Re: [Paraview] PV client-server: browsing remote files
Sebastien and Utkarsh, Thanks for both of your suggestions. I have now looked at them and they both look pretty good to me. I'll practice with these solutions and see which one I like best. Kind Regards, Robert -- Science personalities series: calculus and charity http://en.wikipedia.org/wiki/Maria_Gaetana_Agnesi ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: https://paraview.org/mailman/listinfo/paraview
Re: [Paraview] PV client-server: browsing remote files
Hi,
I will bump my own post from a month back (see below) and just will answer the
question in case anyone else was looking for something similar. I haven't found
a way to remotely navigate the file system through ParaView Python API objects,
but of course there are other Python packages which can achieve that. I used
paramiko. Below is my minimal example.
from paraview.simple import LegacyVTKReader, RenameSource, Connect
from paramiko import SSHClient, AutoAddPolicy
'''
This script extracts the output of a remote ls command with to feed into
a LegacyVTKReader. The main use is it to make a collection of VTK files
into a time sequence inside PV.
'''
# Inputs:
host = 'remote.host.com'
port = 22
username = 'me'
key_filename = '/path/to/private/key'
pvhost = 'localhost'# I typically run pvserver through an ssh tunnel so
pvport = 7 # these are the parameters for local port forward
data_dir = '/path/to/data/on/remote'
# SSH part
# to get a list of files to open
client = SSHClient()
client.set_missing_host_key_policy(AutoAddPolicy())
client.connect(
host, port=port,
username=username,
key_filename=key_filename)
stdin, stdout, stderr = client.exec_command(
'ls -1 {0}'.format(data_dir))
lslines = stdout.readlines()
client.close()
# ParaView part
Connect('localhost', 7)
reader = LegacyVTKReader(FileNames=[
'data/{0}'.format(l.strip()) for l in lslines])
RenameSource('source', reader)
Hope this helps someone!
Robert
On 12/01/17 at 07:18pm, Robert Sawko wrote:
> Dear ParaViewers,
>
>
> I am trying to use Python shell in Client-Server mode, but I am running into
> some difficulties. How can I actually browse the remote directories. I tried
> to use the `os` module, but that obviously ends up being all local. Here's a
> minimal example of what I am trying to achieve.
>
>
> from paraview.simple import Connect, LegacyVTKReader
> from os import listdir
>
> Connect('my_server', port)
> location = '/my/remote/location/'
>
> file_names = listdir(location).sort()
> reader = LegacyVTKReader(FileNames=file_names)
>
>
> Please let me know if it's at all possible to query the directory on the
> remote
> side through an established connection.
>
> Many thanks,
> Robert
> --
> Seems like the famous poem of turbulence comes from Jonathan Swift
> http://en.wikipedia.org/wiki/The_Siphonaptera
--
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[Paraview] PV client-server: browsing remote files
Dear ParaViewers,
I am trying to use Python shell in Client-Server mode, but I am running into
some difficulties. How can I actually browse the remote directories. I tried
to use the `os` module, but that obviously ends up being all local. Here's a
minimal example of what I am trying to achieve.
from paraview.simple import Connect, LegacyVTKReader
from os import listdir
Connect('my_server', port)
location = '/my/remote/location/'
file_names = listdir(location).sort()
reader = LegacyVTKReader(FileNames=file_names)
Please let me know if it's at all possible to query the directory on the remote
side through an established connection.
Many thanks,
Robert
--
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Re: [Paraview] Remote rendering through reverse SSH breaks with a GLX error
Utkarsh, Again, thanks again for the comment and sorry for missing the email. I am checking my filter rules as this didn't get through to my inbox. Your insight was quite right: it's all down to drivers. I've been working on PV with EGL since then and I can get it all work under Ubuntu POWER8 NVIDIA driver but not under RHEL. There seems to be a packaging problem in RHEL where presumably an older or flawed version of EGL is shipped. I've been promised a fix soon so I am waiting for this. I've got access to two clusters with K80s and P100s and my intention is to run EGL enabled PV on both of them. X-less config is ideal as I could make any node act as a PV server. I'll keep you posted. Robert -- P-hacking again... https://www.youtube.com/watch?v=42QuXLucH3Q Sorry, but I think p-values are important. ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
Re: [Paraview] Python tracing doesn't work for opacity time frames?
Utkarsh,
Really sorry but this dropped off my radar. Thanks for raising an issue and
sharing this code snippet below.
Robert
> You can get access to the opacity track using the API similar to getting
> track for any other attribute as "Radius" for SPhere Source.
>
> a = GetAnimationTrack('Opacity', index=0, proxy=sphere1)
>
> Now you can add keyframes etc to the track.
--
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[Paraview] Specific OpenFOAM case crashes the server
Dear All, I have been recently testing remote rendering in paraview and I seem to have concocted a case which breaks remotely works locally. The case is an OpenFOAM U-bend simulation and I am happy to share the files. They're about 61MB. On the remote side I get: pvserver: /.../viz/ParaView-v5.4.1/VTK/IO/Geometry/vtkOpenFOAMReader.cxx:3798: void vtkFoamEntryValue::ReadList(vtkFoamIOobject&): Assertion `"Label type not set!" && this->GetLabelType() != NO_LABEL_TYPE' failed. On the local side it looks that I simply get disconnected which makes sense seeing that the server core dumped. I tried to remove all weirdness from this case and at the moment it is really just a tet+quad mesh and some case files. If I open the case directly with the client everything works. I am really keen to solve it as when remote viz works, it's absolutely brilliant. I would appreciate comments. Thanks. A side note is that looks to me that PV OpenFOAM reader cannot handle "included" files used by OpenFOAM. Best wishes, Robert -- No deltas, no Cardanos, no hope... http://en.wikipedia.org/wiki/Abel–Ruffini_theorem ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
[Paraview] Remote rendering through reverse SSH breaks with a GLX error
Dear Paraviewers, I am trying to run Paraview in a client-server mode on a remote compute node using a reverse SSH through the login node. I have successfully worked out my port forwarding skulduggery and was able to connect to a host which does NOT run X server. Inside my local client. I do get an error "Display is not accessible on the server side. Remote rendering will be disabled" This is to be expected on the node without X. On the node with X running my client gets connected but then breaks with: Waiting for client... Connection URL: cs://pgc104:6 Accepting connection(s): pgc104:6 Client connected. Xlib: extension "GLX" missing on display ":0.0". Xlib: extension "GLX" missing on display ":0.0". ... (core dumped) Finally on the login node client-server works fine and rendering (I guess) is done on the remote side as I don't get any errors. We have made sure that xorg.conf on login and X-enabled compute node are the same. My connection procedure: local% ssh -L 6:localhost:6 login_node login% bsub -R "select[hname=pgc104]" -Is /bin/bash pgc104% ssh -N -R 6:localhost:6 login & pgc104% DISPLAY=:0.0 pvserver -sp=6 --use-offscreen-rendering local% paraview->connect to localhost:6 Same thing works on pgc304 which doesn't run X. Please let us know if you have any suggestions. Best wishes, Robert -- Ironically, it was Christopher Columbus who was wrong http://en.wikipedia.org/wiki/Myth_of_the_Flat_Earth ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
Re: [Paraview] Paraview closes with a core dump
Mathieu, Turned out that Intel was getting in the way... The integrated card was somehow conflicting with the discrete NVidia card and I had to reconfigure my X settings somewhat as described here: https://bbs.archlinux.org/viewtopic.php?id=223435 This problem developed spontaneously though as I definitely had glxgears, paraview etc working before, so I am not exactly sure core dumps suddenly. But I am pleased that I got some more clarity on the way I am using my system. Thanks for all your earlier suggestions. Best wishes, Robert -- Indian in the mountain http://en.wikipedia.org/wiki/Crazy_Horse_Memorial http://en.wikipedia.org/wiki/Korczak_Ziolkowski ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
Re: [Paraview] Paraview closes with a core dump
Thanks for looking into it, Mathieu. >- Is your system up to date ? It's quite up to date. See below. $ uname -a Linux avignon 4.9.9-1-ARCH #1 SMP PREEMPT Thu Feb 9 19:07:09 CET 2017 x86_64 GNU/Linux >- Are you running X ? Wayland ? Yes, for X. Never heard of Wayland. >- What DE/WM are you running ? No DE, but Xmonad as WM. >- What graphic card do you have ? With which drivers version ? Nvidia Quadro. I've got nvidia driver version 378.13-1. There's a slightly newer one in the repo. >- What version of opengl is installed ? please provide glxinfo output. $ glxinfo name of display: :0.0 Error: couldn't find RGB GLX visual or fbconfig Oops... that looks like a problem. I could try downgrading opengl. >- There should be some error message before the segfault, but we can't >see any, did you removed them or are they missing ? I haven't removed anything from the gdb output. Running paraview from bash is core-dumps silently. >- Can you check in your source that >paraview/VTK/Rendering/OpenGL2/vtkXOpenGLRenderWindow.cxx:485 contains Yes, these lines are there. Robert ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
Re: [Paraview] Paraview closes with a core dump
I was convinced I attached stack trace too. Please see core.dump file. It may be a red herring but there are several references to libQt5Core there. I am rebuilding with Qt5 now, but will also try a more minimal build with Qt4 later. Thanks for quick reply. Robert -- Tropics in Cornwall: http://en.wikipedia.org/wiki/Eden_Project ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
[Paraview] Paraview closes with a core dump
Hi, This is Arch Linux user again. Parview no longer opens for me. It just ends with a core dump (attached). It seems it's something to do with Arch Linux forward looking policy of favouring QT5. I have specified in the compilation to build with QT4 (see attached CMakeCache.txt), but on run it still picks libQt5Core.so. I will now try to rebuild with QT5 but there was a perspective issue with that before. Does anyone have any suggestions, please? Thanks, Robert -- Tropics in Cornwall: http://en.wikipedia.org/wiki/Eden_Project paraview_core_dump.tar.gz Description: Binary data ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
Re: [Paraview] [EXTERNAL] Re: Newer object always in front in Render View
Ok. Yes I have now recompiled 5.2 version with Qt4 and sane render view is here again. I will try to come up with a fix for AUR paraview package. By the way, I probably gave you wrong info on my renderers etc. I've now noticed the info is available in Help->About and it reads: OpenGL Renderer: Mesa DRI Intel(R) Haswell Mobile Is that right? Considering I've got NVidia card should I be using a generic driver? Best wishes, Robert -- This is NOT why airplanes fly http://www.grc.nasa.gov/WWW/k-12/airplane/wrong1.html ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
Re: [Paraview] [EXTERNAL] Re: Newer object always in front in Render View
On this computer I have two PV installed. One from AUR and one compiled from OpenFOAM third party directory. The OpenFOAM works fine. It does say "Legacy Rendering Backend" in the title bar which may or may not be significant. The computer is running NVidia drivers and the card is Quadro. But I am reproducing this problem on another Arch machine with some Intel integrated graphics card. I'll try now Alan's suggestion and download it from Kitware directly. Robert -- The finger of icy death https://www.youtube.com/watch?v=WyWn1XJ9kTE http://en.wikipedia.org/wiki/Brinicle ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
Re: [Paraview] Newer object always in front in Render View
David,
Thanks for a quick reply. Tried with -dr and it's the same. I am attaching my
state file for spheres. It may help someone to reproduce.
I am running it on Arch Linux and paraview is taken from AUR. I am just
looking at the way the binary was generated and I see these options in
cmake
cmake \
-DBUILD_SHARED_LIBS:BOOL=ON \
-DBUILD_TESTING:BOOL=OFF \
-DCMAKE_BUILD_TYPE=Release \
-DCMAKE_C_COMPILER=mpicc \
-DCMAKE_CXX_COMPILER=mpicxx \
-DCMAKE_INSTALL_PREFIX:PATH=/usr \
-DCMAKE_VERBOSE_MAKEFILE:BOOL=OFF \
-DOSPRAY_INSTALL_DIR:PATH=/usr \
-DPARAVIEW_ENABLE_CGNS:BOOL=OFF \
-DPARAVIEW_ENABLE_FFMPEG:BOOL=ON \
-DPARAVIEW_ENABLE_PYTHON:BOOL=ON \
-DPARAVIEW_PYTHON_VERSION=2 \
-DPARAVIEW_QT_VERSION=5 \
-DPARAVIEW_USE_MPI:BOOL=ON \
-DPARAVIEW_USE_VISITBRIDGE:BOOL=ON \
-DPARAVIEW_USE_OSPRAY:BOOL=ON \
-DVISIT_BUILD_READER_CGNS:BOOL=OFF \
-DVTK_PYTHON_VERSION=2 \
-DVTK_QT_VERSION=5 \
-DVTK_RENDERING_BACKEND:STRING=OpenGL2 \
-DVTK_SMP_IMPLEMENTATION_TYPE:STRING=OpenMP \
-DVTK_USE_SYSTEM_HDF5:BOOL=OFF \
${VTK_USE_SYSTEM_LIB} \
../ParaView-v${_pkgver}
Does any of this look suspicious?
Robert
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[Paraview] Default opacity in ParaView version 5.1
Hello, I noticed that the new version of ParaView displays only the boundaries of an object in an opaque way. Previously, the default behaviour was to display solid colours and "Opacity" slider provided some control. Also, clearly only the boundaries are shown and internal mesh is invisible. Is that an intentional change. Is there a way to revert to previous behaviour and have boundaries displayed in solid colours. I am using OpenFOAM Paraview reader, but a minimal example for me is to display a cylinder from Sources. Please let me know, Robert -- Dr Robert Sawko Senior Research Fellow Oil and Gas Engineering Centre School of Energy, Environment & Agrifood Room F505a, Building 52 Cranfield University Bedfordshire MK43 0AL UK Tel: 00 44 01234 750111 ext: 5350 ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Search the list archives at: http://markmail.org/search/?q=ParaView Follow this link to subscribe/unsubscribe: http://public.kitware.com/mailman/listinfo/paraview
[Paraview] States crash after using Plot Over Line
Dear All, I seem to have a problem with the ParaView version 3.12.0-1190, 64 bit. The states work ok but the moment I add some Plot Over Line filters reloading of the state fails with the message: X Error: BadColor (invalid Colormap parameter) 12 Major opcode: 1 (X_CreateWindow) Resource id: 0x5e1 and hangs ParaView completely. I am sure I was using Plot Over Line together with states in the past. I would be obliged for any comments. Best wishes, Robert -- Robert Sawko PhD student Applied Mathematics and Computing Group Room F505a, School of Engineering Bld 52 Cranfield University Bedfordshire MK43 0AL UK Tel: 00 44 01234 750111 ext: 5350 ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
[Paraview] [Ensight Gold format] Crash of temporal data
Hello Everybody! I am struggling with a small and rather curious issue. I imported data in Ensight format to paraview. Data describe 20 time steps of a very simple simulation. I can view the first frame, however upon pressing Next Frame ParaView crashed and treats me with a Segmentaion Fault error on my command line. The problem is curious because of the following observation. When I start with viewing last frame I can trace the simulation backwards by pressing Previous Frame. I am running OpenSUSE 11.2 with KDE 4.3.1. I am running ParaView 3.7.0. I can supply you with troublesome files. Alternatively could you please provide me with some working Ensight files so that I can verify that my Ensight files are all right. Many thanks for any comments, Robert ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
Re: [Paraview] X Error: BadLength on OpenSUSE11.2
All right. I solved the issue. My graphic card drivers where not properly installed. Re-installation of these have solved the problem and now I have direct rendering again and can use volume. Thanks for your hint. Robert ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
[Paraview] X Error: BadLength on OpenSUSE11.2
Dear All, I was getting acquainted with ParaView features via tutorials but suddenly my education was interrupted with a X Error. Whilst doing a tutorial 2.8 from the 3.6 Version of The ParaView Tutorial and upon clicking Volume Representation I am being propmpted with the following message: X Error: BadLength (poly request too large or internal Xlib length error) 16 Extension:135 (Uknown extension) Minor opcode: 1 (Unknown request) Resource id: 0x5a002cc And also: paraview: xcb_io.c:176: process_responses: Assertion `!(req current_request !(((long) (req-sequence) - (long) (current_request)) = 0))' failed. Aborted Then ParaView crashes. I am running OpenSUSE 11.2 with KDE 4.3.1. My Qt library bears a number 4.5.3. If anybody encountered similar issued I would earnestly ask for some assistance. Many thanks, Robert ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
Re: [Paraview] X Error: BadLength on OpenSUSE11.2
Thank you for your reply. This is the results of the command you suggested: glxinfo | grep -i vendor server glx vendor string: NVIDIA Corporation client glx vendor string: SGI OpenGL vendor string: NVIDIA Corporation Robert ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
[Paraview] QT_HELP_GENERATOR-NOTFOUND
Dear All, I am trying to run compile ParaView on 64 bit openSUSE 11.2 with KDE 4.3.1. I was using this website as a reference http://www.cmake.org/Wiki/ParaView:Build_And_Install. Unfortunately after configuring the installation with ccmake I get QT_HELP_GENERATOR-NOTFOUND in QT_HELP_GENERATOR variable. Executing make ends up with an error: [ 99%] Built target H5PartReader [ 99%] Compiling Qt help project paraview.qhp /bin/sh: QT_HELP_GENERATOR-NOTFOUND: command not found make[2]: *** [Documentation/CMakeFiles/ParaViewOnlineHelp] Error 127 make[1]: *** [Documentation/CMakeFiles/ParaViewOnlineHelp.dir/all] Error 2 Could you let me know if you had any hints as to solve this problem? I would be very much obliged for any assistance. Kind regards, Robert ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
Re: [Paraview] QT_HELP_GENERATOR-NOTFOUND
Thanks for your reply. What version of Qt are you using? My Qt version is 4.5.3. Ensure that QT_HELP_GENERATOR is set to the qhelpgenerator executable. Where can I find this one? Apparently ccmake cannot find autumatically. Maybe it is not supplied with openSUSE Qt package. Is there any way to do it manually? Best wishes, Robert ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
Re: [Paraview] QT_HELP_GENERATOR-NOTFOUND
Thanks again for the hints. It was indeed in a different package. Can't say exactly which one since I simply added all the qt4 packages that borne the signature of Trolltech. make and make install work just fine now. Thank you! Robert ___ 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 ParaView Wiki at: http://paraview.org/Wiki/ParaView Follow this link to subscribe/unsubscribe: http://www.paraview.org/mailman/listinfo/paraview
