not having an output.<br>
><br>
> real 1241m29.741s<br>
> user 19600m14.380s<br>
> sys 6m33.993s<br>
><br>
> After I changed the parameters, I got something but it was not what I<br>
> wanted.<br>
><br>
> dzyubak@helium: /H61_Mo_721Views_July_31_2009$ time<br>
> ./Bilateral_LessAgressive h61_with_psf.hdr h61_with_psf_ds005_rs4.hdr<br>
> 0.05 4.0<br>
><br>
> real 63m46.774s<br>
> user 764m24.782s<br>
> sys 0m18.849s<br>
><br>
> Since this filter worked extremely slow even with 16 horses under the hood,<br>
> I started digging the Insight Journal and found the contribution<br>
> "A Fast Approximation to the Bilateral Filter for ITK" by J. Woehr.<br>
><br>
> I was attracted by the word "Fast" since it quite often means "faster<br>
> performance".<br>
> Even though I did not like the author's note "it is single threaded",<br>
> I decided to eventually try it and, to be fair,<br>
> I used exactly the same parameters as for itk:: BilateralImageFilter.<br>
><br>
> dzyubak@helium: /H61_Mo_721Views_July_31_2009$ time<br>
> ./FastBilateral_LessAgressive h61_with_psf.hdr h61_with_psf_ds05_rs4.hdr<br>
> 0.5 4.0<br>
> ImageFileName: h61_with_psf.img<br>
><br>
> real 4m49.325s<br>
> user 4m35.085s<br>
> sys 0m5.804s<br>
><br>
> In the submission description J. Woehr said that FastBilateral<br>
> performs poorer for the narrow kernels thus if someone is<br>
> in a need of such cases (it is exactly me!),<br>
> then the itk:: BilateralImageFilter should be used instead.<br>
><br>
> Well, I would like to but FastBilateral performed 200 times<br>
> as much vs itk:: BilateralImageFilter.<br>
> And in addition to that, for some kernel sizes it never<br>
> went out of the loop.<br>
><br>
> What am I missing here?<br>
> Did someone experience the same filter behaver?<br>
> Is it wrong conditional causing such a "prolongated" loop?<br>
> Is there any recipe I could used to shorten<br>
> such unacceptable long run time of itk:: BilateralImageFilter?<br>
><br>
> I appreciate any suggestions/discussions on this matter.<br>
><br>
> Regards,<br>
><br>
> Alex<br>
><br>
><br>
> ------------------------------<br>
><br>
> Message: 5<br>
> Date: Mon, 9 Aug 2010 12:42:12 -0700 (PDT)<br>
> From: habibbaluwala2010 <<a href="mailto:habibbaluwala@gmail.com">habibbaluwala@gmail.com</a>><br>
> Subject: Re: [Insight-users] Problem with passing images to functions<br>
> To: <a href="mailto:insight-users@itk.org">insight-users@itk.org</a><br>
> Message-ID: <<a href="mailto:29391440.post@talk.nabble.com">29391440.post@talk.nabble.com</a>><br>
> Content-Type: text/plain; charset=UTF-8<br>
><br>
><br>
> Hello Sergio,<br>
> Can you give me an example of how to use this in context<br>
> with the syntax? I am really thankful for the help.<br>
><br>
><br>
> Kind regards,<br>
><br>
> Habib Baluwala<br>
><br>
><br>
><br>
><br>
> Sergio Vera wrote:<br>
>><br>
>> Following advices from Luis Iba?ez in a previous mail of the list, we now<br>
>> use the following rules:<br>
>><br>
>> const ITKImgType *ImgIn when images are input to a method and<br>
>><br>
>> ITKImgType::Pointer &ImgOut when the image will be created inside the<br>
>> function<br>
>><br>
>> regards<br>
>><br>
>> 2010/8/6 D?enan Zuki? <<a href="mailto:dzenanz@gmail.com">dzenanz@gmail.com</a>><br>
>><br>
>>> Use ImageType::Pointer. Here is an example:<br>
>>><br>
>>> void calc2DJointHistogram(VisualizingImageType::Pointer x,<br>
>>> VisualizingImageType::Pointer y, std::string savefilename)<br>
>>> {<br>
>>> ...<br>
>>> }<br>
>>><br>
>>> //calling it<br>
>>> VisualizingImageType::Pointer lVis, hVis;<br>
>>> ...<br>
>>> hVis=hReader->GetOutput();<br>
>>> calc2DJointHistogram(lVis, hVis, fnNoExt+"_LH.png");<br>
>>><br>
>>> D?enan<br>
>>><br>
>>> On Fri, Aug 6, 2010 at 15:32, habibbaluwala2010<br>
>>> <<a href="mailto:habibbaluwala@gmail.com">habibbaluwala@gmail.com</a>>wrote:<br>
>>><br>
>>>><br>
>>>> Hi Everyone,<br>
>>>> I am a biot confused on how can i pass an image with<br>
>>>> smart<br>
>>>> pointers to an outside function . I basically need this to avoid<br>
>>>> reproducing<br>
>>>> the code again and again and also to avoid composite filters. It would<br>
>>>> be<br>
>>>> very helpful if you can provide an example which does the job!!! Anyways<br>
>>>> looking forward to your replies.<br>
>>>> --<br>
>>>> View this message in context:<br>
>>>><br>
>>>> <a href="http://old.nabble.com/Problem-with-passing-images-to-functions-tp29356451p29356451.html" target="_blank">http://old.nabble.com/Problem-with-passing-images-to-functions-tp29356451p29356451.html</a><br>
>>>> Sent from the ITK - Users mailing list archive at Nabble.com.<br>
>>>><br>
>>>> _____________________________________<br>
>>>> Powered by <a href="http://www.kitware.com" target="_blank">www.kitware.com</a><br>
>>>><br>
>>>> Visit other Kitware open-source projects at<br>
>>>> <a href="http://www.kitware.com/opensource/opensource.html" target="_blank">http://www.kitware.com/opensource/opensource.html</a><br>
>>>><br>
>>>> Kitware offers ITK Training Courses, for more information visit:<br>
>>>> <a href="http://www.kitware.com/products/protraining.html" target="_blank">http://www.kitware.com/products/protraining.html</a><br>
>>>><br>
>>>> Please keep messages on-topic and check the ITK FAQ at:<br>
>>>> <a href="http://www.itk.org/Wiki/ITK_FAQ" target="_blank">http://www.itk.org/Wiki/ITK_FAQ</a><br>
>>>><br>
>>>> Follow this link to subscribe/unsubscribe:<br>
>>>> <a href="http://www.itk.org/mailman/listinfo/insight-users" target="_blank">http://www.itk.org/mailman/listinfo/insight-users</a><br>
>>>><br>
>>><br>
>>><br>
>>> _____________________________________<br>
>>> Powered by <a href="http://www.kitware.com" target="_blank">www.kitware.com</a><br>
>>><br>
>>> Visit other Kitware open-source projects at<br>
>>> <a href="http://www.kitware.com/opensource/opensource.html" target="_blank">http://www.kitware.com/opensource/opensource.html</a><br>
>>><br>
>>> Kitware offers ITK Training Courses, for more information visit:<br>
>>> <a href="http://www.kitware.com/products/protraining.html" target="_blank">http://www.kitware.com/products/protraining.html</a><br>
>>><br>
>>> Please keep messages on-topic and check the ITK FAQ at:<br>
>>> <a href="http://www.itk.org/Wiki/ITK_FAQ" target="_blank">http://www.itk.org/Wiki/ITK_FAQ</a><br>
>>><br>
>>> Follow this link to subscribe/unsubscribe:<br>
>>> <a href="http://www.itk.org/mailman/listinfo/insight-users" target="_blank">http://www.itk.org/mailman/listinfo/insight-users</a><br>
>>><br>
>>><br>
>><br>
>><br>
>> --<br>
>> Sergio Vera<br>
>><br>
>> Alma IT Systems<br>
>> C/ Vilana, 4B, 4? 1?<br>
>> 08022 Barcelona<br>
>> T. (+34) 932 380 592<br>
>> <a href="http://www.alma3d.com" target="_blank">www.alma3d.com</a><br>
>><br>
>> _____________________________________<br>
>> Powered by <a href="http://www.kitware.com" target="_blank">www.kitware.com</a><br>
>><br>
>> Visit other Kitware open-source projects at<br>
>> <a href="http://www.kitware.com/opensource/opensource.html" target="_blank">http://www.kitware.com/opensource/opensource.html</a><br>
>><br>
>> Kitware offers ITK Training Courses, for more information visit:<br>
>> <a href="http://www.kitware.com/products/protraining.html" target="_blank">http://www.kitware.com/products/protraining.html</a><br>
>><br>
>> Please keep messages on-topic and check the ITK FAQ at:<br>
>> <a href="http://www.itk.org/Wiki/ITK_FAQ" target="_blank">http://www.itk.org/Wiki/ITK_FAQ</a><br>
>><br>
>> Follow this link to subscribe/unsubscribe:<br>
>> <a href="http://www.itk.org/mailman/listinfo/insight-users" target="_blank">http://www.itk.org/mailman/listinfo/insight-users</a><br>
>><br>
>><br>
><br>
> --<br>
> View this message in context:<br>
> <a href="http://old.nabble.com/Problem-with-passing-images-to-functions-tp29356451p29391440.html" target="_blank">http://old.nabble.com/Problem-with-passing-images-to-functions-tp29356451p29391440.html</a><br>
> Sent from the ITK - Users mailing list archive at Nabble.com.<br>
><br>
><br>
><br>
> ------------------------------<br>
><br>
> _______________________________________________<br>
> Insight-users mailing list<br>
> <a href="mailto:Insight-users@itk.org">Insight-users@itk.org</a><br>
> <a href="http://www.itk.org/mailman/listinfo/insight-users" target="_blank">http://www.itk.org/mailman/listinfo/insight-users</a><br>
><br>
><br>
> End of Insight-users Digest, Vol 76, Issue 24<br>
> *********************************************<br>
><br>
><br>
> _____________________________________<br>
> Powered by <a href="http://www.kitware.com" target="_blank">www.kitware.com</a><br>
><br>
> Visit other Kitware open-source projects at<br>
> <a href="http://www.kitware.com/opensource/opensource.html" target="_blank">http://www.kitware.com/opensource/opensource.html</a><br>
><br>
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Kitware offers ITK Training Courses, for more information visit:<br>
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Please keep messages on-topic and check the ITK FAQ at:<br>
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</div></div></blockquote></div><br><br clear="all"><br>-- <br>Arpit Agrawal<br>Junior Undergraduate, <br>Dual Degree Communication and Signal Processing ,<br>Dept. of Electrical Engg, IITB.<br>