py2app with anaconda Python 3 "missing constraints" error - python-3.x

Question

I am trying to compile a bare-bones wxPython project in Python 3 using py2app.
py2app 0.13 <pip>
wxPython 4.0.0a3.dev3059+4a5c5d9 <pip>
Python 3.5.3 :: Anaconda custom (x86_64)
OS X 10.12.4
Here is my setup.py file:
from setuptools import setup
import sys
sys.setrecursionlimit(2000) # need this to prevent max recursion depth reached
APP = ['wx_py2app.py']
DATA_FILES = []
OPTIONS = {'plist': {'PyRuntimeLocations':
['/Users/***/anaconda/lib/libpython3.5m.dylib',
'/Users/***/Python/simple_examples/dist/wx_py2app.app/Contents/Frameworks/libpython3.5m.dylib']}
}
setup(
app=APP,
data_files=DATA_FILES,
options={'py2app': OPTIONS},
setup_requires=['py2app'],
)
Here is my wxPython code:
import wx
class simpleapp_wx(wx.Frame):
def __init__(self, parent, wx_id, title):
wx.Frame.__init__(self, parent, wx_id, title, size=(100, 100))
self.Show()
if __name__ == "__main__":
app = wx.App()
frame = simpleapp_wx(None, -1, 'my application')
app.MainLoop()
I had to make a few patches. First, I had to hard code /Users/***/anaconda/lib/libpython3.5m.dylib into py2app/build_app.py, or else it would look for libpython3.5.dylib instead and crash here:
ValueError: '/Users/***/anaconda/lib/libpython3.5.dylib'
Second, I patched PyQt5/uic/port_v2/load_plugin.py to avoid a syntax error, and PyQt5/uic/port_v2/ascii_upper.py which was using deprecated string.maketrans.
My bare-bones project works fine in alias mode, but in non-alias mode the project compiles, but then when I open it it immediately terminates:
Detected missing constraints for <private>. It cannot be placed because there are not enough constraints to fully define the size and origin. Add the missing constraints, or set translatesAutoresizingMaskIntoConstraints=YES and constraints will be generated for you. If this view is laid out manually on macOS 10.12 and later, you may choose to not call [super layout] from your override. Set a breakpoint on DETECTED_MISSING_CONSTRAINTS to debug. This error will only be logged once.
As a side note, my project does work without this problem when I compile it in alias mode. Otherwise, I haven't been able to figure out anything about this error. How can I debug or fix this?