<div dir="ltr"><br><div class="gmail_extra"><br><div class="gmail_quote">On Sat, Jun 2, 2018 at 9:57 AM, Mark Alexander Mikofski <span dir="ltr"><<a href="mailto:mikofski@berkeley.edu" target="_blank">mikofski@berkeley.edu</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hi All,<div><br></div><div>I am having issues using </div><div><br></div><div> python runtest.py </div><div><br></div><div>from scipy master branch since commit 14de485c053cc275682bc7de0316fc<wbr>ca72b341f8</div><div><a href="https://github.com/scipy/scipy/tree/14de485c053cc275682bc7de0316fcca72b341f8" target="_blank">https://github.com/scipy/<wbr>scipy/tree/<wbr>14de485c053cc275682bc7de0316fc<wbr>ca72b341f8</a><br></div><div><br></div><div>there are two tracebacks, I think this may have something to do with changes to LAPACK and dropping Apple Accelerate support, but not sure, and don't know how to fix it. Should I brew install openblas? (I'm going to try that)</div></div></blockquote><div><br></div><div>Yes that is the recommendation (if you're not using Anaconda).<br><br> <br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div> Use anaconda and create a conda env? (maybe this next?)</div></div></blockquote><div><br></div><div>If you're already using Anaconda, and the numpy from the defaults channel, SciPy should automatically link against MKL.<br><br></div><div> <br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div> Currently I'm using python 3.6 from homebrew in a virtualenv with wheels from PyPI, after I create the virtualenv using the homebrew python-3 interpreter, I do pip install requirements.txt (see attached).</div><div><br></div><div>1st traceback:</div><div><br></div><div><div>ImportError while importing test module '/Users/markmikofski/Projects/<wbr>scipy/build/testenv/lib/<wbr>python3.6/site-packages/scipy/<wbr>cluster/tests/test_hierarchy.<wbr>py'.</div><div>Hint: make sure your test modules/packages have valid Python names.</div><div>Traceback:</div><div>scipy/cluster/__init__.py:27: in <module></div><div> from . import vq, hierarchy</div><div>scipy/cluster/vq.py:75: in <module></div><div> from scipy.spatial.distance import cdist</div><div>scipy/spatial/__init__.py:97: in <module></div><div> from ._spherical_voronoi import SphericalVoronoi</div><div>scipy/spatial/_spherical_<wbr>voronoi.py:19: in <module></div><div> from scipy.spatial.distance import pdist</div><div>scipy/spatial/distance.py:123: in <module></div><div> from ..linalg import norm</div><div>scipy/linalg/__init__.py:207: in <module></div><div> from ._decomp_update import *</div><div>_decomp_update.pyx:1: in init scipy.linalg._decomp_update</div><div> ???</div><div>E ImportError: dlopen(/Users/markmikofski/<wbr>Projects/scipy/build/testenv/<wbr>lib/python3.6/site-packages/<wbr>scipy/linalg/<a href="http://cython_lapack.cpython-36m-darwin.so" target="_blank">cython_lapack.<wbr>cpython-36m-darwin.so</a>, 2): Symbol not found: _cbbcsd_</div><div>E Referenced from: /Users/markmikofski/Projects/<wbr>scipy/build/testenv/lib/<wbr>python3.6/site-packages/scipy/<wbr>linalg/<a href="http://cython_lapack.cpython-36m-darwin.so" target="_blank">cython_lapack.cpython-<wbr>36m-darwin.so</a></div><div>E Expected in: flat namespace</div><div>E in /Users/markmikofski/Projects/<wbr>scipy/build/testenv/lib/<wbr>python3.6/site-packages/scipy/<wbr>linalg/<a href="http://cython_lapack.cpython-36m-darwin.so" target="_blank">cython_lapack.cpython-<wbr>36m-darwin.so</a></div></div></div></blockquote><div><br></div><div>This is with an already built SciPy right, without rebuilding? That would explain the uninformative traceback.<br><br><div>Cheers,<br></div><div>Ralf<br></div><br> <br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div><br></div><div>2nd traceback:</div><div><br></div><div><div>ImportError while importing test module '/Users/markmikofski/Projects/<wbr>scipy/build/testenv/lib/<wbr>python3.6/site-packages/scipy/<wbr>integrate/tests/test_banded_<wbr>ode_solvers.py'.</div><div>Hint: make sure your test modules/packages have valid Python names.</div><div>Traceback:</div><div>scipy/integrate/__init__.py:<wbr>93: in <module></div><div> from ._bvp import solve_bvp</div><div>scipy/integrate/_bvp.py:10: in <module></div><div> from scipy.sparse.linalg import splu</div><div>scipy/sparse/linalg/__init__.<wbr>py:114: in <module></div><div> from .isolve import *</div><div>scipy/sparse/linalg/isolve/__<wbr>init__.py:8: in <module></div><div> from .lgmres import lgmres</div><div>scipy/sparse/linalg/isolve/<wbr>lgmres.py:13: in <module></div><div> from ._gcrotmk import _fgmres</div><div>scipy/sparse/linalg/isolve/_<wbr>gcrotmk.py:10: in <module></div><div> from scipy.linalg import (get_blas_funcs, qr, solve, svd, qr_insert, lstsq)</div><div>E ImportError: cannot import name 'qr_insert'</div></div><div><br></div><div>I apologize for not trying to research and trouble shoot this more myself, but I've a tight window while my kids are at gymnastics to go running, and you all know the drill, just thought I'd ask to see if anyone had ever run across this issue before.</div><div><br></div><div>Thanks for your help! Sorry for the intrusion!</div><div><br></div><div>All the best,</div><div>Mark<span class="HOEnZb"><font color="#888888"><br clear="all"><div><br></div>-- <br><div class="m_-8396775105666611142gmail_signature"><div dir="ltr"><div><div><span style="font-size:12.8px">Mark Mikofski, PhD (2005)</span><br></div><div><span style="font-size:12.8px"><i>Fiat Lux</i></span><br></div></div></div></div>
</font></span></div></div>
<br>______________________________<wbr>_________________<br>
SciPy-Dev mailing list<br>
<a href="mailto:SciPy-Dev@python.org">SciPy-Dev@python.org</a><br>
<a href="https://mail.python.org/mailman/listinfo/scipy-dev" rel="noreferrer" target="_blank">https://mail.python.org/<wbr>mailman/listinfo/scipy-dev</a><br>
<br></blockquote></div><br></div></div>