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Hi Yang,<br>
<br>
First, a quick explanation: ITK embeds FFTW. On linux, you just have
to activate it in the CMake options. On Windows, you cannot do that.
I do not have a clue why, but you cannot. You have to install FFTW
separately.<br>
<br>
Now, a solution: The quickest way is to download the precompiled
DLLs from <a class="moz-txt-link-freetext" href="http://www.fftw.org/install/windows.html">http://www.fftw.org/install/windows.html</a><br>
On that same page, follow the indications on how to create the .lib
files (that is absolutely necessary). You may have to run the
"lib.exe" program from the VS developer prompt instead of the
standard windows cmd.exe prompt. Specify you CPU architecture
explicitly, just to be sure.<br>
<br>
Then in the CMake options of ITK, set the following:<br>
FFTWF_LIB = TheRelevantFolderOnYourSystem/libfftw3f-3.lib<br>
FFTW_INCLUDE_PATH = TheRelevantFolderOnYourSystem/<br>
<br>
Let the rest of the FFTW options blank. Compile ITK, then RTK, and
you should be fine. I have successfully compiled this with
BUILD_SHARED_LIBS = ON (on both ITK and RTK), I don't know if it
matters.<br>
<br>
If it works for you, then you might want to play around with the
other FFTW .lib files, and send on this mailing list a more complete
set of CMAKE options that works. I have tried some other
combinations without success, so I'd be happy to learn more.<br>
<br>
Hope it helps,<br>
Cyril<br>
<div class="moz-cite-prefix">On 09/30/2015 11:12 PM, Yang K Park
wrote:<br>
</div>
<blockquote cite="mid:005801d0fbc4$a9c70a60$fd551f20$@gmail.com"
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<div class="WordSection1">
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Hi
Matt,<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Thank
you so much for your help, again.<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Unfortunately,
I’m using windows system (windows7 64 with VS 2013) and I
guess this could be a challenging issue to me.<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Hi
RTK users,<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Is
there anyone who successfully compiled RTK with “ITK + FFTW”
in windows system?<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">I’m
just trying to use <b>rtkextractshroudsignal</b> and it
seems to require FFTW library externally.<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">When
I tried to use FFTW 3.3.4, I’ve encountered link errors as
shown below.<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Any
help will be highly appreciated.<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Yang<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">
<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"><o:p> </o:p></span></p>
<div>
<div style="border:none;border-top:solid #E1E1E1
1.0pt;padding:3.0pt 0in 0in 0in">
<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">
Matthew J. Riblett [<a class="moz-txt-link-freetext" href="mailto:riblettmj@mymail.vcu.edu">mailto:riblettmj@mymail.vcu.edu</a>] <br>
<b>Sent:</b> Wednesday, September 30, 2015 5:01 PM<br>
<b>To:</b> Yang K Park <a class="moz-txt-link-rfc2396E" href="mailto:theday79@gmail.com"><theday79@gmail.com></a><br>
<b>Subject:</b> Re: [Rtk-users] Generating signal data
from Amsterdam Shroud<o:p></o:p></span></p>
</div>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Yang,<o:p></o:p></p>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">I’m running on Ubuntu 14.04 LTS and used
the distribution library (FFTW 3.3.3). If you’re running on
a Debian-based linux system, you can also install the full
development library set using the following command: <b><i>sudo
apt-get install libfftw3-3 libfftw3-dev</i></b>. Then
just make sure that these libraries are being used by
rerunning CCMake. <o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">I’m not quite sure about the error being
thrown in your build, but perhaps one of the main developers
would be able to provide some more insight into the issue.<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">Hope this helps,<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">— Matt<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
<div>
<div>
<div>
<p class="MsoNormal"><span style="color:black">__<o:p></o:p></span></p>
</div>
<div>
<p class="MsoNormal"><span style="color:black">Matthew
J. Riblett<br>
Virginia Commonwealth University<br>
Department of Radiation Oncology<br>
Medical Physics Graduate Program<br>
<br>
Office: Sanger Hall, Room B1-013<o:p></o:p></span></p>
</div>
<div>
<p class="MsoNormal"><span style="color:black">401
College Street | P.O. Box 980058<o:p></o:p></span></p>
</div>
<div>
<p class="MsoNormal"><span style="color:black">Richmond,
Virginia 23298<br>
<br>
VCU Email:<span class="apple-tab-span">
</span> <a moz-do-not-send="true"
href="mailto:riblettmj@vcu.edu">riblettmj@vcu.edu</a><br>
MCV Office Phone:<span class="apple-tab-span"> </span>
+1.804.628.4858<o:p></o:p></span></p>
</div>
</div>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<div>
<blockquote style="margin-top:5.0pt;margin-bottom:5.0pt">
<div>
<p class="MsoNormal">On Sep 30, 2015, at 4:44 PM, Yang K
Park <<a moz-do-not-send="true"
href="mailto:theday79@gmail.com">theday79@gmail.com</a>>
wrote:<o:p></o:p></p>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Hi
Matt,</span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Thank
you so much for your advice.</span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Recently
I have revisited this project and tried to compile
ITK with those options on as you suggested.</span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">I’ve
tried to use the up-to-date version of FFTW
(3.3.4), but it seems that it doesn’t work with
RTK.<span class="apple-converted-space"> </span></span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">There
were some link errors like:<span
class="apple-converted-space"> </span></span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">rtkextractshroudsignal.obj
: error LNK2019: unresolved external symbol
__imp_fftw_execute referenced in function
"protected: virtual void __cdecl
itk::FFTWComplexToComplexFFTImageFilter<class
itk::Image<class
std::complex<double>,1>
>::BeforeThreadedGenerateData(void)"
(?BeforeThreadedGenerateData@?</span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">May
I ask you which version of fftw you are
successfully using in which system(Windows or
Linux)?</span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Thanks.</span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Yang</span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
<div>
<div style="border:none;border-top:solid #E1E1E1
1.0pt;padding:3.0pt 0in 0in 0in">
<div>
<p class="MsoNormal"><b><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">From:</span></b><span
class="apple-converted-space"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span></span><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Matthew
J. Riblett [<a moz-do-not-send="true"
href="mailto:riblettmj@mymail.vcu.edu">mailto:riblettmj@mymail.vcu.edu</a>]<span
class="apple-converted-space"> </span><br>
<b>Sent:</b><span
class="apple-converted-space"> </span>Friday,
September 18, 2015 6:56 PM<br>
<b>To:</b><span class="apple-converted-space"> </span>Yang
K Park <<a moz-do-not-send="true"
href="mailto:theday79@gmail.com">theday79@gmail.com</a>><br>
<b>Subject:</b><span
class="apple-converted-space"> </span>Re:
[Rtk-users] Generating signal data from
Amsterdam Shroud</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<div>
<p class="MsoNormal">Yang,<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">One ITK requirement of the new
RTK version is the inclusion of the Fast Fourier
Transform components. This requires compilation
with the ITK_USE_FFTWF and the<o:p></o:p></p>
</div>
</div>
<div>
<p class="MsoNormal">ITK_USE_FFTWD options. I know, I
didn’t compile that way initially, and it took a
little bit of time to figure out.<o:p></o:p></p>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<p class="MsoNormal">Hope that helps,<o:p></o:p></p>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">— Matt<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal">__<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">Matthew J. Riblett<br>
Virginia Commonwealth University<br>
Department of Radiation Oncology<br>
Medical Physics Graduate Program<br>
<br>
Office: Sanger Hall, Room B1-013<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">401 College Street |
P.O. Box 980058<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">Richmond, Virginia 23298<br>
<br>
VCU Email:<span class="apple-tab-span"> </span><span
class="apple-converted-space"> </span> <a
moz-do-not-send="true"
href="mailto:riblettmj@vcu.edu"><span
style="color:purple">riblettmj@vcu.edu</span></a><br>
MCV Office Phone:<span
class="apple-tab-span"> </span><span
class="apple-converted-space"> </span>
+1.804.628.4858<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<blockquote
style="margin-top:5.0pt;margin-bottom:5.0pt">
<div>
<div>
<p class="MsoNormal">On Sep 18, 2015, at 4:55
PM, Yang K Park <<a
moz-do-not-send="true"
href="mailto:theday79@gmail.com"><span
style="color:purple">theday79@gmail.com</span></a>>
wrote:<o:p></o:p></p>
</div>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Hi
Matt,</span><o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">That
sounds great! I really appreciate your
advice.</span><o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">I’m
now compiling itk-4.8 to use that
feature since I’ve found my itk version
is a bit obsolete (4.4).</span><o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Thanks!</span><o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Yang</span><o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
<div>
<div style="border:none;border-top:solid
#E1E1E1 1.0pt;padding:3.0pt 0in 0in 0in">
<div>
<div>
<p class="MsoNormal"><b><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">From:</span></b><span
class="apple-converted-space"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span></span><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Matthew
J. Riblett [<a
moz-do-not-send="true"
href="mailto:riblettmj@mymail.vcu.edu"><span
style="color:purple">mailto:riblettmj@mymail.vcu.edu</span></a>]<span
class="apple-converted-space"> </span><br>
<b>Sent:</b><span
class="apple-converted-space"> </span>Friday,
September 18, 2015 4:31 PM<br>
<b>To:</b><span
class="apple-converted-space"> </span>Yang
K Park <<a moz-do-not-send="true"
href="mailto:theday79@gmail.com"><span
style="color:purple">theday79@gmail.com</span></a>><br>
<b>Subject:</b><span
class="apple-converted-space"> </span>Re:
[Rtk-users] Generating signal data
from Amsterdam Shroud</span><o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">Hi Yang,<o:p></o:p></p>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">Nice to hear from
you! I have had some success since my
initial posting – in fact I’m currently
working on a new method for
accomplishing this task in certain
challenging cases.<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">The most recent
version of RTK provides an update to the
rtkextractshroudsignal application which
provides a phase signal output when
called using the ‘-p’ flag at runtime:<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><b><i>rtkextractshroudsignal
-i shroud.mhd -o raw_signal.txt -p
phase_signal.txt --method
LINEAR_BETWEEN_MINIMA</i></b><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">From what I’ve
experienced, this generally provides a
good signal [0,1) characterizing the
respiratory phase using the default
settings. Occasionally, I’ve run into
issues where the default ‘unsharpness’
parameter needs to be adjusted to give a
clear signal (by appending the<span
class="apple-converted-space"> </span><b>--unsharp
##</b><span
class="apple-converted-space"> </span>flag
to the command). On more challenging
shroud images – notably, those with
little detectable signal from background
– additional contrast-enhancement by
pre-processing of the shroud has
assisted in signal extraction.<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">I hope that helps –
and please let me know how it works out
for you.<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">— Matt<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<div>
<div>
<p class="MsoNormal">__<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">Matthew J.
Riblett<br>
Virginia Commonwealth University<br>
Department of Radiation Oncology<br>
Medical Physics Graduate Program<br>
<br>
Office: Sanger Hall, Room B1-013<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">401 College
Street | P.O. Box 980058<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">Richmond,
Virginia 23298<br>
<br>
VCU Email:<span
class="apple-tab-span"> </span><span
class="apple-converted-space"> </span>
<a moz-do-not-send="true"
href="mailto:riblettmj@vcu.edu"><span
style="color:purple">riblettmj@vcu.edu</span></a><br>
MCV Office Phone:<span
class="apple-tab-span"> </span><span
class="apple-converted-space"> </span>
+1.804.628.4858<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<blockquote
style="margin-top:5.0pt;margin-bottom:5.0pt">
<div>
<div>
<div>
<p class="MsoNormal">On Sep 18,
2015, at 4:12 PM, Yang K Park <<a
moz-do-not-send="true"
href="mailto:theday79@gmail.com"><span
style="color:purple">theday79@gmail.com</span></a>>
wrote:<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Hi
Matthew,</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Hello,
I found you in the RTK-thread.</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Recently,
I’ve encountered exactly same
issue and it would be highly
appreciated if you can share
with me your updates on this
issue.</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Thanks.<span
class="apple-converted-space"> </span></span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D">Yang</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">_______________________________________________</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Yang-Kyun
Park, Ph.D., DABR</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Assistant
physicist & Instructor</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Department
of Radiation Oncology</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Massachusetts
General Hospital & Harvard
Medical School</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">55
Fruit Street, Boston, MA 02114</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Tel:
+1-617-726-0186</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Fax:
+1-617-726-3603</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1F497D"> </span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"><b><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">From:</span></b><span
class="apple-converted-space"><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span></span><span
style="font-size:11.0pt;font-family:"Calibri",sans-serif">Rtk-users
[<a moz-do-not-send="true"
href="mailto:rtk-users-bounces@public.kitware.com"><span
style="color:purple">mailto:rtk-users-bounces@public.kitware.com</span></a>]<span
class="apple-converted-space"> </span><b>On Behalf Of<span
class="apple-converted-space"> </span></b>Joel
Beaudry<br>
<b>Sent:</b><span
class="apple-converted-space"> </span>Tuesday,
March 17, 2015 5:25 PM<br>
<b>To:</b><span
class="apple-converted-space"> </span>Matthew
J. Riblett <<a
moz-do-not-send="true"
href="mailto:riblettmj@mymail.vcu.edu"><span
style="color:purple">riblettmj@mymail.vcu.edu</span></a>><br>
<b>Cc:</b><span
class="apple-converted-space"> </span><a
moz-do-not-send="true"
href="mailto:rtk-users@public.kitware.com"><span
style="color:purple">rtk-users@public.kitware.com</span></a><br>
<b>Subject:</b><span
class="apple-converted-space"> </span>Re:
[Rtk-users] Generating signal
data from Amsterdam Shroud</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal"
style="margin-bottom:12.0pt">Hi
Matthew,<span
class="apple-converted-space"> </span><o:p></o:p></p>
</div>
<p class="MsoNormal"
style="margin-bottom:12.0pt">I'm
not sure of what was used in the
Matlab script, but I've had good
success with using a Hilbert
function in python (scipy). I'm
sure that Matlab has an
equivalent function, and maybe
that is what was used?<span
class="apple-converted-space"> </span><o:p></o:p></p>
</div>
<div>
<div>
<div>
<p class="MsoNormal">Hope that
helps,<o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal">Joel<o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal">On Wed,
Mar 11, 2015 at 2:40 PM,
Matthew J. Riblett <<a
moz-do-not-send="true"
href="mailto:riblettmj@mymail.vcu.edu"
target="_blank"><span
style="color:purple">riblettmj@mymail.vcu.edu</span></a>>
wrote:<o:p></o:p></p>
</div>
</div>
</div>
<blockquote
style="border:none;border-left:solid
#CCCCCC 1.0pt;padding:0in 0in 0in
6.0pt;margin-left:4.8pt;margin-top:5.0pt;margin-right:0in;margin-bottom:5.0pt">
<div>
<div>
<div>
<div>
<p class="MsoNormal">Hello
fellow RTK users,<o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal">I
was wondering if
anyone has a
straightforward method
of going from the
results of the
rtkamsterdamshroud and
rtkextractshroudsignal
applications to a
[0,1) phase signal for
performing
motion-compensated
reconstruction. I’ve
been following along
with the MC-CBCT
Reconstruction example
(<a
moz-do-not-send="true"
href="http://wiki.openrtk.org/index.php/RTK/Examples/MCCBCTReconstruction"
target="_blank"><span
style="color:purple">http://wiki.openrtk.org/index.php/RTK/Examples/MCCBCTReconstruction</span></a>),
and there is an
indication that Matlab
is used to process the
should signal prior to
feeding it back into
the reconstruction
application, but there
is no mention of how
this is accomplished.
I’m trying to
implement this into an
automated workflow and
I’d love to know how
this was accomplished.<o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal">Thanks!<o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal">—
Matt<o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<div>
<div>
<p
class="MsoNormal">__<o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p
class="MsoNormal">Matthew
J. Riblett<br>
Virginia
Commonwealth
University<br>
Department of
Radiation
Oncology<br>
Medical Physics
Graduate Program<br>
<br>
Office: Sanger
Hall, Room
B1-013<o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p
class="MsoNormal">401
College Street
| P.O. Box
980058<o:p></o:p></p>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<div>
<p
class="MsoNormal">Richmond,
Virginia 23298<br>
<br>
VCU Email: <a
moz-do-not-send="true" href="mailto:riblettmj@vcu.edu" target="_blank"><span
style="color:purple">riblettmj@vcu.edu</span></a><br>
MCV Office
Phone: <a
moz-do-not-send="true"
href="tel:%2B1.804.628.4858" target="_blank"><span style="color:purple">+1.804.628.4858</span></a><o:p></o:p></p>
</div>
</div>
</div>
</div>
</div>
</div>
<div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
</div>
</div>
</div>
<p class="MsoNormal"
style="margin-bottom:12.0pt"><br>
_______________________________________________<br>
Rtk-users mailing list<br>
<a moz-do-not-send="true"
href="mailto:Rtk-users@public.kitware.com"><span
style="color:purple">Rtk-users@public.kitware.com</span></a><br>
<a moz-do-not-send="true"
href="http://public.kitware.com/mailman/listinfo/rtk-users"
target="_blank"><span
style="color:purple">http://public.kitware.com/mailman/listinfo/rtk-users</span></a><o:p></o:p></p>
</blockquote>
</div>
</div>
</div>
</blockquote>
</div>
</div>
</div>
</blockquote>
</div>
</div>
</div>
</blockquote>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
</div>
<br>
<fieldset class="mimeAttachmentHeader"></fieldset>
<br>
<pre wrap="">_______________________________________________
Rtk-users mailing list
<a class="moz-txt-link-abbreviated" href="mailto:Rtk-users@public.kitware.com">Rtk-users@public.kitware.com</a>
<a class="moz-txt-link-freetext" href="http://public.kitware.com/mailman/listinfo/rtk-users">http://public.kitware.com/mailman/listinfo/rtk-users</a>
</pre>
</blockquote>
<br>
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