Re: [Paraview] OpenFoam reader native built-in or plugin version differences

2012-07-20 Thread Takuya OSHIMA
The SVN version supports 3.14.1 (the wiki page is outdated) and loads
slightly newer OpenFOAM meshes.

Takuya OSHIMA, Ph.D.
Faculty of Engineering, Niigata University
8050 Ikarashi-Ninocho, Nishi-ku, Niigata, 950-2181, JAPAN

From: Ian Curington i...@acm.org
Subject: [Paraview] OpenFoam reader native built-in or plugin version 
differences
Date: Wed, 18 Jul 2012 13:45:03 +0100
 Dear ParaView  OpenFoam users:
 
 http://openfoamwiki.net/index.php/Contrib_Parallelized_Native_OpenFOAM_Reader_for_ParaView
 
 current SVN source is configured as a plugin, has extra buttons (Watch, 
 Rescale),
 however only mentions working with ParaView 3.10/11.
 
 Meanwhile, ParaView 3.14.1 ( current GIT) has built-in OpenFoam reader 
 (without Watch, Rescale).
 
 So, which one is most up to date? Which one loads the most recent OpenFoam 
 meshes?
 Is the plugin ported to 3.14.1?
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[Paraview] Q-criterion still wrong ?

2012-07-20 Thread Aurélien Marsan
Good morning,

I have just found the following bug report about a mistake in the
Q-criterion formula.
http://paraview.org/Bug/view.php?id=12858
that is now closed.

However, the 1/2 factor may still be missing.
In vtkGradientFilter.cxx, in the VTK/Grahpics directory, on the line 65, t1
should be divided by 2. (Paraview 3.14.1)

Should I re-open the bug report ?

With best regards,

Aurélien
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[Paraview] Render own vtkpoints, vtkpolydata, ...

2012-07-20 Thread Farid Dshabarow
I wrote a plugin (custom gui) in Paraview and am able to compute my data
with my own created libraries.
The problem now is that I want to visualize this data (vtkpolydata) in
paraview and I do not know which class
and which functions to use.
I probably need to access the view window and transfer data there, but does
anybody know how to do it?

Best regards
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[Paraview] producing uniform velocity vector?

2012-07-20 Thread Pei-Ying Hsieh
Dear Paraview experts,

I am wondering how I can produce uniform velocity vector of the flow field 
using Glyph.  When I unchecked the mask points, paraview plots vector at ALL 
points.  This is way too much for my case.  I would like to reduce the number 
of vectors.  However, if I selected the Mask Points, then, some area has lots 
of vector, while some other areas have almost NO vector plotted.  I am looking 
for plotting the vectors in a uniform fashion across the whole flow domain.  
I am wondering how I can achieve this.  Suggestions will be highly appreciated.

Pei-Ying
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Re: [Paraview] producing uniform velocity vector?

2012-07-20 Thread David E DeMarle
Apply resample with data set, with then input port being your data and
the source port being an appropriately sized and place wavelet. Glyph
the output of that.

David E DeMarle
Kitware, Inc.
RD Engineer
21 Corporate Drive
Clifton Park, NY 12065-8662
Phone: 518-881-4909


On Fri, Jul 20, 2012 at 10:47 AM, Pei-Ying Hsieh phsieh2...@yahoo.com wrote:
 Dear Paraview experts,

 I am wondering how I can produce uniform velocity vector of the flow field
 using Glyph.  When I unchecked the mask points, paraview plots vector at
 ALL points.  This is way too much for my case.  I would like to reduce the
 number of vectors.  However, if I selected the Mask Points, then, some
 area has lots of vector, while some other areas have almost NO vector
 plotted.  I am looking for plotting the vectors in a uniform fashion
 across the whole flow domain.  I am wondering how I can achieve this.
 Suggestions will be highly appreciated.

 Pei-Ying

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Re: [Paraview] Data directory in pvsm files

2012-07-20 Thread Ian Curington
Hello Utkarsh, Mohamad,

Note we have supplied a working patch at:
http://www.paraview.org/Bug/view.php?id=13092

which   includes   arbitrary   environment  variable  support in pvsm paths:

 where environment can be reference using syntax of
 %VAR_NAME%, ${VAR_NAME} and $VAR_NAME. In the latest case ($VAR_NAME), 
VAR_NAME must be
 from [a-zA-Z0-9_-]+ language.

so full absolute paths can be replaced with:

Property name=FileName id=2875.FileName number_of_elements=1
Element  index=0 value=${MY_DATA}/interesting_result.vtk/

We are using it in deployed production projects.

-Ian

Wednesday, July 18, 2012, 9:32:20 PM, you wrote:

 It's not possible currently, but I think we should provide some clean
 solution for the next release. Mind reporting  a feature request on
 the bug tracker (can't remember if there's on already)?

 Utkarsh

 On Tue, Jul 17, 2012 at 4:06 AM, Mohamad M. Nasr-Azadani
 mmn...@gmail.com wrote:
 Hi,

 I have a simple question.
 Is it possible to assign an environment variable to define data directory in
 pvsm files?
 As I save a pvsm file, I see that paraview uses the complete directory
 address to add files to the pvsm file.
 I was wondering if there is a way to define that?

 Or, an alternative question is, is there anyway for paraview just to write
 the file names (and not the corresponding full directory)?
 That way, we can run the pvsm file in any directory as long as all the data
 files are in the current directory where the pvsm file is stored.

 Thanks,
 Mohamad



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-- 
Best regards,
 Ianmailto:i...@acm.org

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Re: [Paraview] ParaView thinks that it does not have a wind blade reader

2012-07-20 Thread David E DeMarle
Thanks.

In today's git master it now sits in VTK/IO/Parallel/vtkWindbladeReader.

The serial version should go in VTK/IO/Geometry.

The MPI version should go in a new module VTK/IO/MPIParallel.
(VTK/IO/Parallel depends only on vtkSocketController now and should
not depend on vtkMPIController).

Finally when that is done we can remove the flag in paraview's xml
that prevents it from being used in serial.

David E DeMarle
Kitware, Inc.
RD Engineer
21 Corporate Drive
Clifton Park, NY 12065-8662
Phone: 518-881-4909


On Thu, Jul 19, 2012 at 7:08 PM, Sohail Shafii sohailsha...@yahoo.com wrote:
 Well it seems like #1 and #2 can be solved by writing a new parallel wind
 blade reader class. I had similar experience by creating distributed
 versions of class that I created in other vtk directories. The normal wind
 blade reader would have no parallel calls, which would address #1.

 What I find interesting is that in your directories, the wind blade reader
 is located in VTK/IO/Parallel. For the ParaView snapshot that I downloaded,
 as well as the 3.14 source, it's still in VTK/Parallel.  No Parallel folder
 in VTK/IO. Is this a recent change?

 So maybe the ideal folder layout would be:

 VTK/IO/WindBladeReader.*

 VTK/IO/Parallel/DistributedWindBladeReader.*

 I can make changes to the WindBladeReader to remove the MPI-IO calls and
 make a distributed wind blade reader class in case you want to add them to
 the repository. The one template I have for the parallel/serial split is the
 vtkStreamTracer and its distributed counterparts so I can use those as a
 guide.  If you have better recommendations please let me know.

 Sohail

 
 From: David E DeMarle dave.dema...@kitware.com
 To: Sohail Shafii sohailsha...@yahoo.com
 Cc: Andy Bauer andy.ba...@kitware.com; migic...@gmail.com
 migic...@gmail.com; paraview@paraview.org paraview@paraview.org;
 Woodring, Jonathan L woodr...@lanl.gov
 Sent: Thursday, July 19, 2012 3:20 PM

 Subject: Re: [Paraview] ParaView thinks that it does not have a wind blade
 reader

 Two issues need to be fixed.
 1) that behavior in 3.14 is there because of this fix which we had to
 rush in just before the 3.14 release.

 Committer: Utkarsh Ayachit utkarsh.ayac...@kitware.com  2012-02-08
 17:12:18
 Parent: e401d569f6e54c49c3497852463f6b13a01da8b6 (Update version after
 3.14.0-RC1 tag.)
 Child:  99fdb1aeb5997c29b43393f45a478c4b53a23109 (Merge topic
 'fix_windblade_segfault')
 Branches: many (31)
 Follows: v3.14.0-RC1
 Precedes: v3.14.0-RC2

 Fix segfault with ParaView built with MPI when opening *.vtr files.

 The problem was that vtkWindBlade reader was getting created to test
 CanReadFile and that would cause segfault unless MPI was initialized.

 Solved the problem by added support to vtkSMReaderFactory to respect the
 ProcessSupport flag on SourceProxy and change windblade reader XML
 to say that
 it only works in parallel.

 In other words, Windblade reader's Constructor should not take it upon
 itself to initialize MPI.

 Once that is fixed, we get to issue 2 before paraview 4.0

 2) VTK's new modularization has the rule that no module can behave
 differently with parallel (or most other cmake config options) turned
 configured on or off. This is so because it makes it very hard to
 package VTK when the libs behave differently in different situations.

 Ie, we can't have any more
 #ifdef VTK_USE_MPI
 do something
 #else
 do something different
 #endif
 in VTK classes.

 Now if we want a class to behave differently when MPI is turned on or
 off we have to make a serial only version in a non MPI dependent
 module and a subclass of that in an MPI dependent module.

 David E DeMarle
 Kitware, Inc.
 RD Engineer
 21 Corporate Drive
 Clifton Park, NY 12065-8662
 Phone: 518-881-4909


 On Thu, Jul 19, 2012 at 3:52 PM, Sohail Shafii sohailsha...@yahoo.com
 wrote:
 When running serially, vtkSMReaderFactory::CanReadFile sees that the
 session
 has a single process.  As such, on line 660 it realizes that the source
 proxy's process support (in this case the source is a vtkWindBladeReader
 proxy) is multiple processes, which causes a return of false from that
 function.  This makes ParaView think that the wind blade reader can't read
 a
 .wind file in serial.  According to Andy, the reader works find in
 parallel.

 I assume that a fix for this is pretty trivial? It never did this before
 in
 previous versions of ParaView and I think that the wind blade reader code
 has remained mostly the same. Andy mentioned some details in person when
 he
 was talking with Jon but at that time I didn't know as much as I do now.
 There is a mention below about enabling the filter in serial and parallel
 --
 is this done in a xml file?

 Sohail

 
 From: David E DeMarle dave.dema...@kitware.com
 To: Sohail Shafii sohailsha...@yahoo.com
 Cc: Andy Bauer andy.ba...@kitware.com; migic...@gmail.com
 migic...@gmail.com; 

Re: [Paraview] producing uniform velocity vector?

2012-07-20 Thread Pei-Ying Hsieh
Hi, David,
 
Thanks for the reply!
 
When I applied Resample with Dataset, Paraview popped up an windows, showing 
available input port and the dataset I have.  It is not clear to me about what 
to do with the source port.  How do I size and place wavelet?  Do I need to do 
this first before I apply resample with dataset?
 
Pei-Ying



From: David E DeMarle dave.dema...@kitware.com
To: Pei-Ying Hsieh phsieh2...@yahoo.com 
Cc: paraview paraview@paraview.org 
Sent: Friday, July 20, 2012 11:13 AM
Subject: Re: [Paraview] producing uniform velocity vector?

Apply resample with data set, with then input port being your data and
the source port being an appropriately sized and place wavelet. Glyph
the output of that.

David E DeMarle
Kitware, Inc.
RD Engineer
21 Corporate Drive
Clifton Park, NY 12065-8662
Phone: 518-881-4909


On Fri, Jul 20, 2012 at 10:47 AM, Pei-Ying Hsieh phsieh2...@yahoo.com wrote:
 Dear Paraview experts,

 I am wondering how I can produce uniform velocity vector of the flow field
 using Glyph.  When I unchecked the mask points, paraview plots vector at
 ALL points.  This is way too much for my case.  I would like to reduce the
 number of vectors.  However, if I selected the Mask Points, then, some
 area has lots of vector, while some other areas have almost NO vector
 plotted.  I am looking for plotting the vectors in a uniform fashion
 across the whole flow domain.  I am wondering how I can achieve this.
 Suggestions will be highly appreciated.

 Pei-Ying

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Re: [Paraview] producing uniform velocity vector?

2012-07-20 Thread David E DeMarle
On Fri, Jul 20, 2012 at 1:25 PM, Pei-Ying Hsieh phsieh2...@yahoo.com wrote:
 Hi, David,

 Thanks for the reply!

Welcome.

 about what to do with the source port.  How do I size and place wavelet?

The extent parameters of the wavelet itself to choose number of
samples in x,y,z, and transform filter to move and scale it to be
co-located with the other data set.

 Do
 I need to do this first before I apply resample with dataset?


Ideally, but you can change it afterward.
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Re: [Paraview] Question on Multiple Ports in Custom Reader (repost from developer list)

2012-07-20 Thread Peter Schmitt
Hi Josh,

On Thu, Jul 12, 2012 at 10:51 AM, Joshua Murphy
joshua.mur...@lasp.colorado.edu wrote:

 Here is a version of my generic reader that will build a non-time series
 version and a time series version. This way you can observe the behavior.
 A file is not read in the reader, but it generates sample data on its own...
 just select any txt file to test. (as noted in previous emails, the
 information objects are not provided properly to requestInformation and
 requestData when using the time series version)...

It seems that vtkFileSeriesReader does not support multiple output
ports.  Quoting Utkarsh from
http://www.paraview.org/pipermail/paraview/2011-December/023494.html

 vtkFileSeriesReader cannot support multiple output ports. Number of
 output ports has to be defined in the constructor of a class. Since
 the internal reader to use is not set until much later,
 vtkFileSeriesReader cannot report but 1 output port in the construtor
 and that cannot be changed afterwords.

 Maybe you can try supclassing the vtkFileSeriesReader to add support
 for that, but I'm not sure how much effort would it be to support
 requests from multiple output ports. Alternatively, you may just want
 to implemented file-series support in your reader.

Does anyone have a good example of file-series support in a reader
other than vtkFileSeriesReader documented here
http://www.paraview.org/Wiki/Animating_legacy_VTK_file_series#Making_custom_readers_work_with_file_series
?

Cheers,
Pete
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Re: [Paraview] Q-criterion still wrong ?

2012-07-20 Thread Andy Bauer
Thanks for finding this.  I have a fix in gerrit at
http://review.source.kitware.com/#/t/957/. It should make it into VTK and
ParaView shortly.

Andy

On Fri, Jul 20, 2012 at 8:53 AM, Aurélien Marsan aur.mar...@gmail.comwrote:

 Good morning,

 I have just found the following bug report about a mistake in the
 Q-criterion formula.
 http://paraview.org/Bug/view.php?id=12858
 that is now closed.

 However, the 1/2 factor may still be missing.
 In vtkGradientFilter.cxx, in the VTK/Grahpics directory, on the line 65,
 t1 should be divided by 2. (Paraview 3.14.1)

 Should I re-open the bug report ?

 With best regards,

 Aurélien

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Re: [Paraview] [EXTERNAL] ParaView looking for MPI when it shouldn't.

2012-07-20 Thread Utkarsh Ayachit
FYI,

I've pushed a fix for this to VTK : http://review.source.kitware.com/#/t/912/
It will make it into ParaView soon.

Utkarsh

On Thu, Jul 5, 2012 at 4:26 PM, Scott, W Alan wasc...@sandia.gov wrote:
 Correct.  I should have written up a bug before, but will do so now.



 Alan



 From: Andrew Maclean [mailto:andrew.amacl...@gmail.com]
 Sent: Thursday, July 05, 2012 5:24 PM
 To: Scott, W Alan
 Cc: paraview@paraview.org
 Subject: Re: [EXTERNAL] [Paraview] ParaView looking for MPI when it
 shouldn't.



 Thanks, Scott,



 Yes, that does the trick. I guess this is not being seen on the dashboard
 because those machines all have MPI running.

 So there is a need to look at the CMakeLists.txt files for examples and
 testing to make sure that if MPI is excluded then those examples/tests need
 to be excluded.



 Thanks

 Andrew

 On Fri, Jul 6, 2012 at 9:11 AM, Scott, W Alan wasc...@sandia.gov wrote:

 I had the same issue.  If I remember correctly, I “think” the solution was
 to turn off BUILD_EXAMPLES and BUILD_TESTING.



 Alan



 From: paraview-boun...@paraview.org [mailto:paraview-boun...@paraview.org]
 On Behalf Of Andrew Maclean
 Sent: Thursday, July 05, 2012 5:08 PM
 To: paraview@paraview.org
 Subject: [EXTERNAL] [Paraview] ParaView looking for MPI when it shouldn't.



 Hi All,

 I am building ParaView from the Git repository and for some reason it is
 looking for MPI even though I have PARAVIEW_USE_MPI turned off.

 I can't see any other setting that is forcing MPI to be turned on.



 Is there something I am missing or is there an error in the configuration
 files?



 My output is:

 ...

 - Filter ZLIB is ON

 -- Could NOT find MPI_C (missing:  MPI_C_LIBRARIES MPI_C_INCLUDE_PATH)

 -- Could NOT find MPI_CXX (missing:  MPI_CXX_LIBRARIES MPI_CXX_INCLUDE_PATH)

 CMake Error at VTK/Parallel/MPI/CMakeLists.txt:35 (message):

   MPIEXEC was empty.





 -- Configuring incomplete, errors occurred!

 make: *** [cmake_check_build_system] Error 1



 Regards



 --
 ___
 Andrew J. P. Maclean

 ___





 --
 ___
 Andrew J. P. Maclean

 ___


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Re: [Paraview] [EXTERNAL] ParaView looking for MPI when it shouldn't.

2012-07-20 Thread Andrew Maclean
Thanks!

Sent from an Android tablet.
On Jul 21, 2012 6:10 AM, Utkarsh Ayachit utkarsh.ayac...@kitware.com
wrote:

 FYI,

 I've pushed a fix for this to VTK :
 http://review.source.kitware.com/#/t/912/
 It will make it into ParaView soon.

 Utkarsh

 On Thu, Jul 5, 2012 at 4:26 PM, Scott, W Alan wasc...@sandia.gov wrote:
  Correct.  I should have written up a bug before, but will do so now.
 
 
 
  Alan
 
 
 
  From: Andrew Maclean [mailto:andrew.amacl...@gmail.com]
  Sent: Thursday, July 05, 2012 5:24 PM
  To: Scott, W Alan
  Cc: paraview@paraview.org
  Subject: Re: [EXTERNAL] [Paraview] ParaView looking for MPI when it
  shouldn't.
 
 
 
  Thanks, Scott,
 
 
 
  Yes, that does the trick. I guess this is not being seen on the dashboard
  because those machines all have MPI running.
 
  So there is a need to look at the CMakeLists.txt files for examples and
  testing to make sure that if MPI is excluded then those examples/tests
 need
  to be excluded.
 
 
 
  Thanks
 
  Andrew
 
  On Fri, Jul 6, 2012 at 9:11 AM, Scott, W Alan wasc...@sandia.gov
 wrote:
 
  I had the same issue.  If I remember correctly, I “think” the solution
 was
  to turn off BUILD_EXAMPLES and BUILD_TESTING.
 
 
 
  Alan
 
 
 
  From: paraview-boun...@paraview.org [mailto:
 paraview-boun...@paraview.org]
  On Behalf Of Andrew Maclean
  Sent: Thursday, July 05, 2012 5:08 PM
  To: paraview@paraview.org
  Subject: [EXTERNAL] [Paraview] ParaView looking for MPI when it
 shouldn't.
 
 
 
  Hi All,
 
  I am building ParaView from the Git repository and for some reason it is
  looking for MPI even though I have PARAVIEW_USE_MPI turned off.
 
  I can't see any other setting that is forcing MPI to be turned on.
 
 
 
  Is there something I am missing or is there an error in the configuration
  files?
 
 
 
  My output is:
 
  ...
 
  - Filter ZLIB is ON
 
  -- Could NOT find MPI_C (missing:  MPI_C_LIBRARIES MPI_C_INCLUDE_PATH)
 
  -- Could NOT find MPI_CXX (missing:  MPI_CXX_LIBRARIES
 MPI_CXX_INCLUDE_PATH)
 
  CMake Error at VTK/Parallel/MPI/CMakeLists.txt:35 (message):
 
MPIEXEC was empty.
 
 
 
 
 
  -- Configuring incomplete, errors occurred!
 
  make: *** [cmake_check_build_system] Error 1
 
 
 
  Regards
 
 
 
  --
  ___
  Andrew J. P. Maclean
 
  ___
 
 
 
 
 
  --
  ___
  Andrew J. P. Maclean
 
  ___
 
 
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[Paraview] visualizing a material in paraview

2012-07-20 Thread Celia Bremer


Hello,

I'm new to Paraview. I have 2 questions about visualizing an atomic material 
from a LAMMPS simulation.

1. I got the atom coordinates in from LAMMPS into Paraview using Pizza.py. When 
I just import the file, I can look at it as-is using point representation. To 
make it look more like atoms, I can also use the glyphs filter on the input 
file. But! some of the points end up outside the spheres. My question is, why 
are there points that don't turn into spheres? How does PV decide what turns 
into a glyph and what doesn't?

2. What I'd like to do next is to see the pore space - i.e., everything that's 
in my simulation box that's outside the glyphs. Is there already a filter for 
that? I thought I might be able to make a box that's the same size as my 
simulation box and intersect it with the glyphs object, but I can't figure out 
how to do that.

Thank you!

Celia  
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Re: [Paraview] visualizing a material in paraview

2012-07-20 Thread David E DeMarle
1) Look at the bottom of the glyph filter's properties tab. Max number
of points and random mode says pick 5000 points at random and only
glyph those. If turning that off makes paraview slow consider the
point sprite or manta plugins.

2) Use the gaussian resampling filter to push the values onto a
regular grid and then isocontour that.

David E DeMarle
Kitware, Inc.
RD Engineer
21 Corporate Drive
Clifton Park, NY 12065-8662
Phone: 518-881-4909


On Fri, Jul 20, 2012 at 5:44 PM, Celia Bremer fuw...@hotmail.com wrote:


 Hello,

 I'm new to Paraview. I have 2 questions about visualizing an atomic material 
 from a LAMMPS simulation.

 1. I got the atom coordinates in from LAMMPS into Paraview using Pizza.py. 
 When I just import the file, I can look at it as-is using point 
 representation. To make it look more like atoms, I can also use the glyphs 
 filter on the input file. But! some of the points end up outside the spheres. 
 My question is, why are there points that don't turn into spheres? How does 
 PV decide what turns into a glyph and what doesn't?

 2. What I'd like to do next is to see the pore space - i.e., everything 
 that's in my simulation box that's outside the glyphs. Is there already a 
 filter for that? I thought I might be able to make a box that's the same size 
 as my simulation box and intersect it with the glyphs object, but I can't 
 figure out how to do that.

 Thank you!

 Celia
 ___
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 http://paraview.org/Wiki/ParaView

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 http://www.paraview.org/mailman/listinfo/paraview
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