The following script works fine with python3.6.5 but failed with python3.7.3 in windows 10 (home edition):
mod = __import__(pth, globals(), locals(), ['*'])
With python3.6.5 and python3.7.3, pth, globals() and locals() are almost same as follows (mPayment.py locates in scripts/demo):
pth ==> "scripts.demo.mPayment"
locals() ==> {'pth': 'scripts.demo.mPayment', 'self': <bop.bopModule.MasterModule object at 0x000002586EC3EC88>}
globals() ==> {...} #globals() has nothing to do with "scripts.demo.mPayment"
But with python3.7.3, I got exception:
Exception occurs in importing module demo.mPayment.
Traceback (most recent call last):
File "c:\xxx\b\Module.py", line 50, in _init
mod = __import__(pth, globals(), locals(), ['*'])
ModuleNotFoundError: No module named 'scripts.demo'
Anyone knows what is going on with the __import__() script in python 3.7.3 since it works with python3.6.5. Thanks a lot for your help.
ouyang
I just move the project root path in sys.path to the first one, then __import__() can find those modules.
Related
I am a beginner to PyMOL and I am using it for my docking project. I have encountered errors using the Autodock/Vina plugin in PyMOL.
I was trying to carry out the set up for the grid and Error 1 occurred when I was clicking on the arrow that allows me to change the grid parameter x,y and z.
As for Error 2, it occurs when I tried to generate the receptor on the next page.
Under the log section, I also got a notice saying "Batch: prepare_receptor4.py -r C:\Users\User\Desktop\plugin-test\receptor.3ig7.pdb -o C:\Users\User\Desktop\plugin-test\receptor.3ig7.pdbqt -A checkhydrogen"
It would be appreciated if you would tell me what is missing or should be done to solve these errors.
I look forward to reading any of your replies and I thank you in advance,
Elayne
Error: 1
TypeError Exception in Tk callback
Function: <bound method Autodock.n_points_Y_changed of <pmg_tk.startup.autodock_plugin.Autodock object at 0x0000020649CD9388>> (type: <class 'method'>)
Args: ('scroll', '1', 'units')
Traceback (innermost last):
File "C:\Users\User\AppData\Local\Schrodinger\PyMOL2\lib\site-packages\Pmw.py", line 1823, in __call__
return self.func(*args)
TypeError: n_points_Y_changed() takes 2 positional arguments but 4 were given
Error: 2
FileNotFoundError Exception in Tk callback
Function: <bound method Autodock.generate_receptor of <pmg_tk.startup.autodock_plugin.Autodock object at 0x0000020649CD9388>> (type: <class 'method'>)
Args: ()
Traceback (innermost last):
File "C:\Users\User\AppData\Local\Schrodinger\PyMOL2\lib\site-packages\Pmw.py", line 1823, in __call__
return self.func(*args)
File "C:\Users\User\AppData\Local\Schrodinger\PyMOL2\lib\site-packages\pmg_tk\startup\autodock_plugin.py", line 1940, in generate_receptor
result, output = getstatusoutput(command)
File "C:\Users\User\AppData\Local\Schrodinger\PyMOL2\lib\site-packages\pmg_tk\startup\autodock_plugin.py", line 85, in getstatusoutput
p = Popen(args, stdout=PIPE, stderr=STDOUT, stdin=PIPE, env=env)
File "C:\Users\User\AppData\Local\Schrodinger\PyMOL2\lib\subprocess.py", line 800, in __init__
restore_signals, start_new_session)
File "C:\Users\User\AppData\Local\Schrodinger\PyMOL2\lib\subprocess.py", line 1207, in _execute_child
startupinfo)
FileNotFoundError: [WinError 2] The system cannot find the file specified
I'm also encountering the same issue on Windows, try running a linux distro on vmware and make sure to install Pymol with support for Python 2.7 because the script is not compatible with Python3.
I'm trying to change the directory to the folder that contains the folder I'm in.
That is, I'm in /Users/ethanfuerst/Documents/Coding/mpgdata and I'm trying to go back to /Users/ethanfuerst/Documents/Coding and access a text file in the Coding folder.
When I run this code:
import os
print(os.getcwd())
os.chdir('Users/ethanfuerst/Documents/Coding')
I get this output and error
/Users/ethanfuerst/Documents/Coding/mpgdata
---------------------------------------------------------------------------
FileNotFoundError Traceback (most recent call last)
<ipython-input-19-6c6ee01785f6> in <module>
1 import os
2 print(os.getcwd())
----> 3 os.chdir('Users/ethanfuerst/Documents/Coding')
FileNotFoundError: [Errno 2] No such file or directory: '\u2068Users/ethanfuerst/Documents/Coding'
Does anyone know why this could be the case?
Edit: forgot to mention I am on a Mac
Try using C:\ in front of Users. If that does not work, try using .. in the directory specification to go back one directory.
Use double quotes os.chdir("Users/ethanfuerst/Documents/Coding") instead of os.chdir('Users/ethanfuerst/Documents/Coding')
I'm getting the following error when trying to run psycopg2 in a AWS Lambda:
/var/task/functions/../vendored/psycopg2/_psycopg.so: ELF file's phentsize not the expected size: ImportError
Traceback (most recent call last):
File "/var/task/functions/refresh_mv.py", line 64, in execute
session = SessionFactoryGraphQL.get_session(app=item['app'])
File "/var/task/lib/session_factory.py", line 22, in get_session
engine = create_engine(conn_string, poolclass=NullPool)
File "/var/task/functions/../vendored/sqlalchemy/engine/__init__.py", line 387, in create_engine
return strategy.create(*args, **kwargs)
File "/var/task/functions/../vendored/sqlalchemy/engine/strategies.py", line 80, in create
dbapi = dialect_cls.dbapi(**dbapi_args)
File "/var/task/functions/../vendored/sqlalchemy/dialects/postgresql/psycopg2.py", line 554, in dbapi
import psycopg2
File "/var/task/functions/../vendored/psycopg2/__init__.py", line 50, in <module>
from psycopg2._psycopg import ( # noqa
ImportError: /var/task/functions/../vendored/psycopg2/_psycopg.so: ELF file's phentsize not the expected size
The weird thing is: everything was working fine until yesterday (for more than 5 months), and suddenly stopped working. None of the libraries has been updated.
I tried to build from scratch, as in https://github.com/jkehler/awslambda-psycopg2, but still having the same error.
Can someone help me with it?
The problem is in the latest version of serverless framework. I assume that you are using serverless to deploy your lambda function.
serverless remove
npm install serverless#1.20.2 -g
This should work.
I am working on Python plugins for QGIS. I set my variables as
PATH :=C:\OSGeo4W\apps\qgis;%PATH%
PYTHONPATH:=C:\OSGeo4W\apps\qgis\python
But when i try to run my .py file in IDLE i gets error saying:
Traceback (most recent call last):
File "C:\rt_sql_layer_working\DlgQueryBuilder.py", line 30, in
from qgis.core import *
ImportError: DLL load failed: The specified module could not be found.
what i should set for PATH variable??
I'm using the execnet package to allow communication between Python scripts interpreted by different Python interpreters.
The following code (test_execnet.py):
import execnet
for python_version in ('python', 'python3'):
try:
gw = execnet.makegateway("popen//python="+python_version)
ch = gw.remote_exec('channel.send(1/3)')
res = ch.receive()
print(python_version, ': ', res, sep ="")
except:
print('problems with ', python_version)
Runs perfectly in the command-line Terminal, showing the following output:
$ python3 test_execnet.py
python: 0
python3: 0.333333333333
However, if I try to run the same code from within the Eclipse IDE, I get the following error:
'import site' failed; use -v for traceback
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "<string>", line 4, in <module>
File "<string>", line 2, in <module>
File "/Library/Frameworks/Python.framework/Versions/3.1/lib/python3.1/site-packages/execnet/gateway_base.py", line 8, in <module>
import sys, os, weakref
File "/Library/Frameworks/Python.framework/Versions/3.1/lib/python3.1/os.py", line 380, in <module>
from _abcoll import MutableMapping # Can't use collections (bootstrap)
File "/Library/Frameworks/Python.framework/Versions/3.1/lib/python3.1/_abcoll.py", line 54
class Hashable(metaclass=ABCMeta):
^
SyntaxError: invalid syntax
problems with python
problems with python3
NOTE:
Eclipse Version: 3.6.0
PyDev Interpreter configured for the project: python3
"Preferences/Interpreter - Python"'s Python Interpreters:
python (/usr/bin/python)
python3 (/Library/Frameworks/Python.Framework/Versions/3.1/Resources/Python.app/Contents/MacOS/Python
EDIT:
I write a code to show the os.environ like this:
for python_version in ('python', 'python3'):
try:
import os
for item in os.environ:
print(item, '= ', os.environ[item])
except:
print('problems with ', python_version)
I got the following outputs:
eclipse_output.txt
terminal_output.txt
A FileMerge comparison of the files can be found at eclipse_output.txt vs. terminal_output.pdf.
Any hints?
Thanks
seems like pydev does site-customizations and particularly modifies things for interactive/console usage (judging from a very quick skim of http://github.com/aptana/Pydev/blob/master/plugins/org.python.pydev/pysrc/pydev_sitecustomize/sitecustomize.py ). This is not useful or fitting for execnet-mediated processes.
You could try to "del os.environ['PYTHONPATH']" before you invoke execnet.makegateway, or, to be more careful, just delete the sitecustomize part of it.
hth,
holger
'import site' failed; use -v for traceback
I have seen that when python was unable to find its landmark. Which that indicates there is a PYTHONHOME problem.
Check out http://docs.python.org/using/cmdline.html#envvar-PYTHONHOME maybe eclipse is screwing your environment up.
Edit:
Looked at your env dumps, looks like eclipse is definitely messing with PYTHONPATH, which will cause your child python processes to not work correctly.
Basically what you have going on here is eclipse starts a python v2 instance with a PYTHONPATH pointing to the python v2 directories. Then you spawn a python v3 process which tries to load its landmark from the python v2 directories...
You need to find a way to have eclipse not mess with the PYTHONPATH. I am not sure what eclipse is trying to do by doing that, but it is certainly no friend when you want to spawn new python processes.