[PyFoam] Problems with installing PyFoam

gschaider · May 8, 2013, 17:46

Quote:

Originally Posted by simone.rowing

dear geschaider, after a bit of fiddling with the folders, we have the PyQt4 installed and able to import it in python. the vtk package must also be installed, however it shows the following erro after runnung the code "pyFoamVersion.py"

Code:

Installed libraries:
Gnuplot              :  No      Not a problem. Version from ThirdParty is used
ply                  :  No      Not a problem. Version from ThirdParty is used
Numeric              :  No      Not supported anymore. No need to install it
/Applications/Paraview_3.98.1.app/Contents/Python/numpy/random/__init__.py:87: RuntimeWarning: compiletime version 2.6 of module 'mtrand' does not match runtime version 2.7
  from mtrand import *
numpy                :  Yes      version: 1.6.2
matplotlib           :  Yes      version: 1.1.1
psyco                :  No      Not a problem. Acceleration not possible
hotshot              :  Yes
profile              :  Yes
cProfile             :  Yes
PyQt4                :  Yes
PyQt4.Qwt5           :  No      Only an alternate plotting back-end
vtk                  :  Error: Could not import vtkCommonComputationalGeometryPython
No      Not a problem. Only used for some utilities
Tkinter              :  Yes      version: $Revision: 81008 $
mercurial            :  No      Not a problem. Used for experimental case handling
nose                 :  No      Only needed for running the unit-tests (developers only)
twisted              :  Yes      version: 11.0.0
pandas               :  No      Not yet used. Maybe handling of timelines will be reimplemented with it
scipy                :  No      Not yet used. Possibly use signal-fitting etc

not entirely sure what to do next, many thanks for the help so far.

Please always poste the complete output of the utility and let me judge what is needed. As far as I can see you still got the Paraview-binaries in the PYTHONPATH. At the very least this breaks numpy (because you use Python 2.7, Paraview 2.6). Not sure, but this probably also breaks VTK.

So remove all parts pointing to the Paraview-installation from the PYTHONPATH and retry

simone.rowing · May 8, 2013, 18:13

Ok, I do in this way:
run Python
import sys
print sys.path
import paraview
import vtk

Code:

MacBook-di-Simone:~ simomartini$ python
Python 2.7.1 (r271:86832, Jul 31 2011, 19:30:53)
[GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import sys
>>> print sis
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
NameError: name 'sis' is not defined
>>> quit()
MacBook-di-Simone:~ simomartini$ python
Python 2.7.1 (r271:86832, Jul 31 2011, 19:30:53)
[GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import sys
>>> print sys.path
['', '/Users/simomartini', '/Applications/Paraview_3.98.1.app/Contents/Python', '/Applications/Paraview_3.98.1.app/Contents/Python/paraview', '/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python27.zip', '/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7', '/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/plat-darwin', '/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/plat-mac', '/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/plat-mac/lib-scriptpackages', '/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python', '/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/lib-tk', '/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/lib-old', '/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/lib-dynload', '/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/PyObjC', '/Library/Python/2.7/site-packages']
>>> import paraview
>>> import vtk
Error: Could not import vtkCommonComputationalGeometryPython
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/Applications/Paraview_3.98.1.app/Contents/Python/paraview/vtk/__init__.py", line 7, in <module>
    from vtkCommonCorePython import *
ImportError: No module named vtkCommonCorePython
>>>

and this in my pyFoamVersion.py

Code:

MacBook-di-Simone:~ simomartini$ pyFoamVersion.py
Machine info: Darwin | MacBook-di-Simone.local | 11.4.2 | Darwin Kernel Version 11.4.2: Thu Aug 23 16:25:48 PDT 2012; root:xnu-1699.32.7~1/RELEASE_X86_64 | x86_64 | i386

Python version: 2.7.1 (r271:86832, Jul 31 2011, 19:30:53)
[GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)]

PYTHONPATH: :/Applications/Paraview_3.98.1.app/Contents/Python:/Applications/Paraview_3.98.1.app/Contents/Python/paraview

Location of this utility: /usr/local/bin/pyFoamVersion.py

OpenFOAM () of the installed versions ['2.2.0']
  This version of OpenFOAM uses the old calling convention

pyFoam-Version: 0.6.0

Path where PyFoam was found (PyFoam.__path__) is ['/Library/Python/2.7/site-packages/PyFoam']

Configuration search path: [('file', '/etc/pyFoam/pyfoamrc'), ('directory', '/etc/pyFoam/pyfoamrc.d'), ('file', '/Users/simomartini/.pyFoam/pyfoamrc'), ('directory', '/Users/simomartini/.pyFoam/pyfoamrc.d')]
Configuration files (used): []

Installed libraries:
Gnuplot              :  No      Not a problem. Version from ThirdParty is used
ply                  :  No      Not a problem. Version from ThirdParty is used
Numeric              :  No      Not supported anymore. No need to install it
/Applications/Paraview_3.98.1.app/Contents/Python/numpy/random/__init__.py:87: RuntimeWarning: compiletime version 2.6 of module 'mtrand' does not match runtime version 2.7
  from mtrand import *
numpy                :  Yes      version: 1.6.2
matplotlib           :  Yes      version: 1.1.1
psyco                :  No      Not a problem. Acceleration not possible
hotshot              :  Yes
profile              :  Yes
cProfile             :  Yes
PyQt4                :  Yes
PyQt4.Qwt5           :  No      Only an alternate plotting back-end
vtk                  :  Error: Could not import vtkCommonComputationalGeometryPython
No      Not a problem. Only used for some utilities
Tkinter              :  Yes      version: $Revision: 81008 $
mercurial            :  No      Not a problem. Used for experimental case handling
nose                 :  No      Only needed for running the unit-tests (developers only)
twisted              :  Yes      version: 11.0.0
pandas               :  No      Not yet used. Maybe handling of timelines will be reimplemented with it
scipy                :  No      Not yet used. Possibly use signal-fitting etc
MacBook-di-Simone:~ simomartini$

gschaider · May 8, 2013, 18:32

Quote:

Originally Posted by simone.rowing

and this in my pyFoamVersion.py

Code:

MacBook-di-Simone:~ simomartini$ pyFoamVersion.py
Machine info: Darwin | MacBook-di-Simone.local | 11.4.2 | Darwin Kernel Version 11.4.2: Thu Aug 23 16:25:48 PDT 2012; root:xnu-1699.32.7~1/RELEASE_X86_64 | x86_64 | i386

Python version: 2.7.1 (r271:86832, Jul 31 2011, 19:30:53)
[GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)]

PYTHONPATH: :/Applications/Paraview_3.98.1.app/Contents/Python:/Applications/Paraview_3.98.1.app/Contents/Python/paraview

As I suspected: Paraview is in the PYTHONPATH. Completely erase the path with 'unset PYTHONPATH' and retry

The VTK-version that comes with Paraview is NO help. For some technical reason (you'll have to research that yourself) the version of VTK that comes with Paraview is modified and in parts behaves differently. Make sure you use the version from MacPorts (I think I described that before)

simone.rowing · May 8, 2013, 19:25

this is my version of ports

Code:

MacBook-di-Simone:~ simomartini$ port
MacPorts 2.1.3
Entering interactive mode... ("help" for help, "quit" to quit)
[Users/simomartini] >

the pyFoam doesn't recognize the vtk and the installation with port that you already suggested didn't work with python. Do you know another way to install vtk to work with pyFoam. I tried to use Homebrew but I have not had any success.

Code:

MacBook-di-Simone:~ simomartini$ pyFoamVersion.py
Machine info: Darwin | MacBook-di-Simone.local | 11.4.2 | Darwin Kernel Version 11.4.2: Thu Aug 23 16:25:48 PDT 2012; root:xnu-1699.32.7~1/RELEASE_X86_64 | x86_64 | i386

Python version: 2.7.1 (r271:86832, Jul 31 2011, 19:30:53)
[GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)]

PYTHONPATH: :/Users/simomartini/projects/ParaView-bin/lib/site-packages/

Location of this utility: /usr/local/bin/pyFoamVersion.py

OpenFOAM () of the installed versions ['2.2.0']
  This version of OpenFOAM uses the old calling convention

pyFoam-Version: 0.6.0

Path where PyFoam was found (PyFoam.__path__) is ['/Library/Python/2.7/site-packages/PyFoam']

Configuration search path: [('file', '/etc/pyFoam/pyfoamrc'), ('directory', '/etc/pyFoam/pyfoamrc.d'), ('file', '/Users/simomartini/.pyFoam/pyfoamrc'), ('directory', '/Users/simomartini/.pyFoam/pyfoamrc.d')]
Configuration files (used): []

Installed libraries:
Gnuplot              :  No      Not a problem. Version from ThirdParty is used
ply                  :  No      Not a problem. Version from ThirdParty is used
Numeric              :  No      Not supported anymore. No need to install it
numpy                :  Yes      version: 1.5.1
matplotlib           :  No      Only Gnuplot-plotting possible
psyco                :  No      Not a problem. Acceleration not possible
hotshot              :  Yes
profile              :  Yes
cProfile             :  Yes
PyQt4                :  Yes
PyQt4.Qwt5           :  No      Only an alternate plotting back-end
vtk                  :  No      Not a problem. Only used for some utilities
Tkinter              :  Yes      version: $Revision: 81008 $
mercurial            :  No      Not a problem. Used for experimental case handling
nose                 :  No      Only needed for running the unit-tests (developers only)
twisted              :  Yes      version: 12.3.0
pandas               :  No      Not yet used. Maybe handling of timelines will be reimplemented with it
scipy                :  No      Not yet used. Possibly use signal-fitting etc

gschaider · May 8, 2013, 19:44

Quote:

Originally Posted by simone.rowing

this is my version of ports

Code:

MacBook-di-Simone:~ simomartini$ port
MacPorts 2.1.3
Entering interactive mode... ("help" for help, "quit" to quit)
[Users/simomartini] >

the pyFoam doesn't recognize the vtk and the installation with port that you already suggested didn't work with python. Do you know another way to install vtk to work with pyFoam. I tried to use Homebrew but I have not had any success.

I already explained it to you in a previous post (http://www.cfd-online.com/Forums/ope...l#post423691): install the vtk from MacPorts! I assumed you've already done that and the library was "shadowed" by the paraview-version

simone.rowing · May 10, 2013, 06:35

I already install the vtk5! but I really don't know why this doesn't work.

Code:

MacBook-di-Simone:~ simomartini$ sudo port install vtk5 +python27 +qt4_mac
Password:
--->  Computing dependencies for vtk5
--->  Deactivating vtk5 @5.10.1_0+tcltk+x11
--->  Cleaning vtk5
--->  Activating vtk5 @5.10.1_0+python27+qt4_mac
--->  Cleaning vtk5
--->  Scanning binaries for linking errors: 100.0%
--->  No broken files found.
MacBook-di-Simone:~ simomartini$ pyFoamVersion.py
Machine info: Darwin | dhcp-201-211.wireless.soton.ac.uk | 11.4.2 | Darwin Kernel Version 11.4.2: Thu Aug 23 16:25:48 PDT 2012; root:xnu-1699.32.7~1/RELEASE_X86_64 | x86_64 | i386

Python version: 2.7.1 (r271:86832, Jul 31 2011, 19:30:53)
[GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)]

PYTHONPATH: :/Users/simomartini/projects/ParaView-bin/lib/site-packages/

Location of this utility: /usr/local/bin/pyFoamVersion.py

OpenFOAM () of the installed versions ['2.2.0']
  This version of OpenFOAM uses the old calling convention

pyFoam-Version: 0.6.0

Path where PyFoam was found (PyFoam.__path__) is ['/Library/Python/2.7/site-packages/PyFoam']

Configuration search path: [('file', '/etc/pyFoam/pyfoamrc'), ('directory', '/etc/pyFoam/pyfoamrc.d'), ('file', '/Users/simomartini/.pyFoam/pyfoamrc'), ('directory', '/Users/simomartini/.pyFoam/pyfoamrc.d')]
Configuration files (used): []

Installed libraries:
Gnuplot              :  No      Not a problem. Version from ThirdParty is used
ply                  :  No      Not a problem. Version from ThirdParty is used
Numeric              :  No      Not supported anymore. No need to install it
numpy                :  Yes      version: 1.5.1
matplotlib           :  No      Only Gnuplot-plotting possible
psyco                :  No      Not a problem. Acceleration not possible
hotshot              :  Yes
profile              :  Yes
cProfile             :  Yes
PyQt4                :  Yes
PyQt4.Qwt5           :  No      Only an alternate plotting back-end
vtk                  :  No      Not a problem. Only used for some utilities
Tkinter              :  Yes      version: $Revision: 81008 $
mercurial            :  No      Not a problem. Used for experimental case handling
nose                 :  No      Only needed for running the unit-tests (developers only)
twisted              :  Yes      version: 12.3.0
pandas               :  No      Not yet used. Maybe handling of timelines will be reimplemented with it
scipy                :  No      Not yet used. Possibly use signal-fitting etc
MacBook-di-Simone:~ simomartini$

gschaider · May 11, 2013, 07:17

Quote:

Originally Posted by simone.rowing

I already install the vtk5! but I really don't know why this doesn't work.

Code:

MacBook-di-Simone:~ simomartini$ sudo port install vtk5 +python27 +qt4_mac
Password:
--->  Computing dependencies for vtk5
--->  Deactivating vtk5 @5.10.1_0+tcltk+x11
--->  Cleaning vtk5
--->  Activating vtk5 @5.10.1_0+python27+qt4_mac
--->  Cleaning vtk5
--->  Scanning binaries for linking errors: 100.0%
--->  No broken files found.
MacBook-di-Simone:~ simomartini$ pyFoamVersion.py
Machine info: Darwin | dhcp-201-211.wireless.soton.ac.uk | 11.4.2 | Darwin Kernel Version 11.4.2: Thu Aug 23 16:25:48 PDT 2012; root:xnu-1699.32.7~1/RELEASE_X86_64 | x86_64 | i386

Python version: 2.7.1 (r271:86832, Jul 31 2011, 19:30:53)
[GCC 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2335.15.00)]

PYTHONPATH: :/Users/simomartini/projects/ParaView-bin/lib/site-packages/

Location of this utility: /usr/local/bin/pyFoamVersion.py

OpenFOAM () of the installed versions ['2.2.0']
  This version of OpenFOAM uses the old calling convention

pyFoam-Version: 0.6.0

Path where PyFoam was found (PyFoam.__path__) is ['/Library/Python/2.7/site-packages/PyFoam']

Configuration search path: [('file', '/etc/pyFoam/pyfoamrc'), ('directory', '/etc/pyFoam/pyfoamrc.d'), ('file', '/Users/simomartini/.pyFoam/pyfoamrc'), ('directory', '/Users/simomartini/.pyFoam/pyfoamrc.d')]
Configuration files (used): []

Installed libraries:
Gnuplot              :  No      Not a problem. Version from ThirdParty is used
ply                  :  No      Not a problem. Version from ThirdParty is used
Numeric              :  No      Not supported anymore. No need to install it
numpy                :  Yes      version: 1.5.1
matplotlib           :  No      Only Gnuplot-plotting possible
psyco                :  No      Not a problem. Acceleration not possible
hotshot              :  Yes
profile              :  Yes
cProfile             :  Yes
PyQt4                :  Yes
PyQt4.Qwt5           :  No      Only an alternate plotting back-end
vtk                  :  No      Not a problem. Only used for some utilities
Tkinter              :  Yes      version: $Revision: 81008 $
mercurial            :  No      Not a problem. Used for experimental case handling
nose                 :  No      Only needed for running the unit-tests (developers only)
twisted              :  Yes      version: 12.3.0
pandas               :  No      Not yet used. Maybe handling of timelines will be reimplemented with it
scipy                :  No      Not yet used. Possibly use signal-fitting etc
MacBook-di-Simone:~ simomartini$

Which python-version are you using? From the version reported I guess the apple-version in /usr/bin/python (but please verify with "which"). I use the MacPorts-version and the variant +python27 of vtk5 assumes that. Either select the MacPorts-version with "port select python python27" or reinstall vtk5 without that option (but I haven't tested that)

mmartin · May 7, 2014, 06:51

hello

i installed pyFoam on a rhel server but if i run pyFoamPlotRunner

with the syntax

pyFoamPlotRunner.py <OFsolver> -case CASE

pyFoamPlotRunner.py <OFsolver> (in the case folder)

i get following error messageTraceback (most recent call last):
File "/usr/bin/pyFoamPlotRunner.py", line 3, in ?
from PyFoam.Applications.PlotRunner import PlotRunner
File "/usr/lib/python2.4/site-packages/PyFoam/Applications/PlotRunner.py", line 6
from .PyFoamApplication import PyFoamApplication
^
SyntaxError: invalid syntax

i would be happy about any help or recommendations

i m running pyFoam0.6.2

gschaider · May 7, 2014, 08:01

Quote:

Originally Posted by mmartin

hello

i installed pyFoam on a rhel server but if i run pyFoamPlotRunner

with the syntax

pyFoamPlotRunner.py <OFsolver> -case CASE

pyFoamPlotRunner.py <OFsolver> (in the case folder)

i get following error messageTraceback (most recent call last):
File "/usr/bin/pyFoamPlotRunner.py", line 3, in ?
from PyFoam.Applications.PlotRunner import PlotRunner
File "/usr/lib/python2.4/site-packages/PyFoam/Applications/PlotRunner.py", line 6
from .PyFoamApplication import PyFoamApplication
^
SyntaxError: invalid syntax

i would be happy about any help or recommendations

i m running pyFoam0.6.2

At first: please add output in the CODE-tag (that's be the # in the toolbar above). It makes it much easier to spot where the ^ is actually pointing to.

What kind of RHEL? My guess is that it is not 6. Because the problem you have is one of the rare backward incompatibilities in Python. Relative imports were introduced with python 2.5 (so your Python seems to be 2.4 or older). Ah. Just saw it: it says 2.4 in the output

Options are:
- make the import absolute (just add PyFoam.Applications in front of the dot). Don't know where else this is required. Or make it "oldSchool"-relative by removing the dot in the front
- there are packages python26 or python27 for RHEL that give you a higher-version PyFoam in parallel to the system on (don't EVER replace the system-python on a RHEL-machine). Using that needs a little bit of trickery (especially if you use setup.py)

The reason why PyFoam uses the new-style relative import is that the old way does not work with Python 3 (PyFoam is compatible with python 2.x and 3.x but in order to get that I had to break compatibility with Pythons older than 2.5)

mmartin · May 7, 2014, 08:20

oh sorry i didnt knew that

Code:

File "/usr/bin/pyFoamPlotRunner.py", line 3, in ?
    from PyFoam.Applications.PlotRunner import PlotRunner
  File "/usr/lib/python2.4/site-packages/PyFoam/Applications/PlotRunner.py", line 6
    from .PyFoamApplication import PyFoamApplication
         ^
SyntaxError: invalid syntax

its RHEL 5.10. I already sent your advices to our admin (i m not root)

gschaider · May 8, 2014, 05:35

Quote:

Originally Posted by mmartin

oh sorry i didnt knew that

Code:

File "/usr/bin/pyFoamPlotRunner.py", line 3, in ?
    from PyFoam.Applications.PlotRunner import PlotRunner
  File "/usr/lib/python2.4/site-packages/PyFoam/Applications/PlotRunner.py", line 6
    from .PyFoamApplication import PyFoamApplication
         ^
SyntaxError: invalid syntax

its RHEL 5.10. I already sent your advices to our admin (i m not root)

OK. Recommended is installing a python26/27 binary package and virtualenv. Then create a virtual environment in which you install dependencies. That leaves the system-python clean and allows you to use bleeding-edge versions of the python-packages (if your sysadmin is nice he does this for you). I use a similar setup here (CentOS6 is a LITTLE more advanced than your 5 but for fast-moving libraries like Pandas or Matlab it is hopelessly outdated)

Pekka · October 19, 2015, 16:23

Hi,

I have a similar problem as is reported earlier and I can not find solution to that. My os is rhel 7.1 and same problem occur with pyFoam version 0.6.1 and 0.6.4. Error message is also similar with both pyFoam version.

error:

Code:

[Pekka@Kone4 rotor]$ pyFoamDisplayBlockMesh.py constant/polyMesh/blockMeshDict 
Using system-VTK
Status: blockMesh modified - Ready
 PyFoam WARNING on line 338 of file /home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam/Applications/DisplayBlockMeshQt.py : While reading constant/polyMesh/blockMeshDict this happened: SetInput 
Traceback (most recent call last):
  File "/home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/bin/pyFoamDisplayBlockMesh.py", line 18, in <module>
    DisplayBlockMesh()
  File "/home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam/Applications/DisplayBlockMeshQt.py", line 1338, in __init__
    nr=1)
  File "/home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam/Applications/PyFoamApplicationQt4.py", line 37, in __init__
    exactNr=exactNr)
  File "/home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam/Applications/PyFoamApplication.py", line 356, in __init__
    result=self.run()
  File "/home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam/Applications/PyFoamApplicationQt4.py", line 59, in run
    self.setupGUI()
  File "/home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam/Applications/DisplayBlockMeshQt.py", line 1369, in setupGUI
    valuesFile=self.opts.valuesFile)
  File "/home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam/Applications/DisplayBlockMeshQt.py", line 339, in __init__
    raise e
AttributeError: SetInput

and

Code:

[Pekka@Kone4 rotor]$ pyFoamVersion.py 
Machine info: Linux | Kone4 | 3.10.0-229.14.1.el7.x86_64 | #1 SMP Tue Sep 15 15:05:51 UTC 2015 | x86_64 | x86_64

Python version: 2.7.5 (default, Jun 24 2015, 00:41:19) 
[GCC 4.8.3 20140911 (Red Hat 4.8.3-9)]

Python executable: /usr/bin/python

Python 2.7 is one development platform for PyFoam (along with Python 3)
PYTHONPATH: /home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages:

Location of this utility: /home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/bin/pyFoamVersion.py

 PyFoam WARNING on line 192 of file /home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam/FoamInformation.py : Basedir /home/Pekka/OpenFOAM for fork openfoam does not exist or is not a directory 
Version 3.2 Fork extend of the installed 2 versions:
extend-3.1 : /home/Pekka/foam/foam-extend-3.1
extend-3.2 : /home/Pekka/foam/foam-extend-3.2

pyFoam-Version: 0.6.4
ALERT: Reported version (0, 6, 4) is different from hardcoded version (0, 6, 4, 'development') -> probably inconsistent library installation

Path where PyFoam was found (PyFoam.__path__) is ['/home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch/lib/python2.7/site-packages/PyFoam']

Configuration search path: [('file', '/etc/pyFoam/pyfoamrc'), ('directory', '/etc/pyFoam/pyfoamrc.d'), ('file', '/home/Pekka/foam/foam-extend-3.2/ThirdParty/PyFoamSiteScripts/etc/pyfoamrc'), ('directory', '/home/Pekka/foam/foam-extend-3.2/ThirdParty/PyFoamSiteScripts/etc/pyfoamrc.d'), ('file', '/home/Pekka/.pyFoam/pyfoamrc'), ('directory', '/home/Pekka/.pyFoam/pyfoamrc.d')]
Configuration files (used): ['/home/Pekka/.pyFoam/pyfoamrc']

Installed libraries:
cython               :  No      Not used. Maybe will by used later to spped up parts of PyFoam 
cProfile             :  Yes 
docutils             :  No      Not necessary. Needed for RestructuredText to HTML conversion 
Gnuplot              :  No      Not a problem. Version from ThirdParty is used 
hotshot              :  Yes 
ipdb                 :  No      Not necessary. Only makes debugging more comfortable 
IPython              :  No      Not necessary. But the interactive shell may be more comfortable 
matplotlib           :  Yes      version: 1.2.0 
mercurial            :  Yes      version: 2.6.2 
nose                 :  Yes      version: 1.3.0 
numpy                :  Yes      version: 1.7.1 
openpyxl             :  No      Not a problem. Only used for exporting pandas-data to Excel-files (advanced) 
pandas               :  No      Not a problem. Only used for handling of advanced data-handling 
ply                  :  No      Not a problem. Version from ThirdParty is used 
profile              :  Yes 
psyco                :  No      Not a problem. Acceleration not possible 
PyQt4                :  Yes      version: 4.8.5 
PyQt4.Qwt5           :  No      Only an alternate plotting back-end 
scipy                :  No      Not yet used. Possibly use signal-fitting etc 
Tkinter              :  Yes      version: $Revision: 81008 $ 
twisted              :  No      Not yet used. Possibly reimplement MetaServer with it 
vtk                  :  Yes      version: 6.1.0 
xlwt                 :  No      Not a problem. Only used for exporting pandas-data to Excel-files 
xlrd                 :  No      Not a problem. Only used for importing Excel-files to pandas-data 

Library locations
cProfile             : /usr/lib64/python2.7/cProfile.pyc
hotshot              : /usr/lib64/python2.7/hotshot/__init__.pyc
matplotlib           : /usr/lib64/python2.7/site-packages/matplotlib/__init__.pyc
mercurial            : /usr/lib64/python2.7/site-packages/mercurial/__init__.pyc
nose                 : /usr/lib/python2.7/site-packages/nose/__init__.pyc
numpy                : /usr/lib64/python2.7/site-packages/numpy/__init__.pyc
profile              : /usr/lib64/python2.7/profile.pyc
PyQt4                : /usr/lib64/python2.7/site-packages/PyQt4/__init__.pyc
Tkinter              : /usr/lib64/python2.7/lib-tk/Tkinter.pyc
vtk                  : /usr/lib64/python2.7/site-packages/vtk/__init__.pyc

Checking additional envirnoment variables

Checking for PYFOAM_DIR : Location of the PyFoam-installation. Not strictly necessary
PYFOAM_DIR set to /home/Pekka/foam/foam-extend-3.2/ThirdParty/packages/PyFoam-0.6.4/platforms/noarch

Checking for PYFOAM_SITE_DIR : Location of non-PyFoam-disctributions script. Set and used by some Foam-distributions
PYFOAM_SITE_DIR set to /home/Pekka/foam/foam-extend-3.2/ThirdParty/PyFoamSiteScripts
Site-specific scripts should be added to /home/Pekka/foam/foam-extend-3.2/ThirdParty/PyFoamSiteScripts/bin
Site-specific configurations can be added to /home/Pekka/foam/foam-extend-3.2/ThirdParty/PyFoamSiteScripts/etc
Site-specific library files can be added to /home/Pekka/foam/foam-extend-3.2/ThirdParty/PyFoamSiteScripts/lib Do NOT add to PYTHONPATH but import as PyFoam.Site
[Pekka@Kone4 rotor]$

and

older pyFoam version

Code:

[Pekka@Kone4 angledDuctExplicit]$ pyFoamVersion.py 
Machine info: Linux | Kone4 | 3.10.0-229.14.1.el7.x86_64 | #1 SMP Tue Sep 15 15:05:51 UTC 2015 | x86_64 | x86_64

Python version: 2.7.5 (default, Jun 24 2015, 00:41:19) 
[GCC 4.8.3 20140911 (Red Hat 4.8.3-9)]

Python executable: /usr/bin/python

PYTHONPATH: /home/Pekka/foam/foam-extend-3.1/ThirdParty/packages/PyFoam-0.6.1/platforms/noarch/lib/python2.7/site-packages:

Location of this utility: /home/Pekka/foam/foam-extend-3.1/ThirdParty/packages/PyFoam-0.6.1/platforms/noarch/bin/pyFoamVersion.py

OpenFOAM (3, 1) of the installed versions []

pyFoam-Version: 0.6.1

Path where PyFoam was found (PyFoam.__path__) is ['/home/Pekka/foam/foam-extend-3.1/ThirdParty/packages/PyFoam-0.6.1/platforms/noarch/lib/python2.7/site-packages/PyFoam']

Configuration search path: [('file', '/etc/pyFoam/pyfoamrc'), ('directory', '/etc/pyFoam/pyfoamrc.d'), ('file', '/home/Pekka/.pyFoam/pyfoamrc'), ('directory', '/home/Pekka/.pyFoam/pyfoamrc.d')]
Configuration files (used): ['/home/Pekka/.pyFoam/pyfoamrc']

Installed libraries:
Gnuplot              :  No      Not a problem. Version from ThirdParty is used 
ply                  :  No      Not a problem. Version from ThirdParty is used 
Numeric              :  No      Not supported anymore. No need to install it 
numpy                :  Yes      version: 1.7.1 
matplotlib           :  Yes      version: 1.2.0 
psyco                :  No      Not a problem. Acceleration not possible 
hotshot              :  Yes 
profile              :  Yes 
cProfile             :  Yes 
PyQt4                :  Yes 
PyQt4.Qwt5           :  No      Only an alternate plotting back-end 
vtk                  :  Yes 
Tkinter              :  Yes      version: $Revision: 81008 $ 
mercurial            :  Yes 
nose                 :  Yes      version: 1.3.0 
twisted              :  No      Not yet used. Possibly reimplement MetaServer with it 
pandas               :  No      Not yet used. Maybe handling of timelines will be reimplemented with it 
scipy                :  No      Not yet used. Possibly use signal-fitting etc 

Library locations
profile              : /usr/lib64/python2.7/profile.pyc
Tkinter              : /usr/lib64/python2.7/lib-tk/Tkinter.pyc
hotshot              : /usr/lib64/python2.7/hotshot/__init__.pyc
mercurial            : /usr/lib64/python2.7/site-packages/mercurial/__init__.pyc
vtk                  : /usr/lib64/python2.7/site-packages/vtk/__init__.pyc
matplotlib           : /usr/lib64/python2.7/site-packages/matplotlib/__init__.pyc
PyQt4                : /usr/lib64/python2.7/site-packages/PyQt4/__init__.pyc
nose                 : /usr/lib/python2.7/site-packages/nose/__init__.pyc
cProfile             : /usr/lib64/python2.7/cProfile.pyc
numpy                : /usr/lib64/python2.7/site-packages/numpy/__init__.pyc
[Pekka@Kone4 angledDuctExplicit]$

Thanks in advance
BR/Pekka

wyldckat · October 24, 2015, 18:55

Quick answer @Pekka: VTK 6.1... I don't think that PyFoam is prepared for VTK 6.x, because the API changed considerably between VTK 5.x to 6.x.

How exactly did you install Qt 4.8 and VTK 6.1 in RHEL 7? Was it from the EPEL repositories?

Pekka · October 29, 2015, 15:34

Thank you Bruno!

Problem has been solved by downgrade vtk to older one. I compiled vtk-5.10.1-4 from fc19.src.rpm source package. vtk 6.1.0 is from epel repository.

BR/Pekka

mn14cat · October 26, 2021, 12:25

Hello everyone

I know this thread is years old but I'm hoping someone will still be able help.

I'm trying to use the pyFoamDisplayBlockMesh function but keep getting the following error:

segmentation fault (core dumping).

with no further indication as to the cause of the error. I then set about compiling foam-extend 4 in debug mode which then gave me the following error:

mn14cat@mn14cat-XPS-13-7390:~/foam/mn14cat-4.1/run/tutorials/solidMechanics/elasticSolidFoam/plateHole$ pyFoamDisplayBlockMesh.py constant/polyMesh/blockMeshDict

VTK version 6
PyFoam WARNING on line 48 of file /home/mn14cat/foam/foam-extend-4.1/ThirdParty/packages/PyFoam-0.6.9/platforms/noarch/lib/python2.7/site-packages/PyFoam-0.6.9-py2.7.egg/PyFoam/Applications/DisplayBlockMeshQt.py : VTK version 6 currently unsupported
Segmentation fault (core dumped)

So my question is how would I go about downgrading my version of VTK and which version would be best to run displayMesh.py

thanks in advance and hopefully someone finds this.

May 7, 2014, 06:51	error messages running pyFoamPlotRunner	#28
mmartin New Member Join Date: Aug 2013 Posts: 7 Rep Power: 13	hello i installed pyFoam on a rhel server but if i run pyFoamPlotRunner with the syntax pyFoamPlotRunner.py <OFsolver> -case CASE pyFoamPlotRunner.py <OFsolver> (in the case folder) i get following error messageTraceback (most recent call last): File "/usr/bin/pyFoamPlotRunner.py", line 3, in ? from PyFoam.Applications.PlotRunner import PlotRunner File "/usr/lib/python2.4/site-packages/PyFoam/Applications/PlotRunner.py", line 6 from .PyFoamApplication import PyFoamApplication ^ SyntaxError: invalid syntax i would be happy about any help or recommendations i m running pyFoam0.6.2

October 29, 2015, 15:34		#34
Pekka New Member Join Date: Feb 2010 Posts: 28 Rep Power: 16	Thank you Bruno! Problem has been solved by downgrade vtk to older one. I compiled vtk-5.10.1-4 from fc19.src.rpm source package. vtk 6.1.0 is from epel repository. BR/Pekka wyldckat likes this.

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October 24, 2015, 18:55		#33
wyldckat Retired Super Moderator Bruno Santos Join Date: Mar 2009 Location: Lisbon, Portugal Posts: 10,981 Blog Entries: 45 Rep Power: 128	Quick answer @Pekka: VTK 6.1... I don't think that PyFoam is prepared for VTK 6.x, because the API changed considerably between VTK 5.x to 6.x. How exactly did you install Qt 4.8 and VTK 6.1 in RHEL 7? Was it from the EPEL repositories?

October 26, 2021, 12:25		#35
mn14cat New Member Craig Thomas Join Date: Dec 2019 Location: Leeds, UK Posts: 12 Rep Power: 7	Hello everyone I know this thread is years old but I'm hoping someone will still be able help. I'm trying to use the pyFoamDisplayBlockMesh function but keep getting the following error: segmentation fault (core dumping). with no further indication as to the cause of the error. I then set about compiling foam-extend 4 in debug mode which then gave me the following error: mn14cat@mn14cat-XPS-13-7390:~/foam/mn14cat-4.1/run/tutorials/solidMechanics/elasticSolidFoam/plateHole$ pyFoamDisplayBlockMesh.py constant/polyMesh/blockMeshDict VTK version 6 PyFoam WARNING on line 48 of file /home/mn14cat/foam/foam-extend-4.1/ThirdParty/packages/PyFoam-0.6.9/platforms/noarch/lib/python2.7/site-packages/PyFoam-0.6.9-py2.7.egg/PyFoam/Applications/DisplayBlockMeshQt.py : VTK version 6 currently unsupported Segmentation fault (core dumped) So my question is how would I go about downgrading my version of VTK and which version would be best to run displayMesh.py thanks in advance and hopefully someone finds this.