I am trying to install SimpleElastix/SimpleITK on an Ubuntu computer for either Python2 or 3, whichever we can get to work. Using pip install doesn't work as various methods don't import then (e.g. no "GetDefaultParameterMethod" exists). I tried following the instructions on their website (https://simpleelastix.readthedocs.io/GettingStarted.html#compiling-on-linux), but even though no errors are thrown throughout the process, I am still unable to import.
For Python3, the typical "No module" error pops up, but for Python2 I get the following:
>>> import SimpleITK as sitk
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/lib/python2.7/dist-packages/SimpleITK-1.0.1rc1.dev345+g9dfa8-py2.7-linux-x86_64.egg/SimpleITK/__init__.py", line 1, in <module>
from .SimpleITK import *
File "/usr/local/lib/python2.7/dist-packages/SimpleITK-1.0.1rc1.dev345+g9dfa8-py2.7-linux-x86_64.egg/SimpleITK/SimpleITK.py", line 17, in <module>
_SimpleITK = swig_import_helper()
File "/usr/local/lib/python2.7/dist-packages/SimpleITK-1.0.1rc1.dev345+g9dfa8-py2.7-linux-x86_64.egg/SimpleITK/SimpleITK.py", line 16, in swig_import_helper
return importlib.import_module('_SimpleITK')
File "/usr/lib/python2.7/importlib/__init__.py", line 37, in import_module
__import__(name)
ImportError: No module named _SimpleITK
Any help would be greatly appreciated :)
Related
when running "src/bitmessagemain.py" in the terminal it shows
Traceback (most recent call last):
File "src/bitmessagemain.py", line 33, in <module>
import shared
File "/home/otsudo/Desktop/PyBitmessage-0.6/src/shared.py", line 19, in <module>
import highlevelcrypto
File "/home/otsudo/Desktop/PyBitmessage-0.6/src/highlevelcrypto.py", line 16, in <module>
from bmconfigparser import BMConfigParser
File "/home/otsudo/Desktop/PyBitmessage-0.6/src/bmconfigparser.py", line 10, in <module>
from six import string_types
ImportError: No module named six
I am guessing it has to do something with the virtualenv due to bitmessage still running on python 2.7 but I cant figure it out. I've made the environment for bitmessage to run in and I keep getting the error.
You probably don't have the six Python module installed,
try this:
pip install six
I am trying to plot with geopandas with this [tutorial][1]. However, whenever I run this: I find following errors:
Traceback (most recent call last):
File "/home/mahin/PycharmProjects/ProfessorEick-20191013T041703Z-001/ProfessorEick/KernelDensity2D/GeoPandasPlot.py", line 2, in <module>
import geoplot
File "/home/mahin/miniconda3/lib/python3.7/site-packages/geoplot/__init__.py", line 1, in <module>
from .geoplot import (
File "/home/mahin/miniconda3/lib/python3.7/site-packages/geoplot/geoplot.py", line 17, in <module>
import contextily as ctx
File "/home/mahin/miniconda3/lib/python3.7/site-packages/contextily/__init__.py", line 7, in <module>
from .place import Place, plot_map
File "/home/mahin/miniconda3/lib/python3.7/site-packages/contextily/place.py", line 6, in <module>
from .tile import howmany, bounds2raster, bounds2img, _sm2ll, _calculate_zoom
File "/home/mahin/miniconda3/lib/python3.7/site-packages/contextily/tile.py", line 20, in <module>
from rasterio.io import MemoryFile
ModuleNotFoundError: No module named 'rasterio.io'
I have tried installing rasterio using conda from the following link and also using the following instructions. However, the problem still exists. Anybody knows what could be the reason? My operating system is Ubuntu 18.06, I am running the code using pyccharm and my python version is 3.7.
I am using requests module in my python program. It worked great in the previous day. But now, when importing requests module, it is showing a weird error. It is working great in python2 version. But shows error in python3. I googled it but can't find a solution. I haven't changed anything. Why it is showing this error.
Here it is:
>>> import requests
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/home/paulsteven/.local/lib/python3.5/site-packages/requests/__init__.py", line 95, in <module>
from urllib3.contrib import pyopenssl
File "/home/paulsteven/.local/lib/python3.5/site-packages/urllib3/contrib/pyopenssl.py", line 46, in <module>
import OpenSSL.SSL
File "/home/paulsteven/.local/lib/python3.5/site-packages/OpenSSL/__init__.py", line 8, in <module>
from OpenSSL import rand, crypto, SSL
File "/home/paulsteven/.local/lib/python3.5/site-packages/OpenSSL/rand.py", line 11, in <module>
from OpenSSL._util import (
File "/home/paulsteven/.local/lib/python3.5/site-packages/OpenSSL/_util.py", line 3, in <module>
from cryptography.hazmat.bindings.openssl.binding import Binding
File "/home/paulsteven/.local/lib/python3.5/site-packages/cryptography/hazmat/bindings/openssl/binding.py", line 188, in <module>
_verify_package_version(cryptography.__version__)
File "/home/paulsteven/.local/lib/python3.5/site-packages/cryptography/hazmat/bindings/openssl/binding.py", line 175, in _verify_package_version
so_package_version = ffi.string(lib.CRYPTOGRAPHY_PACKAGE_VERSION)
AttributeError: cffi library '_openssl' has no function, constant or global variable named 'CRYPTOGRAPHY_PACKAGE_VERSION'
Reinstalling cryptography package will resolve this problem.
Tried anaconda today , it seems fine but when I tried to launch Spyder each time I get this error: Traceback (most recent call last):
File "C:\ProgramData\Anaconda3\Scripts\spyder-script.py", line 6, in <module>
from spyder.app.start import main
File "C:\ProgramData\Anaconda3\lib\site-packages\spyder\app\start.py", line 23, in <module>
from spyder.utils.external import lockfile
File "C:\ProgramData\Anaconda3\lib\site-packages\spyder\utils\external\lockfile.py", line 22, in <module>
import psutil
File "C:\Users\Jaker\AppData\Roaming\Python\Python36\site-packages\psutil\__init__.py", line 126, in <module>
from . import _pswindows as _psplatform
File "C:\Users\Jaker\AppData\Roaming\Python\Python36\site-packages\psutil\_pswindows.py", line 16, in <module>
from . import _psutil_windows as cext
ImportError: cannot import name '_psutil_windows'
Any help regarding this ? Also how do I get python 3.6.3 in anaconda..?
The problem is you have two Python versions installed in your system: one in C:\ProgramData\Anaconda3\ and the other in C:\Users\Jaker\AppData\Roaming\Python\Python36.
Please uninstall one of them and the problem will be solved.
While python3 expects modules to be in /usr/local/lib/python3.4, pip3 installs them in /usr/local/lib/python3.4/dist-packages. This results in python3 not finding packages that pip3 says are installed.
I tried cutting and pasting the stuff in /usr/local/lib/python3.4/dist-packages to /usr/local/lib/python3.4, but I end up with weird errors, like this:
Traceback (most recent call last):
File "setup.py", line 13, in <module>
from Cython.Build import cythonize
File "/usr/local/lib/python3.4/Cython/Build/__init__.py", line 1, in <module>
from .Dependencies import cythonize
File "/usr/local/lib/python3.4/Cython/Build/Dependencies.py", line 51, in <module>
from ..Compiler.Main import Context, CompilationOptions, default_options
File "/usr/local/lib/python3.4/Cython/Compiler/Main.py", line 30, in <module>
from .Symtab import ModuleScope
File "/usr/local/lib/python3.4/Cython/Compiler/Symtab.py", line 18, in <module>
from . import PyrexTypes
File "/usr/local/lib/python3.4/Cython/Compiler/PyrexTypes.py", line 17, in <module>
from .Code import UtilityCode, LazyUtilityCode, TempitaUtilityCode
ImportError: /usr/local/lib/python3.4/Cython/Compiler/Code.cpython-34m.so: undefined symbol: PyFPE_jbuf
What do I do now? I'm on Linux Mint Cinnamon 64-bit.
[EDIT]
This problem was a complete mess and I still have no clue what happened before. I have given up trying to get Python to work, as I have found an application that does the same thing as the Python application I was trying to get working. It's such a pain.