I apologies for the trivial question but when I tried to run a few scripts this morning that had been working for months I came across the following error message:
import scipy.stats
Traceback (most recent call last):
File "<ipython-input-5-b66176eb2d0a>", line 1, in <module>
import scipy.stats
ImportError: No module named stats
So I get the problem that Python doesn't seem to find the stats package in the scipy folder, yet I double checked that I indeed had a scipy folder in the Python install directory as well as a stats folder within the scipy folder.
I do have the following: C:\Python27\Lib\site-packages\scipy\stats\
I use Spyder, I tried reloading the kernel, closing and reopening Spyder but nothing seems to work.
Further info;
I do have an __init__.py in the scipy folder.
The import scipy command works
attempts to load other packages within scipy also throw the error
Any help would be very welcome if you encountered the same problem before !
EDIT:
Okay so I restarted the kernel from the python console once more and did the following, which works:
import os
os.getcwd()
Out[2]: 'C:\\Python27\\lib\\site-packages'
from scipy import stats
The bug has now moved on to another package...
I suspect that when I am running my script which is located on another drive Python struggles to find the packages. My puzzles me is that it didn't use to.
Related
I tried to download Graphlab from Turi wit the following tutorial. I coded with their tools and tried to compute a Python script but it answered me an ImportError.
(gl-env)ubuntu#ip-172-hey-hey-hey:~/Eclipse-Stats$ source deactivate
discarding /home/ubuntu/anaconda2/envs/gl-env/bin from PATH
ubuntu#ip-172-hey-hey-hey:~/Eclipse-Stats$ unset PYTHONPATH
ubuntu#ip-172-hey-hey-hey:~/Eclipse-Stats$ python Main.py
2017-07-27 14:56:00.520425
/home/ubuntu/.local/lib/python2.7/site-packages/sklearn/cross_validation.py:44: DeprecationWarning: This module was deprecated in version 0.18 in favor of the model_selection module into which all the refactored classes and functions are moved. Also note that the interface of the new CV iterators are different from that of this module. This module will be removed in 0.20.
"This module will be removed in 0.20.", DeprecationWarning)
Traceback (most recent call last):
File "Main.py", line 3, in <module>
import prediction
File "/home/ubuntu/Eclipse-Stats/prediction.py", line 1, in <module>
from graphlab.toolkits.recommender import ranking_factorization_recommender
ImportError: No module named graphlab.toolkits.recommender
Actually it cames often on the server when I tried to download with pip numpy, scipy, sklearn... Like we can see in the following conversation (in Spanish) between FJSevilla and the man of my team I'm working with.
Two things: (1) check the version of your Python console and see if it matches or is higher than the compatibility with the packages. If you look at the depreciation message and read it through, you would understand what is going on a little more. (2) be careful of what you are importing and how you import them because your formatting might also be a syntactic all error. One thing you could do is find the package, manually download, unzip, then run the setup.py.
Im pretty new to working with this side of python so pardon me if I'm a bit off kilter.
I am trying to incorporate PySide into Cryengine's Python 2.7.5 Integration; I used PIP to install the Site - Package to Cryengines Python Directory using the pip install PySide.whl -t CRYENGINE/Editor/Python/Lib/Site - Package command through command prompt.
Here is the script I am trying to run in the Python Shell Of CryEngine:
import sys
import site
site.ENABLE_USER_SITE
print site.USER_BASE
site.addsitedir("F:\SteamLibrary\steamapps\common\CRYENGINE\Editor\Python\Lib\site-packages\PySide")
from PySide import QtGui
app = QtGui.QApplication(sys.argv)
wid = QtGui.QWidget()
wid.resize(250, 150)
wid.setWindowTitle('Simple')
wid.show()
sys.exit(app.exec_())
I get the following error in the Python script terminal:
] from PySide import QtGui
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "C:\Python27\lib\site-packages\PySide\__init__.py", line 41, in <module>
_setupQtDirectories()
File "C:\Python27\lib\site-packages\PySide\__init__.py", line 9, in _setupQtDirectories
from . import _utils
File "C:\Python27\lib\site-packages\PySide\_utils.py", line 31, in <module>
import ctypes
ImportError: No module named ctypes
I used pip to install the PySide wheel files. So its really weird that I am getting this error. I double checked the files that ctypes uses are there, and in the Python 2.7 installation. And all of them are there. I tested this using Python Shell, and it works great! But for some reason when I run it through CryEngine's python 2.7.5 integration even though the file path is to C:\Python27 where all of those file Ctypes files are!
I am almost sure that I am oversimplifying the problem, but I'm not sure where to start getting this problem solved. I want to get this working so I can build an integration that will work for the whole CryEngine Community. I've looked all over the place for a solution, but am really at the end of my rope here.
Any help would be greatly appreciated!!
I am current getting the error
ImportError: cannot import name gof
when importing theano.
>>> import theano
Traceback (most recent call last):
File "<pyshell#3>", line 1, in <module>
import theano
File "C:\Python27\lib\site-packages\theano\__init__.py", line 63, in <module>
from theano.compile import (
File "C:\Python27\lib\site-packages\theano\compile\__init__.py", line 9, in <module>
from theano.compile.function_module import *
File "C:\Python27\lib\site-packages\theano\compile\function_module.py", line 16, in <module>
from theano import gof
ImportError: cannot import name gof
I am using python 2.7.10 (). Theano is installed using pip install --upgrade --no-deps git+git://github.com/Theano/Theano.git.
Hope to get you suggestion to solve this problem
Most of the time, when I see this error, it is caused by those 2 errors:
1) A syntax error in Theano. Update Theano and make sure to have no local modifcation. I nerver saw this error in the master of Theano, but just in case.
2) When there is multiple version of Theano that are installed.
In both case, remove all version of Theano. Do it multiple time to be sure there is none left. Then install again.
From memory, this always solved the problem when it wasn't a syntax error during development (but not in the master version of Theano that you use)
This ImportError can be caused because Theano is unable to compile the gof module itself. If this is the case, you will see an error message that looks like "Exception: Compilation Failed (return status=1): C:\Long\Path\...\mod.cpp:1: sorry, unimplemented: 64-bit mode not compiled in".
Fixing With Conda
If you are installing theano into a conda environment, make sure that you have a C compiler available to that environment.
The command
conda install m2w64-toolchain
will provide a C compiler to your environment that's isolated from the rest of the machine.
After the m2w64-toolchain package is installed, import theano should work
Fixing Manually
If you are installing Theano yourself, two points from these threads may help:
Install the bleeding edge version of Theano
Install libpython from http://www.lfd.uci.edu/%7Egohlke/pythonlibs/
I assume you're using Windows 7 or later.
If you have installed Python Anaconda, then open Windows Powershell or Command Prompt and type conda install mingw libpython before typing pip install theano
Alternatively, if you don't have Anaconda, download those packages from
anaconda.org/anaconda/mingw/files
anaconda.org/anaconda/libpython/files
github.com/Theano/Theano
Then open Command Prompt, navigate to each folder and type python setup.py install
Now run Python and import theano
Possible errors:
If you get the RuntimeError: "To use MKL 2018 with Theano you MUST set "MKL_THREADING_LAYER=GNU" in your environement" then
Go to Control Panel > System > Advanced system settings and select "Environment Variables".
In the "System variables" section, make a new variable name MKL_THREADING_LAYER and set its value to GPU
If you get other kinds of errors, then try the following:
Make an empty file called .theanorc (a file extension without a file name) in your home folder C:\Users\<username>. If you get the error "You must type a file name" then see stackoverflow.com/q/5004633
Open .theanorc and write this:
[global]
cxx=C:\<path to Anaconda>\Anaconda3\MinGW\bin\g++.exe
Run Python again and import theano. If it works, then you can probably delete .theanorc
In my case, the fix was to install a python build that's callable as a shared library:
PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv install 2.7.15
OS: CentOS 6.6
Python 2.7
So, I've (re)installed Canopy after it suddenly stopped working after an abrupt shutdown. It worked fine immediately after the install (I installed as my default Python). But after one reboot, when I try to open it with /root/Canopy/canopy (the icon under applications no longer works, either), I get the following error:
(Canopy 64bit) [xxuser#xxlinux ~]$ /root/Canopy/canopy Traceback (most recent call last): File "/home/xxuser/qiime_software/sphinx-1.0.4-release/lib/python2.7/site-packages/site.py", line 73, in <module>
__boot() File "/home/xxuser/qiime_software/sphinx-1.0.4-release/lib/python2.7/site-packages/site.py", line 2, in __boot
import sys, imp, os, os.path ImportError: No module named path
I found this link: Python - os.path doesn't exist: AttributeError: 'module' object has no attribute 'path', but both of my os.py and os.pyc were 250 and 700 bytes, respectively. There was another file called site.py which was 0 bytes and site.pyc was about 100 bytes. What are these files? And would deleting them hurt anything (which is what they did)? And why is this happening after reboot? (using reboot command).
I also found this: https://groups.google.com/forum/#!topic/spyderlib/hKB15JYyLqM , which could be relevant. I've updated my python path before with sys.path.append('/..')
My guess is that for some reason os.path isn't in sys.path? and __boot can't find it? But I'm new to Python and Linux and want to know what I'm doing before I go modifying any boot files, paths, etc.
Thanks in advance.
More information (saw that I'm supposed to update new info in an edit to original question. New to this.)
From one of the comments:
This is what I got:
import os.path
import posixpath
os.path
module 'posixpath' from '/home/xxuser/qiime_software/python-2.7.3-release/lib/python2.7/posixpath.pyc'
posixpath
module 'posixpath' from '/home/xxuser/qiime_software/python-2.7.3-release/lib/python2.7/posixpath.pyc'
Looks like os.path is there.
Could this have to do with a permissions error? I have it installed to /root/Canopy/canopy and I found this: docs.python.org/2/library/os.html#module-os (section 15.1.4). Does that make sense?
I'm also not sure if the following is related, but it might possibly. I can no longer seem to update my path with sys.path.append('/file/path/here'). It works until I close the terminal, then I have to re-append the next time I want to call a module from the new directory. Are sys.path and os.path related in any way?
Just fixed this on OSX with:
brew uninstall python
brew install python
No idea why, never seen it in 5 years of working with Python :S
It turns out that I was onto something with my last comment.
I'd downloaded a bunch of biology modules that depend on python, and so many of them came with their own install. When I added the modules to ~/.bashrc, my bash began calling them in advance of my original CentOS install. Resetting ~/.bashrc and restarting (for some reason source ~/.bashrc didn't work) eliminated all of the extra stuff I'd added to my $PATH and Canopy began working again. I'm going to go through and remove the extra installations of python and hopefully the issue will be behind me. Thanks to everyone who posted answers, especially A.J., because that's what got me thinking about .bashrc .
Edit: With some better understanding, this was all because of using python in a virtual environment. Canopy was resetting my path every time I opened it. I'm using a self-installed virtual environment now and have configured my path.
Try seeing if you have posixpath by typing import posixpath:
>>> import os.path
>>> os.path
<module 'posixpath' from '/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/posixpath.pyc'>
>>> ^D
bash-3.2$ python
>>> import posixpath
>>> posixpath
<module 'posixpath' from '/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/posixpath.pyc'>
>>>
I tried looking for an answer to this around the forum/google, but I can't find anything. My issue is this (from python console):
>>> import pandas
cannot import name hashtable
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "C:\Python27\lib\site-packages\pandas\__init__.py", line 6, in <module>
from . import hashtable, tslib, lib
ImportError: cannot import name hashtable //also can't import name NaT somtimes
I ran the windows 1-click installer prior to attempting the import. I'm running everything 32-bit. The pandas installer is for python 2.7.
Here's a list of modules that I have correctly imported into Python.
setuptools
pip
mox
dateutil
six
numpy
SQLAlchemy
I'm on windows 7.
I also have anaconda installed, but that was really just a "hail mary" after I tried everything else. My end goal is to install the ultra-finance module. However, it seems to require pandas, hence me being stuck.
I'm a python noob, so please don't assume I know anything. Thanks.
EDIT: please let me know if I can provide any extra information.
The recommended way to install pandas is via pip:
pip install pandas
This hashtables error arises from the cython files not being built. This error message will be more informative from 0.11.1.
Try running your code in Spyder (Anaconda -> Spyder). It worked for me.
Check that you have python scripts included in your system path variable. In my case I had to add "C:\Python27\Scripts"
I was having a similar problem when downloading Pandas to my Windows 8 system. The first error I had was an egg error, but after installing some packages I think I have the solution.
First look at the previous pip errors with Pandas, make sure you have the most updated pip.
The second part is downloading wheel using
pip install wheel
After installing wheel and having the dependencies for panda and using pip it worked correctly.