I compiled VTK 7.0 (6.3 has the same effect) over cmake with following params:
-LIBRARY_OUTPUT_PATH:PATH="" -CMAKE_INSTALL_PREFIX:PATH="/usr/local" -VTK_ENABLE_VTKPYTHON:BOOL="1" -Module_vtkPython:BOOL="1" - -VTK_Group_Qt:BOOL="1" -CMAKE_OBJCOPY:FILEPATH="/usr/bin/objcopy" -VTK_RENDERING_BACKEND:STRING="OpenGL2" -VTK_INSTALL_PYTHON_MODULE_DIR:PATH="/usr/local/lib/python2.7/site-packages" -DVTK_EGL_DEVICE_INDEX:STRING="0" -VTK_WRAP_PYTHON:BOOL="1" -Module_vtkGUISupportQtOpenGL:BOOL="1"
Now i can find the binary "vtkpython" at /usr/local/bin .
Good news:
I am allowed to enter python shell with the command "vtkpython" out of this directory (/usr/local/bin) with all the needed vtk bindings.
markovich#markovich-desktop:~$ cd /usr/local/bin/
markovich#markovich-desktop:/usr/local/bin$ vtkpython
vtk version 7.0.0
Python 2.7.10 (default, Oct 14 2015, 16:09:02)
[GCC 5.2.1 20151010] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import vtk
>>> vtk
<module 'vtk' from '/usr/local/lib/python2.7/site-packages/vtk/__init__.py'>
>>>
Thats a bit irritating because i am expecting to run my default python environement and the vtk bindings are available.
so the bad news:
if I type python in my shell or vtkpython from another location on my system the shell says "no modulen named vtk found" on calling import vtk .
markovich#markovich-desktop:~$ vtkpython
vtk version 7.0.0
Python 2.7.10 (default, Oct 14 2015, 16:09:02)
[GCC 5.2.1 20151010] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import vtk
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ImportError: No module named vtk
>>>
Question 1: Maybe I missed something in the make configuration ?
Question 2: If I take the actual status (which is somehow working): Is it possible integrate the "vtkpython" bindings in my default python environment? If I am not totally wrong. The binding is correctly loaded out of my python2.7 path like you can see in the terminal:
<module 'vtk' from '/usr/local/lib/python2.7/site-packages/vtk/__init__.py'>
So how can I add this module to be loaded in Python environment?
Since loading vtkpython clearly shows that you have the module available somewhere on your system, you should be able to add the location of the vtk module to your PYTHONPATH variable.
Find where the vtk module is installed (try /usr/local/lib/python2.7/site-packages, you should see a /vtk folder). If you're unsure, you could try to find it in vtkpython with
import vtk
import imp
imp.find_module('vtk')
You can check what paths are stored in PYTHONPATH by entering in terminal:
echo $PYTHONPATH
(In my install, it was empty by default.)
Then you can add the vtk folder location to your PYTHONPATH in terminal:
export PYTHONPATH=$PYTHONPATH:/usr/local/lib/python2.7/site-packages
Check if vtk is availabe:
$ python
>>> import vtk
If it works, you can add the export... line above into your ~/.bashrc or ~/.profile (as appropriate per your distro installation) to permanently load the option in PYTHONPATH.
Related
Problem solved.
If you add your path to PYTHONPATH, you can import the packages inside that path. But what I am doing is try to import that path, this is wrong.
So in this case, I make a sub Dir at my path and that dir is now a package can be imported.
Still I have to include my path in file>settings>project structure as source.
==========================================================================
I am using python3.6 in anaconda, Ubuntu16.04.
I have my own package in path /home/gph/pyutils_gph.
Inside this dir are utils.py files. I have include this path in PYTHONPATH.
I can do
Python 3.6.8 |Anaconda, Inc.| (default, Dec 30 2018, 01:22:34)
[GCC 7.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> from pyutils_gph import utils
>>>
in terminal. But the same import code shows error in pycharm. It can find my package, indicating it with red lines.
What else should I do to make pycharm know my own package?
==========================================================================
I opened the terminal inside pycharm, get output like below. I have that dir in PYTHONPATH, but I can not import it. What's wrong?
Python 3.6.8 |Anaconda, Inc.| (default, Dec 30 2018, 01:22:34)
[GCC 7.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import sys
>>> sys.path
['', '/home/gph/pyutils_gph', '/home/gph/Desktop/BorderSecure/detection_cnn/src', '/home/gph/anaconda3/envs/py36_torch0.4/lib/python36.zip', '/home/gph/anaconda3/envs/py36_torch0.4/lib/python3.6', '/home/gph/anaconda3/envs/py36_torch0.4/lib/python3.6/lib-dynload', '/home/gph/anaconda3/envs/py36_torch0.4/lib/python3.6/site-packages']
>>> from pyutils_gph import utils
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ModuleNotFoundError: No module named 'pyutils_gph'
>>>
If you have /home/gph/pyutils_gph in PYTHONPATH and you do from pyutils_gph import utils then it is looking for
"/home/gph/pyutils_gph/" + "pyutils_gph/utils.py`
because from pyutils_gph import utils means pyutils_gph/utils.py and it adds it to every path from PYTHONPATH
You have to add to PYTHONPATH
/home/gph
and then it will give
"/home/gph/" + "pyutils_gph/utils.py`
so you get correct path
First version can works in terminal if you run Anaconda in folder /home/gph because Python search packages also in current working directory so it finds pyutils_gph/utils.py directly in /home/gph without using PYTHONPATH
If you will go to different folder then it will not find local pyutils_gph/utils.py and you get the same error.
I found importing modules in Python complicated, so I'm doing experiments to clear it up. Here is my file structure:
PythonTest/
package/
__init__.py
test.py
Content of __init__.py:
package = 'Variable package in __init__.py'
from package import test
Content of test.py:
from package import package
print package
When I stay out of package(in PythonTest), and execute python package/test.py, I get:
Traceback (most recent call last):
File "package/test.py", line 1, in <module>
from package import package
ImportError: No module named package
The expected output is Variable package in __init__.py. What am I doing wrong?
However, I can get the expected output in the interactive mode:
sunqingyaos-MacBook-Air:PythonTest sunqingyao$ python
Python 2.7.10 (default, Oct 23 2015, 19:19:21)
[GCC 4.2.1 Compatible Apple LLVM 7.0.0 (clang-700.0.59.5)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import package
Package in __init__.py
First Let's see how Python search for packages and modules. sys.path
A list of strings that specifies the search path for modules. Initialized from the environment variable PYTHONPATH, plus an installation-dependent default.
That's the search paths. Therefore, if your module/package is located in one of sys.path, python interpreter is able to find and import it. The doc says more:
As initialized upon program startup, the first item of this list, path[0], is the directory containing the script that was used to invoke the Python interpreter. If the script directory is not available (e.g. if the interpreter is invoked interactively or if the script is read from standard input), path[0] is the empty string, which directs Python to search modules in the current directory first.
I modified test.py as an example.
import sys; import pprint
pprint.pprint(sys.path)
from package import package
print package
There are two cases:
$ python package/test.py
['/Users/laike9m/Dev/Python/TestPython/package',
'/usr/local/lib/python2.7/site-packages/doc2dash-2.1.0.dev0-py2.7.egg',
'/usr/local/lib/python2.7/site-packages/zope.interface-4.1.3-py2.7-macosx-10.10-x86_64.egg',
'/usr/local/lib/python2.7/site-packages/six-1.10.0-py2.7.egg',
'/usr/local/lib/python2.7/site-packages/colorama-0.3.3-py2.7.egg',
As you see, path[0] is /Users/laike9m/Dev/Python/TestPython/package, which is the directory containing the script test.py that was used to invoke the Python interpreter.
$ python
Python 2.7.12 (default, Jun 29 2016, 14:05:02)
[GCC 4.2.1 Compatible Apple LLVM 7.3.0 (clang-703.0.31)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import package
['',
'/usr/local/lib/python2.7/site-packages/doc2dash-2.1.0.dev0-py2.7.egg',
'/usr/local/lib/python2.7/site-packages/zope.interface-4.1.3-py2.7-macosx-10.10-x86_64.egg',
'/usr/local/lib/python2.7/site-packages/six-1.10.0-py2.7.egg',
'/usr/local/lib/python2.7/site-packages/colorama-0.3.3-py2.7.egg',
...
Now comes the second case, when invoked interactively, "path[0] is the empty string, which directs Python to search modules in the current directory first." What's the current directory? /Users/laike9m/Dev/Python/TestPython/.(look this is the path on my machine, it's equivalent to the path to PythonTest in your case)
Now you know the answers:
Why did python package/test.py give ImportError: No module named package?
Because the interpreter does not "see" the package. For the interpreter to be aware of package package, PythonTest has to be in sys.path, but it's not.
Why did this work in interactive mode?
Because now PythonTest is in sys.path, so the interpreter is able to locate package package.
I cannot find the test module in my Anaconda's version of Python. Can anyone help me fix this. This module is used by the dpkt library that I am trying to use.
Python 2.7.8 |Anaconda 2.1.0 (x86_64)| (default, Aug 21 2014, 15:21:46)
[GCC 4.2.1 (Apple Inc. build 5577)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
Anaconda is brought to you by Continuum Analytics.
Please check out: http://continuum.io/thanks and https://binstar.org
>>> import test
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ImportError: No module named test
Quick Fix: You can checkout a copy of pystone.py from the cpython github repository and copy it to a test directory that is present in your PYTHONPATH. Or you would copy it to a test directory in your python project's root (ugly way).
Perhaps Anaconda Python does not ship with a copy of the test module. This is a standard part of Python 2.7. Other times, users accidentally overwrite their Python standard library's test module with something else. You can try to use the Python version that is shipped with OS X instead. If that fails as well, then try to see which test module is being loaded, and go from there.
import test
print test
Alpine Linux ships a python2-tests package.
the quickest way to fetch it if you don't have an Alpine lxc container is from a main repo here (or apk fetch python2-tests inside lxc).
the .apk can be uncompressed with an archiver to a .tar.gz & then just uncompress again.
I installed 64bit package of cefpython in Ubuntu 12.04 LTS (http://code.google.com/p/cefpython/). The problem is I am not able to run the examples. It says no module named wx.
But when I navigate to the directory /usr/local/lib/python2.7/dist-packages/cefpython1 and do import wx it works. So basically I am not able to import wx outside that directory. I am using python interpreter on terminal.
rishi:cefpython1 ls
cefclient cefpython_py27.pyc chrome.pak examples __init__.pyc LICENSE.txt wx
cefpython_py27.py cefpython_py27.so devtools_resources.pak __init__.py libcef.so locales
rishi:cefpython1 python
Python 2.7.3 (default, Sep 26 2013, 20:03:06)
[GCC 4.6.3] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import wx
>>>
[2]+ Stopped python
rishi:cefpython1 cd ..
rishi:dist-packages python
Python 2.7.3 (default, Sep 26 2013, 20:03:06)
[GCC 4.6.3] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import wx
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ImportError: No module named wx
>>>
KeyboardInterrupt
>>>
My PATH is as follows and PYTHONPATH is empty:
installed 64bit package of cefpython in Ubuntu 12.04 LTS (http://code.google.com/p/cefpython/). The problem is I am not able to run the examples. It says no module named wx. But when I navigate to the directory /usr/local/lib/python2.7/dist-packages/cefpython1 and do import wx it works. So basically I am not able to import wx outside that directory. I am using python interpreter on terminal.
rishi:dist-packages echo $PATH
/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
rishi:dist-packages echo $PYTHONPATH
rishi:dist-packages echo $PYTHONPATH
rishi:dist-packages
Your problem here is that python has no idea where you are importing from. Refer to This post for instructions. Basically, what is happening is that when you're in the directory, python knows to look for it (it looks for python files and packages in the directory). You need to add the python libraries into the PYTHONPATH.
I've recently given up on macports and gone to homebrew. I'm trying to be able to import numpy and scipy. I seem to have installed everything correctly, but when I type python in terminal, it seems to run the default mac python.
I'm on OSX 10.8.4
I followed this post: python homebrew by default
and tried to move the homebrew directory to the front of my %PATH by entering
export PATH=/usr/local/bin:/usr/local/sbin:~/bin:$PATH
then "echo $PATH" returns
/opt/local/bin:/opt/local/sbin:/opt/local/bin:/opt/local/sbin:/opt/local/bin:/opt/local/sbin:/opt/local/bin:/opt/local/sbin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin
however when I look for where my python is by "which python", I get
/usr/bin/python
For some reason when I import numpy in interpreter it works but not so for scipy.
Python 2.7.2 (default, Oct 11 2012, 20:14:37)
[GCC 4.2.1 Compatible Apple Clang 4.0 (tags/Apple/clang-418.0.60)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import numpy
>>> import scipy
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ImportError: No module named scipy
>>>
What do I need to do to get python to run as my homebrew-installed python? Should this fix my problem and allow me to import scipy?
Homebrew puts things in a /usr/local/Cellar/<appname> directory, if I'm not mistaken. You should find the bin of the python in there and put it in your path before hitting /usr/bin.
For example, on my 10.8, python is located at /usr/local/Cellar/python/2.7.5/bin and I put that directory before /usr/bin/python in my PATH variable.
I do that similarly for other instances of me wanting to use homebrew version of an app, another example being sqlite.