From hwlee at dentium.com  Fri May  3 00:37:15 2019
From: hwlee at dentium.com (David)
Date: Thu, 2 May 2019 21:37:15 -0700 (MST)
Subject: [vtkusers] I cannot use Chinese Characters Directory and name in
 <vtkDICOMReader> reader
Message-ID: <1556858235243-0.post@n5.nabble.com>

I would like to use to read the Compression Dicom, so I use vtkDICOMReader
instead of <vtkDICOMImageReader>.

It was success for reading the Compression Dicom.

However, I cannot use Chinese Characters Directory and name in
<vtkDICOMReader> reader.

How can I use Chinese Characters Directory and name in <vtkDICOMReader>
reader?

Thank you for your attention.








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From david.gobbi at gmail.com  Fri May  3 07:51:46 2019
From: david.gobbi at gmail.com (David Gobbi)
Date: Fri, 3 May 2019 05:51:46 -0600
Subject: [vtkusers] I cannot use Chinese Characters Directory and name
 in <vtkDICOMReader> reader
In-Reply-To: <1556858235243-0.post@n5.nabble.com>
References: <1556858235243-0.post@n5.nabble.com>
Message-ID: <CANwS1=EORY-GTt-UvqcTnyxBsN1kDf3E6NbXMyqQSLts=JVhiA@mail.gmail.com>

The vtkDICOMReader always uses utf-8 for string encoding.

On Thu, May 2, 2019 at 10:37 PM David <hwlee at dentium.com> wrote:

> I would like to use to read the Compression Dicom, so I use vtkDICOMReader
> instead of <vtkDICOMImageReader>.
>
> It was success for reading the Compression Dicom.
>
> However, I cannot use Chinese Characters Directory and name in
> <vtkDICOMReader> reader.
>
> How can I use Chinese Characters Directory and name in <vtkDICOMReader>
> reader?
>
> Thank you for your attention.
>
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From lihouxing0710 at gmail.com  Sun May  5 02:38:49 2019
From: lihouxing0710 at gmail.com (Xing Li)
Date: Sun, 5 May 2019 14:38:49 +0800
Subject: [vtkusers] I cannot use Chinese Characters Directory and name
 in <vtkDICOMReader> reader
In-Reply-To: <CANwS1=EORY-GTt-UvqcTnyxBsN1kDf3E6NbXMyqQSLts=JVhiA@mail.gmail.com>
References: <1556858235243-0.post@n5.nabble.com>
 <CANwS1=EORY-GTt-UvqcTnyxBsN1kDf3E6NbXMyqQSLts=JVhiA@mail.gmail.com>
Message-ID: <CAFWHfKObenmTiNCzzTFjZaaFT=ge11UcA7znpWQSmmmDhF5NBQ@mail.gmail.com>

If you use Qt, qPrintable(QString ) can convert the string into utf-8

David Gobbi <david.gobbi at gmail.com> ?2019?5?3??? ??7:52???

> The vtkDICOMReader always uses utf-8 for string encoding.
>
> On Thu, May 2, 2019 at 10:37 PM David <hwlee at dentium.com> wrote:
>
>> I would like to use to read the Compression Dicom, so I use vtkDICOMReader
>> instead of <vtkDICOMImageReader>.
>>
>> It was success for reading the Compression Dicom.
>>
>> However, I cannot use Chinese Characters Directory and name in
>> <vtkDICOMReader> reader.
>>
>> How can I use Chinese Characters Directory and name in <vtkDICOMReader>
>> reader?
>>
>> Thank you for your attention.
>>
> _______________________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Please keep messages on-topic and check the VTK FAQ at:
> http://www.vtk.org/Wiki/VTK_FAQ
>
> Search the list archives at: http://markmail.org/search/?q=vtkusers
>
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From wenyalintw at gmail.com  Tue May  7 15:50:36 2019
From: wenyalintw at gmail.com (wenyalin)
Date: Tue, 7 May 2019 12:50:36 -0700 (MST)
Subject: [vtkusers] Can't pick property after changing display setting
Message-ID: <1557258636122-0.post@n5.nabble.com>

Hey guys, I'm a newbie in VTK. I got some display problem when trying to
change the style of displaying image.
I have a renderwindow and an observer to pick pixel when mouse hovering, the
observer setup is imitated from link below.
(https://vtk.org/Wiki/VTK/Examples/Cxx/Images/PickPixel2)

[CASE 1]
current display function is as below:
/* begin */
m_ImageViewer->SetInputData(image);
m_ImageViewer->UpdateDisplayExtent();
m_Renderer->ResetCamera();
m_ImageViewer->SetRenderWindow(RenderWindow);
RenderWindow->Render();
/* end */
and this is the result, which is great.
<http://vtk.1045678.n5.nabble.com/file/t342744/1.png> 

[CASE 2]
Afterward, I try to change the style of image by SetOpacity(0.5). (Actually,
I use <vtkLookupTable> and <vtkImageMapToColors>, but the SetOpacity
represent the same situation)
Than, I can't get the coordinate from observer anymore.
The Only line of code I added was
"m_ImageViewer->GetImageActor()->GetProperty()->SetOpacity(0.5);"
and this is the result, can't pick prop anymore. (the annotation at the
bottom-left)
<http://vtk.1045678.n5.nabble.com/file/t342744/2.png> 


I found out that in observer callback (exactly same as the example
PickPixel2), "this->Picker->GetPath()" always return NULL in [CASE 2], which
means I didn't pickup any prop with my mouse events.
The only change I make is setting opacity, how could this make any different
in prop-picking?

Any idea?
Thanks in advance for any help !



--
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From tavares at fe.up.pt  Wed May  8 09:52:32 2019
From: tavares at fe.up.pt (=?utf-8?Q?=22Jo=C3=A3o_Manuel_R=2E_S=2E_Tavares=22?=)
Date: Wed, 8 May 2019 14:52:32 +0100
Subject: [vtkusers] VipIMAGE 2019 Porto,
 Portugal - FINAL CALL FOR CONTRIBUTIONS
References: <197B5CBC-568E-4B7A-B89B-A8D95E6F2722@fe.up.pt>
Message-ID: <BAED35D9-32E4-4AD6-84AA-2039BBC2F47B@fe.up.pt>

-----------------------------------------------------------------------------------------------------------

VII ECCOMAS Thematic Conference VipIMAGE 2019
www.fe.up.pt/vipimage
October 16-18, 2019, Porto, Portugal
Chairs: Jo?o Manuel R. S. Tavares & Renato Natal Jorge, Universidade do Porto

-----------------------------------------------------------------------------------------------------------


Dear Colleague,

This is the final call for contributions to the International Conference VipIMAGE 2019 - VII ECCOMAS THEMATIC CONFERENCE ON COMPUTATIONAL VISION AND MEDICAL IMAGE PROCESSING (www.fe.up.pt/vipimage) to be held in October 16-18, 2019, in Axis Vermar Conference & Beach Hotel, Porto, Portugal.

Possible Topics (but not limited to)
- Signal and Image Processing
- Computational Vision
- Medical Imaging
- Physics of Medical Imaging
- Tracking and Analysis of Movement
- Simulation and Modeling
- Image Acquisition
- Industrial Applications
- Shape Reconstruction
- Segmentation, Matching, Simulation
- Data Interpolation, Registration, Acquisition and Compression
- 3D Vision
- Machine Learning, Deep Learning and Big Data
- Virtual Reality
- Visual Inspection
- Software Development for Image Processing and Analysis
- Computer Aided Diagnosis, Surgery, Therapy, and Treatment
- Computational Bioimaging and Visualization
- Telemedicine Systems and Applications

Invited Lecturers
- Aur?lio Campilho, Universidade do Porto, Portugal
- Danail Stoyanov, University College London, UK
- Daniela Iacoviello, Sapienza University of Rome, Italy
- Jo?o Paulo Papa, Universidade Estadual de S?o Paulo, Brazil
- Jos Vander Sloten, KU Leven, Belgium
- Wafa Skalli, Arts et M?tiers ParisTech, France

Thematic Sessions
Proposals to organize Thematic Sessions under the auspicious of VipIMAGE 2019 are welcome.
The proposals should be submitted by email to the conference co-chairs (tavares at fe.up.pt, rnatal at fe.up.pt).

Accepted Thematic Sessions
- Cardiovascular, Cerebrovascular and Orthopaedic diseases: Imaging and Modelling
- Advances and Imaging Challenges in Micro and Nanofluidics
- Intersection between Image Processing and Machine Learning in Biomedical Applications
- Direct Digital Fabrication in Medicine: from digital data to physical models 
- Computer Simulations and Visualization Applied to Tissue Engineering
- Parameterization of Reconstructed Organ Models
- Computational vision and image processing applied to Dentistry
- Network Neuroscience
- Applications of Ontologies for Medical Image Analysis and Computer-Assisted Interventions 

Publications
Proceedings: The proceedings book will be published by Springer under the book series "Lecture Notes in Computational Vision and Biomechanics" indexed by Elsevier Scopus.
Journal Publication: A dedicated special issue of the Taylor & Francis international journal "Computer Methods in Biomechanics and Biomedical Engineering: Imaging & Visualization" indexed in Scopus, DBLP and Clarivate Analytics Emerging Sources Index will be published with extended versions of the best works presented in the conference.
Springer Book: A book with invited works from the ones presented in the conference will be organized for publishing by Springer.

Important Dates
- Deadline for Extended Abstracts: May 31, 2019
- Authors Notification: June 15, 2019
- Deadline for Papers (non-mandatory): July 15, 2019

Submission
- Instructions for authors available at: https://paginas.fe.up.pt/~vipimage/nav/conference/instructions.html
- The contributions should be submitted using the conference management system at: http://conference.mercatura.pt/vipimage2019


We are looking forward to see you in Porto in October, 2019,
Jo?o Manuel R. S. Tavares
Renato Natal Jorge
(VipIMAGE 2019 co-chairs)


For further details, please, have a look in the conference website at: www.fe.up.pt/vipimage, the Facebook page at: www.facebook.com/ECCOMASVipIMAGE, or join the LinkedIn group at: www.linkedin.com/groups/4752820.




From esmeralda.ruiz at alma3d.com  Wed May  8 13:16:27 2019
From: esmeralda.ruiz at alma3d.com (zandarina)
Date: Wed, 8 May 2019 10:16:27 -0700 (MST)
Subject: [vtkusers] splinewidget with projection
In-Reply-To: <1481542208154-5741501.post@n5.nabble.com>
References: <1481542208154-5741501.post@n5.nabble.com>
Message-ID: <1557335787576-0.post@n5.nabble.com>

Dear all,

I have implemented the panoramic view but i also want to implement it as
this software you mention. that is, when we scroll we update the panoramic
image and the implementation is a bit slow. By now i am doing it with
vtkimagereslicer. For not getting lines when i apply a big thickness, i use
small divisions of the spline in terms of spacing so the image i get is
correct but the problem i need to get many slices in order of 500 and this
is slow. And the problem comes when i want to move the dental curve and
update the panoramic that it gets very slow. Any optimization to do that?.
Or any other way to compute the panoramic. I have made my own implementation
and i have also tried the code
https://www.paraview.org/Wiki/VTK/Examples/Cxx/Visualization/CurvedReformation
that it does exactly this but with this code, i get also the panoramic but
the speed is even worse.

Thanks



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From isalako1 at sheffield.ac.uk  Thu May  9 15:35:04 2019
From: isalako1 at sheffield.ac.uk (Idayat Salako)
Date: Thu, 9 May 2019 20:35:04 +0100
Subject: [vtkusers] create tetrahedral from a set of points using
 vtkDelaunay3D
Message-ID: <CAKzhZ9hpC8b42FrKDxykr11S+KdC5=x9Bqu6TOavGkt7p0ZB4g@mail.gmail.com>

Hi,
How do I create tetrahedral from a set of points using vtkDelaunay3D? This
is what I have come up with so far.

vtkDelaunay3D* getDelaunayTets; // create instance of vtkDelaunay3D
vtkPoints* points;
    points=vtkPoints::New(); // initialise points (online example - not
clear from doc)
    points->InsertNextPoint(0,0,1); // insert points (online example - not
sure if points r added)
    points->InsertNextPoint(0,0,0);
    points->InsertNextPoint(0,1,0);
    points->InsertNextPoint(1,0,0);
    points->InsertNextPoint(0.5,0.5,0.5);

vtkUnstructuredGrid* Mesh;  vtkIdType id; double x[3]; vtkIdList*
holeTetras;
getDelaunayTets->InsertPoint(Mesh, points, id, x, holeTetras);

I get an initialisation error for holeTetras and I am not sure how to
initialise holeTetras.

Thank you
Idayat Salako

***Whoever wakes up in the morning and is safe in his home, in good health
and has enough provision for the day, it is as if he has all the good
things of this world [HadithTirmidhi 2346]***
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From bing.jian at gmail.com  Thu May  9 19:38:24 2019
From: bing.jian at gmail.com (Bing Jian)
Date: Thu, 9 May 2019 16:38:24 -0700
Subject: [vtkusers] Extract color information per vertex
Message-ID: <CAHPmMT=hjW9smZtAWFZ+GUxn=ts_AOfdK_JFtm8soHV-+iqNwQ@mail.gmail.com>

Hi vtkusers,

I have a quick question about reading the color information stored in a ply
file.

The following code extracts the xyz coordinate of a given vertex, but how
to read the RGB value associated to each vertex?

vtkSmartPointer<vtkPLYReader> reader = vtkSmartPointer<vtkPLYReader>::New();
reader->SetFileName("input_with_color.ply");
reader->Update();

vtkSmartPointer<vtkPolyData> polyData = reader->GetOutput();
vtkSmartPointer<vtkPoints> vertices = polyData->GetPoints();
double xyz[3];
vertices->GetPoint(idx, xyz);

I guess we can use
polyData->GetPointData()->GetArray("???")
but not sure how to do that.  Would appreciate any pointers or examples!

Thanks,
Bing
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From marco.masciola at gmail.com  Sat May 11 13:44:38 2019
From: marco.masciola at gmail.com (Marco Masciola)
Date: Sat, 11 May 2019 11:44:38 -0600
Subject: [vtkusers] vtkRenderingFreeTypePython: ImportError: DLL load
 failed: A dynamic link library (DLL) initialization routine failed.
Message-ID: <CAMkQrV3BEVkeOuakEw7Oa17HK2gztmB-qdJvB4NKoNre6L-ftA@mail.gmail.com>

Hi VTK Users and Developers,

I recently installed VTK 8.2.0 with Python wrappings on my Windows machine,
and am finding an error when importing VTK with the error message below.
The errors seems to be related to DLL initialization errors on the
vtkRenderingFreeTypePython side. Has anyone encountered this before? Even
further below, I posted the relevant parts of my CMackCache related to
building the python wrappings. I'm on Windows 7 and compiling with Visual
Studio 7. My VTK is Qt enabled.

Cheers,

>>> import vtk
Traceback (most recent call last):
  File
"C:\vtk\bin\bin\Release\Lib\site-packages\vtkmodules\vtkRenderingFreeType.py",
line 5, in <module>
    from .vtkRenderingFreeTypePython import *
ImportError: DLL load failed: A dynamic link library (DLL) initialization
routine failed.

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "C:\vtk\bin\bin\Release\Lib\site-packages\vtk.py", line 32, in
<module>
    all_spec.loader.exec_module(all_m)
  File "C:\vtk\bin\bin\Release\Lib\site-packages\vtkmodules\all.py", line
26, in <module>
    from .vtkRenderingFreeType import *
  File
"C:\vtk\bin\bin\Release\Lib\site-packages\vtkmodules\vtkRenderingFreeType.py",
line 9, in <module>
    from vtkRenderingFreeTypePython import *
ImportError: DLL load failed: A dynamic link library (DLL) initialization
routine failed.



CMakeCache:

//Build examples.
BUILD_EXAMPLES:BOOL=ON
//Build with shared libraries.
BUILD_SHARED_LIBS:BOOL=ON
//Flags used by the C compiler during DEBUG builds.
CMAKE_C_FLAGS_DEBUG:STRING=/MTd /Zi /Ob0 /Od /RTC1
//Flags used by the C compiler during MINSIZEREL builds.
CMAKE_C_FLAGS_MINSIZEREL:STRING=/MT /O1 /Ob1 /DNDEBUG
//Flags used by the C compiler during RELEASE builds.
CMAKE_C_FLAGS_RELEASE:STRING=/MT /O2 /Ob2 /DNDEBUG
//Flags used by the C compiler during RELWITHDEBINFO builds.
CMAKE_C_FLAGS_RELWITHDEBINFO:STRING=/MT /Zi /O2 /Ob1 /DNDEBUG
//Request building vtkWebPython
Module_vtkWebPython:BOOL=OFF
//Request building vtkWrappingPythonCore
Module_vtkWrappingPythonCore:BOOL=ON
//Path to a library.
PYTHON_DEBUG_LIBRARY:FILEPATH=PYTHON_DEBUG_LIBRARY-NOTFOUND
//Path to a program.
PYTHON_EXECUTABLE:FILEPATH=C:/Users/marco/AppData/Local/Programs/Python/Python37/python.exe
//Path to a file.
PYTHON_INCLUDE_DIR:PATH=C:/Users/marco/AppData/Local/Programs/Python/Python37/include
//Path to a library.
PYTHON_LIBRARY:FILEPATH=C:/Users/marco/AppData/Local/Programs/Python/Python37/libs/python37.lib
//Wrap classes into the Python interpreted language.
VTKMY_WRAP_PYTHON:BOOL=ON
//Enable vtkpython and pvtkpython binaries
VTK_ENABLE_VTKPYTHON:BOOL=ON
//Python version to use
VTK_PYTHON_VERSION:STRING=3.7
//Should VTK Python wrapping be built?
VTK_WRAP_PYTHON:BOOL=ON
//Details about finding PythonInterp
FIND_PACKAGE_MESSAGE_DETAILS_PythonInterp:INTERNAL=[C:/Users/marco/AppData/Local/Programs/Python/Python37/python.exe][v3.7.3()]
//Details about finding PythonLibs
FIND_PACKAGE_MESSAGE_DETAILS_PythonLibs:INTERNAL=[C:/Users/marco/AppData/Local/Programs/Python/Python37/libs/python37.lib][C:/Users/marco/AppData/Local/Programs/Python/Python37/include][v()]
//ADVANCED property for variable: Module_vtkFiltersPython
Module_vtkFiltersPython-ADVANCED:INTERNAL=1
//Request building vtkFiltersPython
//ADVANCED property for variable: Module_vtkPython
Module_vtkPython-ADVANCED:INTERNAL=1
//Request building vtkPython
Module_vtkPython:INTERNAL=OFF
//ADVANCED property for variable: Module_vtkPythonContext2D
Module_vtkPythonContext2D-ADVANCED:INTERNAL=1
//Request building vtkPythonContext2D
Module_vtkPythonContext2D:INTERNAL=OFF
//ADVANCED property for variable: Module_vtkPythonInterpreter
Module_vtkPythonInterpreter-ADVANCED:INTERNAL=1
//Request building vtkPythonInterpreter
Module_vtkPythonInterpreter:INTERNAL=OFF
//ADVANCED property for variable: Module_vtkWebPython
Module_vtkWebPython-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_vtkWrappingPythonCore
Module_vtkWrappingPythonCore-ADVANCED:INTERNAL=1
//ADVANCED property for variable: Module_vtkfreetype
Module_vtkfreetype-ADVANCED:INTERNAL=1
//Request building vtkfreetype
Module_vtkfreetype:INTERNAL=OFF
//ADVANCED property for variable: PYTHON_DEBUG_LIBRARY
PYTHON_DEBUG_LIBRARY-ADVANCED:INTERNAL=1
//ADVANCED property for variable: PYTHON_EXECUTABLE
PYTHON_EXECUTABLE-ADVANCED:INTERNAL=1
//ADVANCED property for variable: PYTHON_INCLUDE_DIR
PYTHON_INCLUDE_DIR-ADVANCED:INTERNAL=1
//ADVANCED property for variable: PYTHON_LIBRARY
PYTHON_LIBRARY-ADVANCED:INTERNAL=1
//Directory where python modules will be built
VTK_BUILD_PYTHON_MODULES_DIR:INTERNAL=C:/vtk/bin/bin/$<CONFIG>/Lib/site-packages
//ADVANCED property for variable: VTK_ENABLE_VTKPYTHON
VTK_ENABLE_VTKPYTHON-ADVANCED:INTERNAL=1
//Directory where python modules will be installed
VTK_INSTALL_PYTHON_MODULES_DIR:INTERNAL=bin/Lib/site-packages
//STRINGS property for variable: VTK_PYTHON_VERSION
VTK_PYTHON_VERSION-STRINGS:INTERNAL=2;2.7;3;3.3;3.4;3.5;3.6;3.7;
//ADVANCED property for variable: VTK_USE_SYSTEM_FREETYPE
VTK_USE_SYSTEM_FREETYPE-ADVANCED:INTERNAL=1
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From andrew.slaughter at inl.gov  Thu May 16 00:36:27 2019
From: andrew.slaughter at inl.gov (Andrew E. Slaughter)
Date: Thu, 16 May 2019 04:36:27 +0000
Subject: [vtkusers] Color for 2D Mapper
Message-ID: <C027F883-B4A1-4A0A-AD55-37257507ED2A@inl.gov>

I am attempting to create a script (attached) that has two quads, one on top of the other, within a 2D mapper. I would like to color the quads based on a lookup table using the cell data, but cannot get the colors to show up. I would appreciate help getting this simple script working. I am using VTK 7.1 on MacOS.

Thanks,
Andrew

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From andrew.slaughter at inl.gov  Fri May 17 17:57:47 2019
From: andrew.slaughter at inl.gov (Andrew E. Slaughter)
Date: Fri, 17 May 2019 21:57:47 +0000
Subject: [vtkusers] Color for 2D Mapper
In-Reply-To: <C027F883-B4A1-4A0A-AD55-37257507ED2A@inl.gov>
References: <C027F883-B4A1-4A0A-AD55-37257507ED2A@inl.gov>
Message-ID: <ADD7EC00-4949-4A7B-8DB1-930399A9A37E@inl.gov>

I was able to get my example working by using the attached script, the trick was using SetScalarModeToUseCellFieldData rather than SetScalarModeToUseCellData, I don?t understand the difference but it works.

From: "Andrew E. Slaughter" <andrew.slaughter at inl.gov>
Date: Wednesday, May 15, 2019 at 10:36 PM
To: Cory Quammen via vtkusers <vtkusers at vtk.org>
Subject: Color for 2D Mapper

I am attempting to create a script (attached) that has two quads, one on top of the other, within a 2D mapper. I would like to color the quads based on a lookup table using the cell data, but cannot get the colors to show up. I would appreciate help getting this simple script working. I am using VTK 7.1 on MacOS.

Thanks,
Andrew

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From hwlee at dentium.com  Tue May 21 01:51:17 2019
From: hwlee at dentium.com (David)
Date: Mon, 20 May 2019 22:51:17 -0700 (MST)
Subject: [vtkusers] vtkmarchingcubes & SetValue for Teeth from CT
Message-ID: <1558417877097-0.post@n5.nabble.com>

Hello. I am trying autometically SetValue by using vtkmarchingcubes for Teeth
Modeling from CT.
Taking Dicom from several different Blend CT devivces is also Intensity
different, so is different each SetValue for Teeth Modeling.
I check histogram for each group of dicom and SetValue for Teeth Modeling.

Example) 
1. Mean:-502, Std: 552, Min: -1000, Max: 3000 => SetValue(0, 1800);
2. Mean:-485, Std: 641, Min: -1000, Max: 20816 => SetValue(0, 850);.
3. Mean:932, Std: 738, Min: 0, Max: 23459 => SetValue(0, 3500);
4. Mean:-373, Std: 761, Min: -1671, Max: 7042	=> SetValue(0, 2500);
5. Mean:-133, Std: 733, Min: 0, Max: 7000 =>  SetValue(0, 2700);
6. Mean:-483, Std: 586, Min: -1000, Max: 19157 => SetValue(0, 1000);
7. Mean:524, Std: 451, Min: 0, Max: 14810 => SetValue(0, 2700);
8. Mean:-506, Std: 598, Min: -1000, Max: 27237 => SetValue(0, 1500);
9. Mean:772, Std: 926, Min: 0, Max: 22748 => SetValue(0, 5000);
10. Mean:913, Std: 820, Min: 0, Max: 31543  => SetValue(0, 3400);

How can I Set autometically SetValue by using vtkmarchingcubes for Teeth
Modeling from CT?







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From sbucc at hotmail.com  Tue May 21 11:24:10 2019
From: sbucc at hotmail.com (sb)
Date: Tue, 21 May 2019 08:24:10 -0700 (MST)
Subject: [vtkusers] contour interpolation
Message-ID: <1558452250419-0.post@n5.nabble.com>

I'm completely new to vtk so bear with me if what I ask turns out to be
incredibly easy for the expert user. Believe me, I've searched everywhere
but I can't find a way to do what I need. So here's my problem:

I have a mesh, and I need to extract contours cutting it with planes at
regular intervals. I'm using vtkCutter + vtkStripper + vtkCleanPolyData to
obtain a list of points. So far so good, however I need these contours to be
resampled/interpolated so that each contour is returned as a fixed number of
points, equally spaced. Is there a way to do this in vtk: options to set on
vtkCutter, other filters that I can add?

I also have another question: on some meshes the contours run clockwise, on
others counter-clockwise, why? Of course I'm using the same planes, always
oriented in the direction of the positive X axis.

Thanks
---------------------------
my code:

vtkSmartPointer<vtkPolyData> intersection(vtkPlane& plane,
vtkSmartPointer<vtkPolyData> polydata)
{
    auto cutter = vtkSmartPointer<vtkCutter>::New();
    cutter->SetCutFunction(&plane);
    cutter->SetInputData(polydata);
    cutter->Update();

    auto cutStripper = vtkSmartPointer<vtkStripper>::New();
    cutStripper->SetInputConnection(cutter->GetOutputPort());
    cutStripper->Update();

    auto cleanPolyData = vtkSmartPointer<vtkCleanPolyData>::New();
    cleanPolyData->SetInputData(cutStripper->GetOutput());
    cleanPolyData->Update();

    vtkSmartPointer<vtkPolyData> contour = cleanPolyData->GetOutput();
    return contour;
}





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From epd at ilight.com  Wed May 22 17:34:11 2019
From: epd at ilight.com (Earl Duque)
Date: Wed, 22 May 2019 14:34:11 -0700
Subject: [vtkusers] Call For Papers: ISAV 2019 Workshop
Message-ID: <044001d510e6$1922c810$4b685830$@ilight.com>



 

ISAV 2019: In Situ Infrastructures for Enabling Extreme-Scale Analysis and
Visualization

 

Held in conjunction with SC19: The International Conference on High
Performance Computing, Networking, Storage and Analysis


ISAV 2019 --  <http://dav.lbl.gov/events/ISAV2019/>
http://dav.lbl.gov/events/ISAV2019/  


 

Full-day 9:00 AM - 5:30 PM Monday 18 Nov 2019


Workshop Theme


The considerable interest in the HPC community regarding in situ analysis
and visualization is  due to several factors. First is an I/O cost savings,
where data is analyzed/visualized while  being generated, without first
storing to a file system. Second is the potential for increased  accuracy,
where fine temporal sampling of transient analysis might expose some complex
behavior missed in coarse temporal sampling. Third is the ability to use all
available resources, CPUs and accelerators, in the computation of analysis
products. 

 

The workshop brings together researchers, developers and practitioners from
industry, academia, and government laboratories developing, applying, and
deploying in situ methods in extreme-scale, high performance computing. The
goal is to present research findings, lessons learned, and insights related
to developing and applying in situ methods and infrastructure across a range
of science and engineering applications in HPC environments; to discuss
topics like opportunities presented by new architectures, existing
infrastructure needs, requirements, and gaps, and experiences to foster and
enable in situ analysis and visualization; to serve as a ?center of gravity?
for researchers, practitioners, and users/consumers of in situ methods and
infrastructure in the HPC space.


Participation/Call for Papers and Oral Presentations


We invite two types of submissions to ISAV 2019: (1) short, 4-page
(+references) papers that present research results, that identify
opportunities or challenges, and that present case studies/best practices
for in situ methods/infrastructure in the areas of data management, analysis
and visualization; (2) lightning presentation submissions, which consist of
a 1- or 2-page (+references)  proposed presentation description, for a brief
oral presentation at the workshop. Short papers will appear in the workshop
proceedings and will be invited to give an oral presentation of 15 to 20
minutes; lightning round submissions that are invited to present at the
workshop will have author names and titles included as part of the
proceedings. Submissions of both types are welcome that fall within one or
more areas of interest, as follows: 

 

Areas of interest for ISAV, include, but are not limited to:


In situ data management and infrastructures

*	Current Systems: production quality, research prototypes
*	Opportunities
*	Gaps


System resources, hardware, and emerging architectures

*	Enabling Hardware
*	Hardware and architectures that provide opportunities for In situ
processing, such as burst buffers, staging computations on I/O nodes,
sharing cores within a node for both simulation and in situ processing


Methods and Algorithms

*	Best practices
*	Analysis: feature detection, statistical methods, temporal methods,
geometric and topological methods
*	Visualization: information visualization, scientific visualization,
time-varying methods
*	Data reduction/compression


Case Studies and Data Sources

*	Examples/case studies of solving a specific science challenge with
in situ methods/infrastructure.
*	In situ methods/systems applied to data from simulations and/or
experiments/observations


 

Simulation and Workflows

*	Integration: data modeling, software-engineering
*	Resilience: error detection, fault recovery; Workflows for
supporting complex in situ processing pipelines
*	Workflows for supporting complex in situ processing pipelines


Requirements, Usability

*	Reproducibility, provenance and metadata
*	Using in situ to enable rapid and flexible post-processing
exploration and analysis
*	Simplified access to extreme heterogeneous resources


Review Process


All submissions will undergo a peer-review process consisting of three
reviews by experts in the field, and evaluated according to relevance to the
workshop theme, technical soundness, creativity, originality, and
impactfulness of method/results. Lightning round submissions will be
evaluated primarily for relevance to the workshop.


Submission Process


Authors are invited to submit papers of at most 4 pages in PDF format,
excluding references, and lightning presentations of at most 2 pages in PDF
format, excluding references. Papers must be submitted in PDF format
(readable by Adobe Acrobat Reader 5.0 and higher) and formatted for 8.5? x
11? (U.S. Letter). Please use the sigconf configuration in the new combined
LaTeX template from ACM available at
<https://www.acm.org/publications/authors/submissions>
https://www.acm.org/publications/authors/submissions.

We believe that reproducible science is essential and that SC should be a
leader in this effort. As a consequence ISAV 2019 participates in the SC
reproducibility initiative and encourages submitters to include an appendix
with reproducibility information. While we will not disqualify a paper based
on information provided or not provided in this appendix, nor if the
appendix is not available, the availability and quality of an appendix will
receive added consideration when ranking a paper for the Best Paper Award.
For more information, see the
<https://dav.lbl.gov/events/ISAV2019/reproducibility-faq.html> ISAV 2019
reproducibility FAQ. 

Papers must be self-contained and provide the technical substance required
for the program committee to evaluate their contributions. Submitted papers
must be original work that has not appeared in and is not under
consideration for another conference or a journal. See the
<http://www.acm.org/publications/policies/> ACM Prior Publication Policy for
more details. Papers can be submitted at
<https://submissions.supercomputing.org/>
https://submissions.supercomputing.org.


Publication in proceedings, presentation at the workshop


All paper submissions that receive favorable reviews will be included as
part of the workshop proceedings, which will be published by the ACM, and
will appear in the ACM Digital Library as part of the International
Conference Proceedings Series ( <https://dl.acm.org/icps.cfm>
https://dl.acm.org/icps.cfm). Lightning round titles and author names will
also be included in the proceedings, but the lightning round 2-page
submission will not be included as part of the proceedings. 

 

Subject to the constraints of workshop length, some subset of the accepted
publications will be invited to give a brief oral presentation at the
workshop. The exact number of such presentations and their length will be
determined after the review process has been completed.


Timeline/Important Dates 

		

2 August 2019

Paper submission deadline


13  September 2019

Author notification


7 October 2019

Camera ready copy due


25 October 2019

Final program posted to ISAV web page


18 November 2019

ISAV 2019 workshop at SC19 


Committees and Chairs


*	General chair and co-chair:

*	Kenneth Moreland, Sandia National Laboratories, USA
*	Christoph Garth, Technische Universit?t Kaiserslautern,Germany

*	Program chair and co-chair: 

*	Wes Bethel, Lawrence Berkeley National Laboratory, USA
*	Bruno Raffin, INRIA, France

*	Publicity chair: 

*	Earl P.N. Duque, Intelligent Light, USA

*	Publications chair and co-chair: 

*	Nicola Ferrier, Argonne National Laboratory, USA; Silvio Rizzi,
Argonne National Laboratory, USA

*	Early Career Program Committee Chair: 

*	Hank Childs, University of Oregon, USA 

*	At-large chair: 

*	Patrick O?Leary, Kitware, Inc., USA


Organizing Committee


*       E. Wes Bethel, Lawrence Berkeley National Laboratory, USA


*       Earl P.N. Duque, Intelligent Light, USA


*       Nicola Ferrier, Argonne National Laboratory, USA


*	Kenneth Moreland, Sandia National Laboratories, USA


*       Patrick O?Leary, Kitware, Inc., USA


*       Gunther H. Weber, Lawrence Berkeley National Laboratory, USA


*       Matthew Wolf, Oak Ridge National Laboratory, USA





Program Committee


To be announced

Early Career Program Committee


To be announced


 

 

 

///////////////////////////////////////////////////////////////////////////

Earl P.N. Duque, PhD    
Vice President of Research and Development

Intelligent Light
301 Route 17N - 7th Floor
Rutherford, NJ 07070

PHN:  <tel:(201)%20460-4700> (201) 460-4700
FAX:  <tel:(201)%20460-0221> (201) 460-0221
EML:  <mailto:epd at ilight.com> epd at ilight.com

Advancing CFD, Advancing You
Intelligent Light leads CFD with the most advanced products and services
delivered by globally respected CFD and visualization practitioners.
FieldView products and services give you better results sooner. We exist for
the advancement of CFD - and you.
Visit our website at  <http://www.ilight.com/> http://www.ilight.com

///////////////////////////////////////////////////////////////////////////

This e-mail message from Intelligent Light is privileged and confidential
and thus protected from disclosure. If you are not the intended recipient,
please do not read, copy or use it or disclose it to others. If you have
received this message in error, please notify the sender immediately by
replying to this message and then delete all copies of it from your system.

 

 

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From f_u_7 at yahoo.com  Thu May 23 05:56:48 2019
From: f_u_7 at yahoo.com (lucky)
Date: Thu, 23 May 2019 02:56:48 -0700 (MST)
Subject: [vtkusers] How to perform a transformation to each slice
 individually?
Message-ID: <1558605408529-0.post@n5.nabble.com>

I have a series of Xray images of a cylindrical part. With that, I can create
and visualize the volume, but the data appear like a stack of slices from -Z
to Z.
What I want is to *rotate each slice image with an incremental angle along
Y-axis* to make the whole volume cylindrical. Something like the following
c++ code.

I have tried *vtkImageReslice* but it transforms the whole volume data not
each slice in an incremental way. How can I perform a transformation to each
slice individually?

Thanks,

Code:

void RotateEachSliceImage(VtkSliceImages& images)
{
	int countImages = images.size();

	double incrementalAngle = 360.0 / countImages;	// incremental angle for
each image

	double angle = incrementalAngle;

	for (int i = 1; i < countImages; i++)
	{
		images[i].rotate(angle, 1);	// along Y axis

		angle = angle + incrementalAngle;
	}
}

int main() 
{
	VtkSliceImages slices(2400);
	RotateEachSliceImage(slices);
	RenderToVtk(slices);

	return 0;
}




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From betoltd at gmail.com  Thu May 23 08:03:58 2019
From: betoltd at gmail.com (Alberto Ramos)
Date: Thu, 23 May 2019 14:03:58 +0200
Subject: [vtkusers] Copy/duplicate vtkActor
Message-ID: <CAMR8pHBVpBGi5eaEbBf8fY+euc8bMBpWY74aEe28tfhGUyE7ig@mail.gmail.com>

Hello.
In my VTK application I need to create complex 3D models, which I already
do. My problem originates in me wanting to make a copy of that actor. Right
now I have several vtkActors pointing to the same reference, so any
modification made to one of the copies in the vtkRenderer will change every
copy of that actor. Is there any way to copy/duplicate an actor, using the
already performed calculations to generate a vtkActor faster, and keep them
independent from each other?

Thanks and best regards,
Alberto
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From jpapp at craft-tech.com  Fri May 24 10:35:33 2019
From: jpapp at craft-tech.com (John L. Papp)
Date: Fri, 24 May 2019 10:35:33 -0400
Subject: [vtkusers] JOGL using vtkPanel on MacOS High Sierra
Message-ID: <aeecbe57-a458-f201-75e5-76da727557eb@craft-tech.com>

Hello All,

I've recently had to port a java wrapped VTK install to MacOSX High 
Sierra.? After extensive web searches, any Java JDK above 1.6 is missing 
some of the AWT libraries on which vtkPanel and such rely.? Instead, it 
was recommended to use JOGL.? I was able to compile VTK 8.2.0 with JOGL 
(I think) and the latest OpenJDK, which I think is version 12, but I can 
only go as high as 1.8 in the cmake input.? Anyway, the only interface 
is through vtkJoglPanelComponent and vtkJoglCanvasComponent.? There was 
talk about a vtkJoglPanel and vtkJoglCanvas that would wrap these other 
classes but these don't seem to be available in the 8.2.0 release.? I 
would like to avoid having to re-write my vtkPanel extended classes as 
I'm using a lot of the JPanel class functions that seem to be 
unavailable to the vtkJoglPanelComponent class. Is there a vtkJoglPanel 
class floating around or that just isn't the way things are done now.? 
Perhaps it's as simple as replacing the renderer stored in vtkPanel with 
one from vtkJogPanelComponent, judging from what is done in in the 
JoglConeRendering example.? But, I'm not sure if this is the best way to 
do it, especially if someone else has already figured it out.? I've been 
avoiding upgrading past VTK 4.x because of these issues but am now at a 
point where it can't be helped.

Thanks for any help,

John

-- 
**************************************************************
Dr. John Papp
Senior Research Scientist
CRAFT Tech.
6210 Kellers Church Road
Pipersville, PA 18947

Email:  jpapp at craft-tech.com
Phone:  (215) 766-1520
Fax  :  (215) 766-1524
Web  :  http://www.craft-tech.com

**************************************************************


From sebastien.jourdain at kitware.com  Fri May 24 11:02:01 2019
From: sebastien.jourdain at kitware.com (Sebastien Jourdain)
Date: Fri, 24 May 2019 09:02:01 -0600
Subject: [vtkusers] JOGL using vtkPanel on MacOS High Sierra
In-Reply-To: <aeecbe57-a458-f201-75e5-76da727557eb@craft-tech.com>
References: <aeecbe57-a458-f201-75e5-76da727557eb@craft-tech.com>
Message-ID: <CABObKxdxWGXAviQ2ZAq47inb53cLQsU_6dOVu-PUw5YXfn6byg@mail.gmail.com>

The PanelComponent is the "modern" implementation which allow to use
various backend (JOGL, swt, legacy) while providing a common API and much
more control on the event handling.

You might be able to fake your vtkPanel inheritance by creating an adapter
between the vtkJOGLPanelComponent and your custom rendering class.


On Fri, May 24, 2019 at 8:50 AM John L. Papp <jpapp at craft-tech.com> wrote:

> Hello All,
>
> I've recently had to port a java wrapped VTK install to MacOSX High
> Sierra.  After extensive web searches, any Java JDK above 1.6 is missing
> some of the AWT libraries on which vtkPanel and such rely.  Instead, it
> was recommended to use JOGL.  I was able to compile VTK 8.2.0 with JOGL
> (I think) and the latest OpenJDK, which I think is version 12, but I can
> only go as high as 1.8 in the cmake input.  Anyway, the only interface
> is through vtkJoglPanelComponent and vtkJoglCanvasComponent.  There was
> talk about a vtkJoglPanel and vtkJoglCanvas that would wrap these other
> classes but these don't seem to be available in the 8.2.0 release.  I
> would like to avoid having to re-write my vtkPanel extended classes as
> I'm using a lot of the JPanel class functions that seem to be
> unavailable to the vtkJoglPanelComponent class. Is there a vtkJoglPanel
> class floating around or that just isn't the way things are done now.
> Perhaps it's as simple as replacing the renderer stored in vtkPanel with
> one from vtkJogPanelComponent, judging from what is done in in the
> JoglConeRendering example.  But, I'm not sure if this is the best way to
> do it, especially if someone else has already figured it out.  I've been
> avoiding upgrading past VTK 4.x because of these issues but am now at a
> point where it can't be helped.
>
> Thanks for any help,
>
> John
>
> --
> **************************************************************
> Dr. John Papp
> Senior Research Scientist
> CRAFT Tech.
> 6210 Kellers Church Road
> Pipersville, PA 18947
>
> Email:  jpapp at craft-tech.com
> Phone:  (215) 766-1520
> Fax  :  (215) 766-1524
> Web  :  http://www.craft-tech.com
>
> **************************************************************
>
> _______________________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Please keep messages on-topic and check the VTK FAQ at:
> http://www.vtk.org/Wiki/VTK_FAQ
>
> Search the list archives at: http://markmail.org/search/?q=vtkusers
>
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From jyothir07 at gmail.com  Sat May 25 01:46:57 2019
From: jyothir07 at gmail.com (jyothir07)
Date: Fri, 24 May 2019 22:46:57 -0700 (MST)
Subject: [vtkusers] 3D Volume Registration
Message-ID: <1558763217424-0.post@n5.nabble.com>

Hello guys, Can any one please help me with 3D Volume Registration of dicom
images. I have been trying with other platforms and have little success.
Please guide me how to register volumes using ITK or VTK. If anyone could
provide a step by step procedure or code would be appreciated. Thanks in
advance.



--
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From lasso at queensu.ca  Sat May 25 09:36:54 2019
From: lasso at queensu.ca (Andras Lasso)
Date: Sat, 25 May 2019 13:36:54 +0000
Subject: [vtkusers] 3D Volume Registration
In-Reply-To: <1558763217424-0.post@n5.nabble.com>
References: <1558763217424-0.post@n5.nabble.com>
Message-ID: <51d0f456-1046-41bf-a859-2789fc9fd938@queensu.ca>

VTK only has landmark-based registration (you need to specify the landmarks manually). For intensity-based automatic registration, you may use Elastix, ITK, or other libraries.

Andras
________________________________
From: jyothir07 <jyothir07 at gmail.com>
Sent: Saturday, May 25, 2019 1:47 AM
To: vtkusers at vtk.org
Subject: [vtkusers] 3D Volume Registration

Hello guys, Can any one please help me with 3D Volume Registration of dicom
images. I have been trying with other platforms and have little success.
Please guide me how to register volumes using ITK or VTK. If anyone could
provide a step by step procedure or code would be appreciated. Thanks in
advance.



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From srbn.ghosh99 at gmail.com  Tue May 28 16:22:13 2019
From: srbn.ghosh99 at gmail.com (Shrabani Ghosh)
Date: Tue, 28 May 2019 13:22:13 -0700 (MST)
Subject: [vtkusers] World Coordinates of the vtkpolydata
Message-ID: <1559074933113-0.post@n5.nabble.com>

I have to register a mesh and a volume. So  I need to see that their world
coordinates are same or not because when I load I can see they are not
inside the same frame. How to change their world coordinate with the same
value. 

<http://vtk.1045678.n5.nabble.com/file/t342437/image927.png> 



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