[Paraview] Fwd: paraview.simple
Guillermo
guillermo180395 at gmail.com
Mon Sep 18 14:48:31 EDT 2017
Sorry but I could not fix it.
I removed the ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit from /opt/
directory
Reinstalled paraview following the steps I have indicated on the
previous email.
I have deleted all sentences from ~/.bashrc except the first one: "export PATH=$PATH:/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/bin/"
Run paraview as:
paraview
And worked fine.
However I executed the script as you indicated:
pvpython <name of script>
And the error message is:
/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/paraview-5.3/libgfortran.so.3:
version `GFORTRAN_1.4' not found (required by /usr/lib/libarpack.so.2)
Traceback (most recent call last):
File <name of script>, line 47, in <module>
reader = OpenDataFile(prefix+ '.vtu'); #This is sentence from my script
File
"/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/simple.py",
line 846, in OpenDataFile
raise RuntimeError (msg)
I am really sorry for the inconveniences. Guillermo
On 18/09/17 13:59, Cory Quammen wrote:
> On Sat, Sep 16, 2017 at 7:48 AM, Guillermo <guillermo180395 at gmail.com> wrote:
>> Hi Cory,
>>
>> I am trying again to install paraview 5.3. I have downloaded it from the
>> paraview webpage. I am using Ubuntu 16.04 LTS; OS type 64-bit. Then I
>> followed these steps:
>>
>> tar xzvf ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit.tar.gz
>>
>> sudo mv ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit /opt/
>>
>> sudo emacs ~/.bashrc # and added the following lines:
>>
>> export PATH=$PATH:/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/bin/
>> export
>> PYTHONPATH=$PYTHONPATH:/home/doriad/bin/ParaView/Utilities/VTKPythonWrapping/site-packages
>> #fixes "no module named paraview"
>> export PYTHONPATH=$PYTHONPATH:/home/doriad/bin/ParaView/bin #fixes
>> "ImportError: No module named libvtkCommonPython"
>> export
>> PYTHONPATH=$PYTHONPATH:/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packagesexport
>> PYTHONPATH=$PYTHONPATH:/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/paraview-5.3
> Setting the PYTHONPATH is not necessary to use pvpython. pvpython sets
> up the necessary system paths within the Python executable so you
> don't have to.
>
>> Saved and exit
>>
>> #Created the symbolic links
>>
>> sudo ln -s /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/
>> /usr/bin/paraview
>>
>> sudo ln -s /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/
>> /usr/lib/paraview
>>
>> #Restarted the computer and then executed:
>>
>> ./paraview
> This command means "launch the paraview executable in my current
> working directory". To use the paraview executable in your PATH,
> remove the ./ and run
>
> paraview
>
> This will make sure the paraview found on your PATH is executed.
>
>> And paraview opens and works fine.
>>
>> # Execute the script I mentioned in previous emails:
>>
>> ./<the name of the script>
>>
>> And the following error message appears:
>>
>> Error: Could not import vtkCommonComputationalGeometry
>> Traceback (most recent call last):
>> File "./<name of script>", line 42, in <module>
>> from paraview.simple import *
>> File
>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/simple.py",
>> line 43, in <module>
>> from paraview import servermanager
>> File
>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/servermanager.py",
>> line 53, in <module>
>> from paraview import vtk
>> File
>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/vtk/__init__.py",
>> line 7, in <module>
>> from paraview.vtk.vtkCommonCore import *
>> File
>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/vtk/vtkCommonCore.py",
>> line 9, in <module>
>> from vtkCommonCorePython import *
>> ImportError: No module named vtkCommonCorePython
>>
>> Then I tried running it by using:
>>
>> ./pvpython <name of script>
>>
>> And the error message is the following:
>>
>> bash: ./pvpython: No such file or directory
> Again, when you run ./pvpython, it is looking for a pvpython
> executable in the present working directory. Drop the ./ and it should
> work.
>
>> I have also tried by using:
>>
>> /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/bin/pvpython <name of
>> script>
>>
>> And the message is:
>>
>> /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/paraview-5.3/libgfortran.so.3:
>> version `GFORTRAN_1.4' not found (required by /usr/lib/libarpack.so.2)
>> Traceback (most recent call last):
>> File <name of script>, line 47, in <module>
>> reader = OpenDataFile(prefix+ '.vtu');
>> File
>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/simple.py",
>> line 846, in OpenDataFile
>> raise RuntimeError (msg)
>>
>> My python version is (python --version) Python 2.7.12
> This is strange. I don't see the same when I download ParaView 5.3 on
> Ubuntu 16.04. I wonder if you are pulling in something by setting
> PYTHONPATH? Try not setting PYTHONPATH (it isn't needed to use
> pvpython) and see if that resolves the error.
>
> HTH,
> Cory
>
>> My script starts with:
>> #!/usr/bin/python
>> import re,sys,os,shutil
>> -- and I also use --
>> from paraview.simple import *
>>
>> Sorry for the inconveniences.
>>
>> Really grateful,
>>
>> Guillermo S.
>>
>>
>>
>> On 07/09/17 18:54, Cory Quammen wrote:
>>>> I usually use:
>>>> ./<the name of the script>
>>> I think you would be better off running your script with
>>>
>>> ./pvpython <name of script>
>>>
>>> pvpython comes with the ParaView binary and is located in the same
>>> directory as the 'paraview' executable. pvpython uses the same Python
>>> as ParaView is, so compatibility with some local Python on your system
>>> is not a problem. Further, pvpython sets up Python environment to
>>> provide access to the ParaView and VTK Python modules without having
>>> to set up any environment variables.
>>>
>>>> but I also tried with:
>>>> python3 <the name of the script>
>>> python3 definitely won't work with the official ParaView binaries,
>>> which are built against Python 2.7.
>>>
>>> HTH,
>>> Cory
>>>
>>>> Guillermo
>>>>
>>>> P.S: With the version 5.0.1 installed and working fine (the script works)
>>>> I
>>>> have searched the lib you mentioned to me but I do not have it.
>>>>
>>>> 2017-08-23 13:15 GMT-01:00 Cory Quammen <cory.quammen at kitware.com>:
>>>>>> The problem results when executing the python script from the Ubuntu's
>>>>>> terminal.
>>>>> What command are you using to run the Python script?
>>>>>
>>>>> Thanks,
>>>>> Cory
>>>>>
>>>>>> Thank you very much.
>>>>>>
>>>>>> ASAP I will try to install the v5.3 and I will let you know if I
>>>>>> encounter
>>>>>> any problem.
>>>>>>
>>>>>> Cheers,
>>>>>>
>>>>>> Guillermo
>>>>>>
>>>>>>
>>>>>> On 23/08/17 12:58, Cory Quammen wrote:
>>>>>>
>>>>>> Guillermo,
>>>>>>
>>>>>> I'm sorry that my suggestions didn't work out.
>>>>>>
>>>>>> Could you try one last thing? Please run the following commands:
>>>>>>
>>>>>> cd /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/bin
>>>>>> ./paraview
>>>>>>
>>>>>> That should work without problem. If it doesn't, we definitely have a
>>>>>> problem.
>>>>>>
>>>>>> Cheers,
>>>>>> Cory
>>>>>>
>>>>>> On Wed, Aug 23, 2017 at 7:32 AM, Guillermo <guillermo180395 at gmail.com>
>>>>>> wrote:
>>>>>>
>>>>>> Hi Cory,
>>>>>>
>>>>>> I have made a purge of paraview, reinstalled the 5.3 version, as I
>>>>>> indicated
>>>>>> on the first email, but the result is the same, it does not work and
>>>>>> the
>>>>>> message is the same as in the beginning. Also, the libs you indicated
>>>>>> to
>>>>>> me
>>>>>> are not present.
>>>>>>
>>>>>> Actually, I really need to use this python script and I do not have too
>>>>>> much
>>>>>> time to spend on it, so I decided to downgrade to 5.0.1 version.
>>>>>>
>>>>>> In a near future, 1-1.5 month, I will try it again, as I want to
>>>>>> upgrade
>>>>>> to
>>>>>> a newer version. I will let you know if I experiment any issue.
>>>>>>
>>>>>> Sorry for the inconveniences,
>>>>>>
>>>>>> Really grateful,
>>>>>>
>>>>>> Guillermo S.
>>>>>>
>>>>>>
>>>>>> On 22/08/17 13:46, Cory Quammen wrote:
>>>>>>
>>>>>> Oops, I failed to change the version number in the line I gave you,
>>>>>> but caught that and corrected it, just not quite to the right version
>>>>>> number.
>>>>>>
>>>>>> Try
>>>>>>
>>>>>> export
>>>>>>
>>>>>>
>>>>>> PYTHONPATH=$PYTHONPATH:/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/paraview-5.3
>>>>>>
>>>>>> Basically, you have to set the PYTHONPATH to where the lib*Python.so
>>>>>> files are located. Make sure
>>>>>> /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/paraview-5.3
>>>>>> exists and confirm that a file starting with libvtkCommonCorePython27
>>>>>> is there.
>>>>>>
>>>>>> Stepping back a bit, you wouldn't have to do any of this PYTHONPATH
>>>>>> stuff if you just add
>>>>>>
>>>>>> /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/bin
>>>>>>
>>>>>> to your PATH.
>>>>>>
>>>>>> HTH,
>>>>>> Cory
>>>>>>
>>>>>> On Tue, Aug 22, 2017 at 1:38 PM, Guillermo <guillermo180395 at gmail.com>
>>>>>> wrote:
>>>>>>
>>>>>> I forgot to mention that the error message is the same as before.
>>>>>>
>>>>>>
>>>>>> On 22/08/17 13:24, Cory Quammen wrote:
>>>>>>
>>>>>> Guillermo,
>>>>>>
>>>>>> Please CC the mailing list so others can participate and learn from
>>>>>> the discussion.
>>>>>>
>>>>>> That looks like progress. Now try adding to your .bashrc:
>>>>>>
>>>>>> export
>>>>>>
>>>>>>
>>>>>> PYTHONPATH=$PYTHONPATH:/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/paraview-5.4
>>>>>>
>>>>>> HTH,
>>>>>> Cory
>>>>>>
>>>>>> On Tue, Aug 22, 2017 at 10:19 AM, Guillermo Suárez
>>>>>> <guillermo180395 at gmail.com> wrote:
>>>>>>
>>>>>> Hi Cory,
>>>>>>
>>>>>> Thank you very much for your fast response. Unfortunately it didn't
>>>>>> work
>>>>>> (I
>>>>>> just copied and pasted into the .bashrc the sentence you gave to me).
>>>>>> However, the new error message is:
>>>>>>
>>>>>> Error: Could not import vtkCommonComputationalGeometry
>>>>>> Traceback (most recent call last):
>>>>>> File "./<the name of my file>", line XX, in <module>
>>>>>> from paraview.simple import *
>>>>>> File
>>>>>>
>>>>>>
>>>>>>
>>>>>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/simple.py",
>>>>>> line 43, in <module>
>>>>>> from paraview import servermanager
>>>>>> File
>>>>>>
>>>>>>
>>>>>>
>>>>>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/servermanager.py",
>>>>>> line 53, in <module>
>>>>>> from paraview import vtk
>>>>>> File
>>>>>>
>>>>>>
>>>>>>
>>>>>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/vtk/__init__.py",
>>>>>> line 7, in <module>
>>>>>> from paraview.vtk.vtkCommonCore import *
>>>>>> File
>>>>>>
>>>>>>
>>>>>>
>>>>>> "/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages/paraview/vtk/vtkCommonCore.py",
>>>>>> line 9, in <module>
>>>>>> from vtkCommonCorePython import *
>>>>>> ImportError: No module named vtkCommonCorePython
>>>>>>
>>>>>> I have searched around the Internet and I found a thread that I though
>>>>>> it
>>>>>> could help:
>>>>>> http://public.kitware.com/pipermail/paraview/2014-February/030506.html
>>>>>>
>>>>>> The idea is to use this:
>>>>>>
>>>>>> setenv LD_LIBRARY_PATH
>>>>>> your-install/lib/paraview-4.1:${LD_LIBRARY_PATH}
>>>>>>
>>>>>> setenv PYTHONPATH your-install /lib/paraview-4.1/site-packages:
>>>>>> your-install
>>>>>> /lib/paraview-4.1: your-install /lib/paraview-4.1/site-packages/vtk
>>>>>>
>>>>>> I copied and pasted this on my .bashrc file substituting the
>>>>>> corresponding
>>>>>> names, but it didn't work. :(
>>>>>>
>>>>>> Any idea?
>>>>>>
>>>>>> Really grateful,
>>>>>>
>>>>>> Guillermo S.
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> 2017-08-22 12:31 GMT-01:00 Cory Quammen <cory.quammen at kitware.com>:
>>>>>>
>>>>>> Hi Guillermo,
>>>>>>
>>>>>> I think the content in that wiki page is outdated.
>>>>>>
>>>>>> Try setting PYTHONPATH to the following in your .bashrc
>>>>>>
>>>>>> export
>>>>>>
>>>>>>
>>>>>>
>>>>>> PYTHONPATH=$PYTHONPATH:/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/python2.7/site-packages
>>>>>>
>>>>>> See if that works and let us know,
>>>>>> Cory
>>>>>>
>>>>>> On Tue, Aug 22, 2017 at 6:04 AM, Guillermo Suárez
>>>>>> <guillermo180395 at gmail.com> wrote:
>>>>>>
>>>>>> Dear all,
>>>>>>
>>>>>> Yesterday I installed paraview v5.3 using the binaries from the website
>>>>>> on my Linux (ubuntu) OS. The steps followed are (they my influence on
>>>>>> the
>>>>>> final result):
>>>>>>
>>>>>> Download the binaries from http://www.paraview.org. For me this results
>>>>>> in: ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit.tar.gz
>>>>>> Extract and copy them:
>>>>>>
>>>>>> tar xzvf -C /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit.tar.gz
>>>>>> sudo emacs ~/.bashrc
>>>>>>
>>>>>> then insert the following line, save & close
>>>>>>
>>>>>> export PATH=$PATH:/opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/bin/
>>>>>>
>>>>>> Then I created a symbolic link:
>>>>>>
>>>>>> sudo ln -s
>>>>>> /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/bin/paraview
>>>>>> /usr/bin/paraview
>>>>>>
>>>>>> sudo ln -s
>>>>>> /opt/ParaView-5.3.0-Qt5-OpenGL2-MPI-Linux-64bit/lib/paraview-5.3/
>>>>>> /usr/lib/paraview-5.3
>>>>>>
>>>>>> Before installing paraview from the binaries files I was using the
>>>>>> version from Ubuntu repositories (paraview version 5.0 [I think]). Also
>>>>>> I
>>>>>> was using a python script which uses paraview to take some snapshoots
>>>>>> and it
>>>>>> worked really well. The problem is that now, when I want to use this
>>>>>> python
>>>>>> script, it reports this message:
>>>>>>
>>>>>> "from paraview.simple import *
>>>>>> ImportError: No module named paraview.simple"
>>>>>>
>>>>>> I have made some searches on the Internet and I found a web page about
>>>>>> this problem: https://www.paraview.org/Wiki/ParaView/EnvironmentSetup
>>>>>> I have copied and pasted those sentences on my .bashrc file, restarted
>>>>>> the computer but it still does not work.
>>>>>>
>>>>>> Could you please help me?
>>>>>>
>>>>>> Best regards,
>>>>>>
>>>>>> Guillermo S.
>>>>>>
>>>>>>
>>>>>>
>>>>>> _______________________________________________
>>>>>> 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
>>>>>>
>>>>>>
>>>>>> --
>>>>>> Cory Quammen
>>>>>> Staff R&D Engineer
>>>>>> Kitware, Inc.
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>
>>>>> --
>>>>> Cory Quammen
>>>>> Staff R&D Engineer
>>>>> Kitware, Inc.
>>>>
>>>>
>>>>
>>>> _______________________________________________
>>>> 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
>>>>
>>>
>
>
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