<div dir="ltr"><div class="gmail_default" style="font-family:verdana,sans-serif;font-size:small">Hi Fabio,</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">let me give it a try with VS2017 and Wrapping+NumPy. I will report back when I have an update.</div><div class="gmail_default" style="font-family:verdana,sans-serif;font-size:small"><div dir="ltr"><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">Regards,</div><div class="gmail_default"><font face="verdana, sans-serif">Dženan Zukić, PhD, Senior R&D Engineer, Kitware (Carrboro, N.C.)</font></div></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Wed, Apr 12, 2017 at 2:16 PM, D'Isidoro Fabio <span dir="ltr"><<a href="mailto:fisidoro@ethz.ch" target="_blank">fisidoro@ethz.ch</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Thank you. I am trying to build ITK Wrap Python with Module_BridgeNumPy=ON with Visual Studio 2017.<br>
<br>
I get the following type of errors:<br>
<br>
12>C:/Program Files (x86)/Microsoft Visual Studio/Preview/Community/VC/To<wbr>ols/MSVC/14.10.25017/include\<wbr>xstring(1905,26): error G3F63BFAE: constexpr variable '_Memcpy_move_offset' must be initialized by a constant expression<br>
12> static constexpr size_t _Memcpy_move_offset = offsetof(_Mydata_t, _Bx);<br>
12> ^ ~~~~~~~~~~~~~~~~~~~~~~~~<br>
12>C:/Program Files (x86)/Microsoft Visual Studio/Preview/Community/VC/To<wbr>ols/MSVC/14.10.25017/include\<wbr>stdexcept:23:21: note: in instantiation of template class 'std::basic_string<char, std::char_traits<char>, std::allocator<char> >' requested here<br>
12> : _Mybase(_Message.c_str())<br>
12> ^<br>
12>C:/Program Files (x86)/Microsoft Visual Studio/Preview/Community/VC/To<wbr>ols/MSVC/14.10.25017/include\<wbr>xstring:1905:48: note: cast that performs the conversions of a reinterpret_cast is not allowed in a constant expression<br>
12> static constexpr size_t _Memcpy_move_offset = offsetof(_Mydata_t, _Bx);<br>
12> ^<br>
12>C:/Program Files (x86)/Windows Kits/10/Include/10.0.10586.0/u<wbr>crt\stddef.h:38:32: note: expanded from macro 'offsetof'<br>
12> #define offsetof(s,m) ((size_t)&reinterpret_cast<cha<wbr>r const volatile&>((((s*)0)->m)))<br>
<br>
<br>
The build worked with Visual Studio 2015 instead.<br>
<br>
Can I fix this issue with Visual Studio 2017 somehow?<br>
<br>
Thank you.<br>
<br>
------------------------------<wbr>------------------------------<wbr>----------<br>
Fabio D’Isidoro - PhD Student<br>
Institute of Biomechanics<br>
HPP O 14<br>
Hönggerbergring 64<br>
8093 Zürich, Switzerland<br>
<div class="m_-9194022106724875707HOEnZb"><div class="m_-9194022106724875707h5"><br>
-----Original Message-----<br>
From: Matt McCormick [mailto:<a href="mailto:matt.mccormick@kitware.com" target="_blank">matt.mccormick@kitware<wbr>.com</a>]<br>
Sent: Montag, 3. April 2017 20:41<br>
To: D'Isidoro Fabio <<a href="mailto:fisidoro@ethz.ch" target="_blank">fisidoro@ethz.ch</a>><br>
Cc: <a href="mailto:insight-users@itk.org" target="_blank">insight-users@itk.org</a><br>
Subject: Re: [ITK-users] ITK Python: numpy to itk image (and viceversa)<br>
<br>
Hallo Fabio,<br>
<br>
<br>
> I use ITK with Python Wrap. I need to interface my Python code with a<br>
> Cython-wrapped C++ code that takes only numpy array as input and<br>
> returns numpy array as output.<br>
<br>
Cool. By the way, you may be interested in scikit-build [1], which is a good way to build Cython-wrapped C++ code. We are using it for the ITK and SimpleITK Python packages, and it has good Cython and CMake support.<br>
<br>
<br>
> Hence, I need to convert the Python itk images into numpy array to be<br>
> given as input to the wrapped C++ code, and then convert the numpy<br>
> array in output from the wrapped C++ code back into python itk images.<br>
><br>
><br>
><br>
> Question 1) How can I do that in an efficient way? I found some posts<br>
> on itk.PyBuffer but I could not find anywhere any reference on how to<br>
> install it on my itk wrap build.<br>
<br>
Yes, itk.PyBuffer works great for that. Please review a PR for some additional documentation:<br>
<br>
<a href="https://github.com/InsightSoftwareConsortium/ITKBridgeNumPy/pull/18" rel="noreferrer" target="_blank">https://github.com/InsightSoft<wbr>wareConsortium/ITKBridgeNumPy/<wbr>pull/18</a><br>
<br>
This has been available in ITK for a few releases as a Remote module, which can be enabled by setting<br>
<br>
Module_BridgeNumPy=ON<br>
<br>
in ITK's CMake configuration.<br>
<br>
<br>
Since ITK 4.11.0, it is easier to build since it does not require the NumPy headers.<br>
<br>
<br>
In current ITK Git master (to be 4.12.0) the module is enabled by default.<br>
<br>
<br>
Nightly ITK Python packages for ITK Git master are now being built:<br>
<br>
<a href="https://github.com/InsightSoftwareConsortium/ITKPythonPackage" rel="noreferrer" target="_blank">https://github.com/InsightSoft<wbr>wareConsortium/ITKPythonPackag<wbr>e</a><br>
<br>
macOS and Linux are available. Windows packages will be available over the coming weeks.<br>
<br>
<br>
<br>
> Question 2) The purpose of writing a part of my algorithm in C++ is to<br>
> speed up the code. If the conversion between python itk images and<br>
> numpy arrays is slow, I would lose all the speed gain obtained with the C++ implementation.<br>
> Are there better ways to deal with that?<br>
<br>
The newer versions ITKBridgeNumPy use a NumPy array view, which does not do any copies during the conversion, and it is very fast.<br>
<br>
<br>
HTH,<br>
Matt<br>
<br>
<br>
[1] <a href="http://scikit-build.org/" rel="noreferrer" target="_blank">http://scikit-build.org/</a><br>
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