While using the IBM Quantum experience, whenever I want to install any driver an error with the h5py appears.
Specifically, the error is
"Using default_file_mode other than 'r' is no longer supported. Pass
the mode to h5py.File() instead."
Does anyone have any solutions to it (not sure which version to revert back to). Thanks!!
You will need to add more details about your question. I could not replicate your error based on the information you provided. This is what I did:
First, I installed Qiskit Nature with this command pip install qiskit[nature].
Next, I entered the following Python commands:
>>> from qiskit_nature.drivers.second_quantization import HDF5Driver
>>> h5f = HDF5Driver()
>>> h5f
<qiskit_nature.drivers.second_quantization.hdf5d.hdf5driver.HDF5Driver object at 0x7fa28320a820>
>>> h5f.run()
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/opt/virtualenvs/python3/lib/python3.8/site-packages/qiskit_nature/drivers/second_quantization/hdf5d/hdf5driver.py", line 63, in run
raise LookupError(f"HDF5 file not found: {hdf5_file}")
LookupError: HDF5 file not found: molecule.hdf5
There is no error when I imported the HDF5Driver module from the qiskit_nature package. An error occurs when I enter h5f.run(). This is expected, because I don't have a file named molecule.hdf5 (the default filename). If you have a different filename, modify commands above to use h5f = HDF5Driver("your_filename").
Tests run with Python 3.8.12 and qiskit_nature 0.3.0 running on Ubuntu Linux 5.11.0-1023-gcp.
Related
I've developed a PyQT5 app that also uses Numpy, Pandas and Plotly. To package it up I decided to use Nuitka however since the product is for the end users who won't be familiar with Python, I want to make sure the interpreter is packaged up along with the app as a single binary (similar to PyInstaller).
I'm running the following command however have been getting errors that I'm struggling to figure out how to fix:
$ python -m nuitka --standalone --show-progress --recurse-all --plugin-enable=numpy main.py
I'm using PyCharm and all the libraries are in the Virtual Environment in project directory. The version of Python I'm using is 3.9.
An executable binary is generated in Windows however upon running I receive the following error message:
C:\Users\user\PycharmProjects\PlotlyExample\main.dist>main
Traceback (most recent call last):
File "C:\Users\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\numpy\core\__init__.py", line 22, in <module numpy.core>
File "C:\Users\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\numpy\core\multiarray.py", line 12, in <module numpy.core.multiarray>
File "C:\Users\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\numpy\core\overrides.py", line 7, in <module numpy.core.overrides>
ImportError: LoadLibraryExW 'C:\Users\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\numpy\core\_multiarray_umath.pyd' failed: The specified module could not be found.
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "C:\Users\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\main.py", line 5, in <module>
File "C:\Users\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\numpy\__init__.py", line 140, in <module numpy>
File "C:\Users\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\numpy\core\__init__.py", line 48, in <module numpy.core>
ImportError:
IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE!
Importing the numpy C-extensions failed. This error can happen for
many reasons, often due to issues with your setup or how NumPy was
installed.
We have compiled some common reasons and troubleshooting tips at:
https://numpy.org/devdocs/user/troubleshooting-importerror.html
Please note and check the following:
* The Python version is: Python3.9 from "C:\Users\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\python.exe"
* The NumPy version is: "1.19.3"
and make sure that they are the versions you expect.
Please carefully study the documentation linked above for further help.
Original error was: LoadLibraryExW 'C:\Users\\user\PYCHAR~1\PLOTLY~1\MAIN~1.DIS\numpy\core\_multiarray_umath.pyd' failed: The specified module could not be found.
Sample Code:
https://pastebin.com/RjRYUk0C
Any ideas? Thanks!
I am pretty new in Python. I have created my first program script in pyhton, using spyder. I am getting below error when executing the python script through Command Prompt.
Error - C:\Users\rkuma388\Documents\Project\Python>ETL_ProvJenny_ReportScreen_CoachListLoad.py
Traceback (most recent call last):
File "C:\Users\rkuma388\Documents\Project\Python\ETL_ProvJenny_ReportScreen_CoachListLoad.py", line 10, in
import pandas as pd
File "C:\Users\XXXXX\AppData\Local\Continuum\anaconda3\lib\site-packages\pandas_init_.py", line 19, in
"Missing required dependencies {0}".format(missing_dependencies))
ImportError: Missing required dependencies ['numpy']
but when running in spyder, it is running fine and giving output.
Do I need to install any additional thing to make it execute in CMD ? Please suggest.
Thanks in advance.
Following are the options you can try:
Even though it is not a real solution, you can uninstall and reinstall numpy with pip.
Check whether you PATH is configured correctly to point to Python folder
getting up to speed on Anaconda, I keep receiving an error message when I try to import 'numpy' into Python.
Here is what I have done so far:
Downloaded anaconda from anaconda.com (64-Bit Graphical
Installer (466 MB) with Python 3.7 for Windows);
Installed anaconda (under C:\Users\'Username'\Anaconda3 | Option 'Register Anaconda3 as my default Python 3.7')
Now I'm trying to import numpy into Python using idle.exe, which produces following error message:
Warning: os.path.expanduser("~") points to
h:\,
but the path does not exist.
Futhermore, after executing "'import 'numpy;" in IDLE I get the following error message.
Unfortunately none of the advice was helpful. Numpy seems to be properly installed.
Warning (from warnings module): File "C:\Users\'Username'\Anaconda3\lib\site-
packages\numpy\__init__.py", line 140
from . import _distributor_init
UserWarning: mkl-service package failed to import, therefore Intel(R) MKL
initialization ensuring its correct out-of-the box operation under condition
when Gnu OpenMP had already been loaded by Python process is not assured.
Please install mkl-service package, see http://github.com/IntelPython/mkl-
service
Traceback (most recent call last):
File "C:\Users\'Username'\Anaconda3\lib\site-packages\numpy\core\__init__.py",
line 24, in <module>
from . import multiarray
File "C:\Users\'Username'\Anaconda3\lib\site-packages\numpy\core\multiarray.py",
line 14, in <module>
from . import overrides
File "C:\Users\'Username'\Anaconda3\lib\site-packages\numpy\core\overrides.py",
line 7, in <module>
from numpy.core._multiarray_umath import (
ImportError: DLL load failed: The specified module could not be found.
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "C:\Users\'Username'\Anaconda3\Scripts\myscripts\import_test.py", line 1,
in <module>
import numpy
File "C:\Users\'Username'\Anaconda3\lib\site-packages\numpy\__init__.py", line
142, in <module>
from . import core
File "C:\Users\'Username'\Anaconda3\lib\site-packages\numpy\core\__init__.py",
line 54, in <module>
raise ImportError(msg)
ImportError:
IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE!
Importing the numpy c-extensions failed.
- Try uninstalling and reinstalling numpy.
- If you have already done that, then:
1. Check that you expected to use Python3.7 from
"C:\Users\'Username'\Anaconda3\python.exe",
and that you have no directories in your PATH or PYTHONPATH that can
interfere with the Python and numpy version "1.18.1" you're trying to use.
2. If (1) looks fine, you can open a new issue at
https://github.com/numpy/numpy/issues. Please include details on:
- how you installed Python
- how you installed numpy
- your operating system
- whether or not you have multiple versions of Python installed
- if you built from source, your compiler versions and ideally a build log
- If you're working with a numpy git repository, try `git clean -xdf`
(removes all files not under version control) and rebuild numpy.
Note: this error has many possible causes, so please don't comment on
an existing issue about this - open a new one instead.
Original error was: DLL load failed: The specified module could not be found.
Many thanks in advance for any help and suggestions.
I need to open SVS images in Python 3.7 and it seems that Openslide is the only module capable of opening images of that size (30k*30k pixels). I have used pip install openslide-python as well as python -m pip install openslide-python and pip 3 install... etc.
I know the module has been successfully installed because if I run any of those commands again the command line returns requirement already satisfied however when I run Python and try to import openslide it gives the error at the bottom.
My guess was that the .whl or .tar.gz files were in the wrong path so I made a bunch of copies and put them in the openslide folders within the Anaconda3 folder. The error persists. I have included the full error code below for clarity.
Extra: If I run help("modules") openslide shows up along with numpy, math, sklearn etc. I can import and run all other modules without issue.
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "C:\Users\brimk\Anaconda3\lib\site-packages\openslide\__init__.py", line 29, in <module>
from openslide import lowlevel
File "C:\Users\brimk\Anaconda3\lib\site-packages\openslide\lowlevel.py", line 41, in <module>
_lib = cdll.LoadLibrary('libopenslide-0.dll')
File "C:\Users\brimk\Anaconda3\lib\ctypes\__init__.py", line 434, in LoadLibrary
return self._dlltype(name)
File "C:\Users\brimk\Anaconda3\lib\ctypes\__init__.py", line 356, in __init__
self._handle = _dlopen(self._name, mode)
OSError: [WinError 126] The specified module could not be found
My issue was resolved by the answer from my hero!
It seems that, at least for Openslide, running Python from the Path to the Bin is the easiest solution. It can be done this way.
Download the Windows Binary here.
Extract the download to whatever path you want.
Open command window
pip3 install openslide-python (pip2 if Python 2)
cd C:\Users\Path\to\Openslide-Win64-20171122\bin
python
import openslide
In the future you will have to run python from the path to the Openslide bin (Step 4). This can be done more rigorously by adding that file path to the PATH as described in detail here as well as in the answer above.
Whenever I try to open Jupyter Notebook from the Anaconda GUI (or conda terminal), I get the following error:
Traceback (most recent call last):
File "C:\Users\loops\AppData\Local\Continuum\anaconda3\lib\site-packages\notebook\services\sessions\sessionmanager.py", line 10, in
import sqlite3
File "C:\Users\loops\AppData\Local\Continuum\anaconda3\lib\sqlite3\__init__.py", line 23, in
from sqlite3.dbapi2 import *
File "C:\Users\loops\AppData\Local\Continuum\anaconda3\lib\sqlite3\dbapi2.py", line 27, in
from _sqlite3 import *
ImportError: DLL load failed: The specified procedure could not be found.
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "C:\Users\loops\AppData\Local\Continuum\anaconda3\Scripts\jupyter-notebook-script.py", line 6, in
from notebook.notebookapp import main
File "C:\Users\loops\AppData\Local\Continuum\anaconda3\lib\site-packages\notebook\notebookapp.py", line 86, in
from .services.sessions.sessionmanager import SessionManager
File "C:\Users\loops\AppData\Local\Continuum\anaconda3\lib\site-packages\notebook\services\sessions\sessionmanager.py", line 13, in
from pysqlite2 import dbapi2 as sqlite3
ModuleNotFoundError: No module named 'pysqlite2'
I've gone so far as to uninstall Python, uninstall Anaconda, remove all python related path variables, and reinstall Anaconda with Python. This still has not worked. Is there any way to resolve this error? I've looked on many different sites but I haven't found much help.
EDIT: To add more context, it broke randomly one day and I don't have the slightest idea why. Anaconda had worked for a year or so prior. I checked both scripts that are referenced in the error prompt and they both exist in the directory.
I had the same problem.
The issue seems to arise from the missing of sqlite3.dll in the path ".\Anaconda\Dlls".(if using an env, you should put it under the env directory like ".\your env\DLLS") I solved it by simply copying that .dll file from others and put it under the path mentioned above.
You can download the sqlite3.dll from this link: sqlite3.dll