You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
I encountered the follow error when running python3.7 setup.py build_ext --inplace in the /fastStructure/vars folder. Compilation worked fine in the /fastStructure/ folder...
Would appreciate any help to get this working!
running build_ext
skipping 'utils.c' Cython extension (up-to-date)
Compiling allelefreq.pyx because it changed.
Compiling marglikehood.pyx because it changed.
[1/2] Cythonizing allelefreq.pyx
/u/yxeng/.local/lib/python3.7/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: ./allelefreq.pxd
tree = Parsing.p_module(s, pxd, full_module_name)
Error compiling Cython file:
------------------------------------------------------------
...
# use an iterative fixed-point solver to update parameter estimates.
var_beta, var_gamma = self._unconstrained_solver(Dvarbeta, Dvargamma)
# if a variable violates positivity constraint,
# set it to an estimate from the previous update
bad_beta = reduce(utils.OR,[(var_beta<=0),np.isnan(var_beta)])
^
------------------------------------------------------------
allelefreq.pyx:148:19: undeclared name not builtin: reduce
Traceback (most recent call last):
File "setup.py", line 25, in <module>
ext_modules = cythonize(ext_modules)
File "/u/yxeng/.local/lib/python3.7/site-packages/Cython/Build/Dependencies.py", line 1115, in cythonize
cythonize_one(*args)
File "/u/yxeng/.local/lib/python3.7/site-packages/Cython/Build/Dependencies.py", line 1238, in cythonize_one
raise CompileError(None, pyx_file)
Cython.Compiler.Errors.CompileError: allelefreq.pyx
The text was updated successfully, but these errors were encountered:
I encountered the follow error when running
python3.7 setup.py build_ext --inplace
in the/fastStructure/vars
folder. Compilation worked fine in the/fastStructure/
folder...Would appreciate any help to get this working!
The text was updated successfully, but these errors were encountered: