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PyInstaller FileNotFoundError "scipy.libs"

I'm trying to compile my python project into an exe with PyInstaller
pyinstaller -F --hidden-import=win32timezone --add-data "./data;data/" .\serviceWrapper.py
But when trying to execute I get the following error on importing linear_model from scikit-learn:
Traceback (most recent call last):
File "serviceWrapper.py", line 12, in <module>
from main import main
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "PyInstaller\loader\pyimod02_importers.py", line 493, in exec_module
File "main.py", line 26, in <module>
import src.stromAufskalierungDE as stromAufskalierungDE
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "PyInstaller\loader\pyimod02_importers.py", line 493, in exec_module
File "src\stromAufskalierungDE.py", line 4, in <module>
from sklearn import linear_model
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "PyInstaller\loader\pyimod02_importers.py", line 493, in exec_module
File "sklearn\__init__.py", line 82, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "PyInstaller\loader\pyimod02_importers.py", line 493, in exec_module
File "sklearn\base.py", line 17, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "PyInstaller\loader\pyimod02_importers.py", line 493, in exec_module
File "sklearn\utils\__init__.py", line 22, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "PyInstaller\loader\pyimod02_importers.py", line 493, in exec_module
File "scipy\__init__.py", line 76, in <module>
File "scipy\__init__.py", line 67, in _delvewheel_init_patch_1_1_0
File "os.py", line 1111, in add_dll_directory
FileNotFoundError: [WinError 2] Das System kann die angegebene Datei nicht finden: 'C:\\Users\\07945A\\AppData\\Local\\Temp\\_MEI552362\\scipy.libs'
in english it'd be: FileNotFoundError: [WinError 2] No such file or directory: 'C:\\Users\\07945A\\AppData\\Local\\Temp\\_MEI552362\\scipy.libs'
It seems to be missing something from the scipy module, I tried to include --hidden-import=scipy and --hidden-import=scipy.libs, but that also didn't help.
How can I include this scipy.libs?

Option
--add-data "path/to/venv/Lib/site-packages/scipy.libs;scipy.libs/"
solved this problem for me.

Problem importing pandas with py2app on macos

When I use py2app with option -An all work.
But without I have an error with pandas import.
I try an example code:
import sys
from PyQt5.QtWidgets import QApplication, QWidget
import pandas as pd
def main():
df = pd.read_csv("data.csv")
app = QApplication(sys.argv)
file = "theme.stylesheet"
w = QWidget()
w.resize(250, 150)
w.move(300, 300)
w.setWindowTitle('Simple')
with open(file,'r') as fh:
w.setStyleSheet(fh.read())
w.show()
sys.exit(app.exec_())
if __name__ == '__main__':
main()
And then python setup.py py2app
With setup.py:
from setuptools import setup
APP = ['main.py']
OPTIONS = {'argv_emulation': True}
DATA_FILES = ['theme.stylesheet', 'data.csv']
setup(
app=APP,
data_files=DATA_FILES,
options={'py2app':OPTIONS},
setup_requires=['py2app']
)
But I have this error:
Traceback (most recent call last):
File "<frozen zipimport>", line 259, in load_module
File "pandas/_libs/tslibs/conversion.pyc", line 14, in <module>
File "pandas/_libs/tslibs/conversion.pyc", line 10, in __load
File "imp.pyc", line 342, in load_dynamic
File "<frozen importlib._bootstrap>", line 711, in _load
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 1181, in exec_module
File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
File "pandas/_libs/tslibs/conversion.pyx", line 1, in init pandas._libs.tslibs.conversion
ModuleNotFoundError: No module named 'pandas._libs.tslibs.base'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<frozen zipimport>", line 259, in load_module
File "pandas/_libs/missing.pyc", line 14, in <module>
File "pandas/_libs/missing.pyc", line 10, in __load
File "imp.pyc", line 342, in load_dynamic
File "<frozen importlib._bootstrap>", line 711, in _load
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 1181, in exec_module
File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
File "pandas/_libs/missing.pyx", line 1, in init pandas._libs.missing
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "pandas/_libs/tslibs/__init__.pyc", line 31, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 261, in load_module
KeyError: 'pandas._libs.tslibs.conversion'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<frozen zipimport>", line 259, in load_module
File "pandas/_libs/hashtable.pyc", line 14, in <module>
File "pandas/_libs/hashtable.pyc", line 10, in __load
File "imp.pyc", line 342, in load_dynamic
File "<frozen importlib._bootstrap>", line 711, in _load
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 1181, in exec_module
File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
File "pandas/_libs/hashtable.pyx", line 1, in init pandas._libs.hashtable
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 261, in load_module
KeyError: 'pandas._libs.missing'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<frozen zipimport>", line 259, in load_module
File "pandas/_libs/interval.pyc", line 14, in <module>
File "pandas/_libs/interval.pyc", line 10, in __load
File "imp.pyc", line 342, in load_dynamic
File "<frozen importlib._bootstrap>", line 711, in _load
File "<frozen importlib._bootstrap>", line 680, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 1181, in exec_module
File "<frozen importlib._bootstrap>", line 228, in _call_with_frames_removed
File "pandas/_libs/interval.pyx", line 1, in init pandas._libs.interval
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 261, in load_module
KeyError: 'pandas._libs.hashtable'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/Users/jaysenoner/PycharmProjects/final/dist/main.app/Contents/Resources/__boot__.py", line 411, in <module>
_run()
File "/Users/jaysenoner/PycharmProjects/final/dist/main.app/Contents/Resources/__boot__.py", line 394, in _run
exec(compile(source, path, "exec"), globals(), globals())
File "/Users/jaysenoner/PycharmProjects/final/dist/main.app/Contents/Resources/main.py", line 6, in <module>
import pandas as pd
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "pandas/__init__.pyc", line 22, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "pandas/compat/__init__.pyc", line 15, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "pandas/compat/numpy/__init__.pyc", line 7, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "pandas/util/__init__.pyc", line 1, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "pandas/util/_decorators.pyc", line 14, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "pandas/_libs/__init__.pyc", line 13, in <module>
File "<frozen importlib._bootstrap>", line 1007, in _find_and_load
File "<frozen importlib._bootstrap>", line 986, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 664, in _load_unlocked
File "<frozen importlib._bootstrap>", line 627, in _load_backward_compatible
File "<frozen zipimport>", line 261, in load_module
I try to use pyinstaller but when I open the app instant close.
If I use it by Windows that's works fine, but no in macos that I need.
I also tried to put pandas in packages of setup.py and includes but still not work.

I solved this problem downgrade python to 3.6 by 3.9.

OSError: [Errno 9] Bad file descriptor when installing pip

Recently I tried to run a program with python but when using one of the libraries I had installed (Eel) it gave me a bunch of errors. Same when I tried to uninstall the library or fix it, or list its location using pip. I figured I'd just reinstall python to get it fixed, but now I can't even install pip without getting the following error:
Traceback (most recent call last):
File "get-pip.py", line 23682, in <module>
main()
File "get-pip.py", line 198, in main
bootstrap(tmpdir=tmpdir)
File "get-pip.py", line 83, in bootstrap
from pip._internal.commands.install import InstallCommand
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "C:\Users\danie\AppData\Local\Temp\tmp8nq4wz5i\pip.zip\pip\_internal\commands\install.py", line 17, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "C:\Users\danie\AppData\Local\Temp\tmp8nq4wz5i\pip.zip\pip\_internal\cli\req_command.py", line 16, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "C:\Users\danie\AppData\Local\Temp\tmp8nq4wz5i\pip.zip\pip\_internal\index\collector.py", line 14, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "C:\Users\danie\AppData\Local\Temp\tmp8nq4wz5i\pip.zip\pip\_vendor\requests\__init__.py", line 125, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "C:\Users\danie\AppData\Local\Temp\tmp8nq4wz5i\pip.zip\pip\_vendor\requests\utils.py", line 27, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "C:\Users\danie\AppData\Local\Temp\tmp8nq4wz5i\pip.zip\pip\_vendor\requests\_internal_utils.py", line 11, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "C:\Users\danie\AppData\Local\Temp\tmp8nq4wz5i\pip.zip\pip\_vendor\requests\compat.py", line 65, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 671, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 779, in exec_module
File "<frozen importlib._bootstrap_external>", line 915, in get_code
File "<frozen importlib._bootstrap_external>", line 973, in get_data
OSError: [Errno 9] Bad file descriptor

Oddly enough, fixed by just waiting a day - even restarting my computer didn't work. But the next day as I went to test the issue, it worked again.

How to fix, 'PyInstallerImportError: Failed to load dynlib/dll', while executing executable file in docker?

I created the executable file for a Python-Django application using PyInstaller. I am trying to run the executable file in docker, which gives me the error. This is the dll which is missing: /home/user/app/mxnet/libmxnet.so' , which is already present in the .exe file folder.
The exe file gets executed when not run using Docker. Tried manually installing mxnet and running the docker image, but still not working
import mxnet
Error:
Performing system checks...
Unhandled exception in thread started by <function check_errors.<locals>.wrapper at 0x7f2a02dde510>
Traceback (most recent call last):
File "PyInstaller/loader/pyiboot01_bootstrap.py", line 149, in __init__
File "ctypes/__init__.py", line 347, in __init__
OSError: libgomp.so.1: cannot open shared object file: No such file or directory
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "django/utils/autoreload.py", line 227, in wrapper
File "django/core/management/commands/runserver.py", line 125, in inner_run
File "django/core/management/base.py", line 359, in check
File "django/core/management/base.py", line 346, in _run_checks
File "django/core/checks/registry.py", line 81, in run_checks
File "django/core/checks/urls.py", line 16, in check_url_config
File "django/core/checks/urls.py", line 26, in check_resolver
File "django/urls/resolvers.py", line 254, in check
File "django/utils/functional.py", line 35, in __get__
File "django/urls/resolvers.py", line 405, in url_patterns
File "django/utils/functional.py", line 35, in __get__
File "django/urls/resolvers.py", line 398, in urlconf_module
File "importlib/__init__.py", line 126, in import_module
File "<frozen importlib._bootstrap>", line 986, in _gcd_import
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "app/urls.py", line 18, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "engine/urls.py", line 17, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "engine/views.py", line 6, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "engine/util.py", line 4, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "models.py", line 5, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "common_util.py", line 11, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "sap/train.py", line 21, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "sap/util.py", line 8, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "mxnet/__init__.py", line 24, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "mxnet/context.py", line 24, in <module>
File "<frozen importlib._bootstrap>", line 969, in _find_and_load
File "<frozen importlib._bootstrap>", line 958, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 673, in _load_unlocked
File "/usr/local/lib/python3.5/dist-packages/PyInstaller/loader/pyimod03_importers.py", line 627, in exec_module
File "mxnet/base.py", line 213, in <module>
File "mxnet/base.py", line 204, in _load_lib
File "PyInstaller/loader/pyiboot01_bootstrap.py", line 151, in __init__
__main__.PyInstallerImportError: Failed to load dynlib/dll '/home/akash/app/mxnet/libmxnet.so'. Most probably this dynlib/dll was not found when the application was frozen.

scipy.optimize._trlib._trlib.array' has no attribute '__reduce_cython__' when using pyinstaller

I want to make my project to an exe file, however, when I open main.exe after pyinstaller's processing, there is an error in CMD.
My environment is Win10, python3.6.2, using PyQt5 as GUI, scapy3k to sniff packets.
Or there is an alternative way to turn my project into exe?
Traceback (most recent call last):
File "main.py", line 103, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scapy\all.py", line 16, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scapy\arch\__init__.py", line 25, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "networkx\__init__.py", line 93, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "networkx\linalg\__init__.py", line 9, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "networkx\linalg\algebraicconnectivity.py", line 105, in <module>
File "networkx\linalg\algebraicconnectivity.py", line 122, in _LUSolver
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\sparse\linalg\__init__.py", line 118, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\sparse\linalg\matfuncs.py", line 19, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\special\__init__.py", line 648, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\special\_ellip_harm.py", line 7, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 646, in _load_unlocked
File "<frozen importlib._bootstrap>", line 616, in _load_backward_compatible
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 714, in load_module
module = loader.load_module(fullname)
File "_ellip_harm_2.pyx", line 7, in init scipy.special._ellip_harm_2
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\integrate\__init__.py", line 93, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\integrate\_bvp.py", line 11, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\optimize\__init__.py", line 241, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\optimize\_minimize.py", line 28, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\optimize\_trustregion_krylov.py", line 2, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 631, in exec_module
exec(bytecode, module.__dict__)
File "scipy\optimize\_trlib\__init__.py", line 1, in <module>
File "<frozen importlib._bootstrap>", line 961, in _find_and_load
File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 646, in _load_unlocked
File "<frozen importlib._bootstrap>", line 616, in _load_backward_compatible
File "d:\python36\lib\site-packages\pyinstaller-3.4.dev0+ab8fd9753-py3.6.egg\PyInstaller\loader\pyimod03_importers.py", line 714, in load_module
module = loader.load_module(fullname)
File "stringsource", line 103, in init scipy.optimize._trlib._trlib
AttributeError: type object 'scipy.optimize._trlib._trlib.array' has no attribute '__reduce_cython__'
The source code of my program is here:
The Github link to my program
What's wrong?

Throwing a long code and your whole github directory does not make for easy bug fixing. See: https://github.com/cython/cython/issues/1953
I used cython and pyinstaller with no issues.
There is cxfreeze but I do not recommend it. It's a older, buggier version of pyinstaller without the updating feature of pyupdater.

In the main python code, type the following code:
from scipy import optimize
Then run pyinstaller to generate the exe file.