exit signal Segmentation fault about visualizer HOT 11 CLOSED

Initially, when I opened this issue, I thought the issue was paraview not being able to find the modules, maybe because of different versions of python. Then by your suggestion, I understood that I can directly use only the downloaded osmesa binary, which simplified my work. After which now I realize that the issue is with mod_wsgi.

Very sorry to have wasted your time and thank you for your patience. Please let me know of how to delete this issue as it might not be of use to anyone. I am closing the issue.

from visualizer.

Just use the downloaded version of osmesa paraview inside your own container without starting with the pv base one.

from visualizer.

Hello Jourdain,

Thank you for your response, I removed the line
ARG BASE_IMAGE=kitware/paraviewweb:pv-osmesa-v5.6.0 and replaced it with
ARG BASE_IMAGE=ubuntu:16.04, so that use the downloaded version of osmesa and neglect the built pv base image.

But I still get the same error.
[Wed Apr 10 15:12:18.201926 2019] [mpm_event:notice] [pid 6:tid 140012321695616] AH00489: Apache/2.4.18 (Ubuntu) mod_wsgi/4.6.5 Python/3.6 configured -- resuming normal operations [Wed Apr 10 15:12:18.201997 2019] [core:notice] [pid 6:tid 140012321695616] AH00094: Command line: 'apache2 (mod_wsgi-express) -f /tmp/mod_wsgi-localhost:9090:999/httpd.conf -D MOD_WSGI_MPM_ENABLE_EVENT_MODULE -D MOD_WSGI_MPM_EXISTS_EVENT_MODULE -D MOD_WSGI_MPM_EXISTS_WORKER_MODULE -D MOD_WSGI_MPM_EXISTS_PREFORK_MODULE -D FOREGROUND' [Wed Apr 10 15:12:19.203142 2019] [core:notice] [pid 6:tid 140012321695616] AH00051: child pid 8 exit signal Segmentation fault (11), possible coredump in /tmp/mod_wsgi-localhost:9090:999 [Wed Apr 10 15:12:20.204622 2019] [core:notice] [pid 6:tid 140012321695616] AH00051: child pid 23 exit signal Segmentation fault (11), possible coredump in /tmp/mod_wsgi-localhost:9090:999
Regards,
Shailesh

from visualizer.

What is the command that trigger that segfault. That's not clear to me.

from visualizer.

That error is triggered by the mod_wsgi-express start server command, which provides an apache module for hosting the flask application. The command in the docker file is:
CMD ["dumb-init", "mod_wsgi-express", "start-server", "postProcessing_flask.wsgi", "--port", "9090", "--socket-timeout", "600" ]

which starts the server listening to port 9090.

Thanks and regards,
Shailesh

from visualizer.

How is that related to ParaView or Visualizer?

from visualizer.

Hello Jourdain,

Sorry to disturb you again but I am stuck with a dilemma here and could really use some suggestions from you.

For the application which I am trying to build I need to compile ParaView with python 3.

The official binaries and the docker images all have ParaView compiled with python 2. Compiling ParaView on my own against Python 3 is a very scary option for me. Is there any other way?

Looking forward to hearing back from you.

Regards,
Shailesh

from visualizer.

No, someone need to build ParaView with Python 3.
Feel free to post on the ParaView discourse to request binaries for Python 3.

from visualizer.

from visualizer.

Aslo since it will be for a ParaViewWeb application, you don't need Qt but either EGL or OSMesa.

from visualizer.

Very sorry for such a late reply. Thank you for the documentation, following that I obtained the source and got all the prerequisites ready. I did not want to deviate much from the default build settings, so I only changed these variables:

cmake ../ -DPARAVIEW_BUILD_QT_GUI=OFF -DPARAVIEW_USE_MPI=ON -DPARAVIEW_ENABLE_PYTHON=ON -DPARAVIEW_ENABLE_WEB=ON

I could successfully build this using Ninja, but I get the following error:
`[Tue Apr 30 11:25:27.120804 2019] [mpm_event:notice] [pid 1:tid 140375490279296] AH00489: Apache/2.4.18 (Ubuntu) mod_wsgi/4.6.5 Python/3.6 configured -- resuming normal operations
[Tue Apr 30 11:25:27.120872 2019] [core:notice] [pid 1:tid 140375490279296] AH00094: Command line: 'apache2 (mod_wsgi-express) -f /tmp/mod_wsgi-localhost:9090:999/httpd.conf -D MOD_WSGI_MPM_ENABLE_EVENT_MODULE -D MOD_WSGI_MPM_EXISTS_EVENT_MODULE -D MOD_WSGI_MPM_EXISTS_WORKER_MODULE -D MOD_WSGI_MPM_EXISTS_PREFORK_MODULE -D FOREGROUND'
[Tue Apr 30 11:25:27.752476 2019] [wsgi:error] [pid 164:tid 140375490279296] Error: Cannot import vtkPVAnimation

[Tue Apr 30 11:26:08.563378 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] [2019-04-30 11:26:08,561] ERROR in app: Exception on /postProcess [POST]
[Tue Apr 30 11:26:08.563405 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] Traceback (most recent call last):
[Tue Apr 30 11:26:08.563410 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] File "/usr/local/lib/python3.6/dist-packages/flask/app.py", line 1813, in full_dispatch_request
[Tue Apr 30 11:26:08.563414 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] rv = self.dispatch_request()
[Tue Apr 30 11:26:08.563417 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] File "/usr/local/lib/python3.6/dist-packages/flask/app.py", line 1799, in dispatch_request
[Tue Apr 30 11:26:08.563414 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] rv = self.dispatch_request()
[Tue Apr 30 11:26:08.563417 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] File "/usr/local/lib/python3.6/dist-packages/flask/app.py", line 1799, in dispatch_request
[Tue Apr 30 11:26:08.563421 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] return self.view_functionsrule.endpoint
[Tue Apr 30 11:26:08.563425 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] File "/usr/local/lib/python3.6/dist-packages/flask_restful/init.py", line 458, in wrapper
[Tue Apr 30 11:26:08.563429 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] resp = resource(*args, **kwargs)
[Tue Apr 30 11:26:08.563432 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] File "/usr/local/lib/python3.6/dist-packages/flask/views.py", line 88, in view
[Tue Apr 30 11:26:08.563436 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] return self.dispatch_request(*args, **kwargs)
[Tue Apr 30 11:26:08.563439 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] File "/usr/local/lib/python3.6/dist-packages/flask_restful/init.py", line 573, in dispatch_request
[Tue Apr 30 11:26:08.563443 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] resp = meth(*args, **kwargs)
[Tue Apr 30 11:26:08.563446 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] File "/postProcess_app/postProcessing_flask.py", line 15, in post
[Tue Apr 30 11:26:08.563450 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] call_paraview()
[Tue Apr 30 11:26:08.563453 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] File "/postProcess_app/postProcessing.py", line 26, in call_paraview
[Tue Apr 30 11:26:08.563457 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] animationScene1.UpdateAnimationUsingDataTimeSteps()
[Tue Apr 30 11:26:08.563462 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312] AttributeError: 'NoneType' object has no attribute 'UpdateAnimationUsingDataTimeSteps'
[Tue Apr 30 11:26:08.563489 2019] [wsgi:error] [pid 164:tid 140374181582592] [remote 106.51.23.138:12312]`

I tried to manually copy vtkPVAnimation.py from the official python2.7 paraview binaries, but that did not work. I tried to search which build setting relates to PVAnimation so that I can switch it off (I do not require animation at this moment), but I could not find it.

As per this https://public.kitware.com/pipermail/paraview/2015-May/034180.html
It was suggested to add the path to PYTHONPATH, which I have already done.

Could you please let me know which build setting I have to modify and is there documentation giving us a list of all build parameters so that I can keep that as a reference for future errors.

Thanks and regards,
Shailesh

from visualizer.