Date: Mon, 04 Feb 2019 16:33:54 +0000 From: bugzilla-noreply@freebsd.org To: ports-bugs@FreeBSD.org Subject: [Bug 235499] science/py-abipy Message-ID: <bug-235499-7788@https.bugs.freebsd.org/bugzilla/>
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https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=3D235499 Bug ID: 235499 Summary: science/py-abipy Product: Ports & Packages Version: Latest Hardware: i386 OS: Any Status: New Severity: Affects Only Me Priority: --- Component: Individual Port(s) Assignee: yuri@freebsd.org Reporter: rmason@mun.ca Flags: maintainer-feedback?(yuri@freebsd.org) Assignee: yuri@freebsd.org Running abiview as per the abinit RF2 tutorial produces an error: abiview.py-3.6 ddb trf2_3_DDB -sns=3Dtalk Traceback (most recent call last): File "/usr/local/bin/abiview.py-3.6", line 15, in <module> from abipy import abilab File "/usr/local/lib/python3.6/site-packages/abipy/abilab.py", line 43, in <module> from abipy.electrons.ebands import (ElectronBands, ElectronBandsPlotter, ElectronDos, ElectronDosPlotter, File "/usr/local/lib/python3.6/site-packages/abipy/electrons/__init__.py", line 3, in <module> from .gsr import * File "/usr/local/lib/python3.6/site-packages/abipy/electrons/gsr.py", line 20, in <module> from abipy.tools.tensors import Stress File "/usr/local/lib/python3.6/site-packages/abipy/tools/tensors.py", line 10, in <module> from pymatgen.analysis.elasticity.tensors import Tensor, SquareTensor File "/usr/local/lib/python3.6/site-packages/pymatgen/analysis/elasticity/__init= __.py", line 5, in <module> from .elastic import * File "/usr/local/lib/python3.6/site-packages/pymatgen/analysis/elasticity/elasti= c.py", line 14, in <module> from scipy.integrate import quad File "/usr/local/lib/python3.6/site-packages/scipy/integrate/__init__.py", line 93, in <module> from ._bvp import solve_bvp File "/usr/local/lib/python3.6/site-packages/scipy/integrate/_bvp.py", li= ne 11, in <module> from scipy.optimize import OptimizeResult File "/usr/local/lib/python3.6/site-packages/scipy/optimize/__init__.py", line 271, in <module> from ._minimize import * File "/usr/local/lib/python3.6/site-packages/scipy/optimize/_minimize.py", line 32, in <module> from ._trustregion_constr import _minimize_trustregion_constr File "/usr/local/lib/python3.6/site-packages/scipy/optimize/_trustregion_constr/= __init__.py", line 4, in <module> from .minimize_trustregion_constr import _minimize_trustregion_constr File "/usr/local/lib/python3.6/site-packages/scipy/optimize/_trustregion_constr/= minimize_trustregion_constr.py", line 10, in <module> from .equality_constrained_sqp import equality_constrained_sqp File "/usr/local/lib/python3.6/site-packages/scipy/optimize/_trustregion_constr/= equality_constrained_sqp.py", line 5, in <module> from .projections import projections File "/usr/local/lib/python3.6/site-packages/scipy/optimize/_trustregion_constr/= projections.py", line 9, in <module> from sksparse.cholmod import cholesky_AAt File "sksparse/cholmod.pyx", line 240, in init sksparse.cholmod AssertionError The same error can be triggered thus: Python 3.6.8 (default, Jan 3 2019, 20:20:29)=20 [GCC 4.2.1 Compatible FreeBSD Clang 6.0.0 (tags/RELEASE_600/final 326565)] = on freebsd11 Type "help", "copyright", "credits" or "license" for more information. >>> import spglib >>> import pymatgen >>> from abipy import abilab I have tested py27-abinit with the same result. I have tested abipy instal= led from both the FreeBSD repository and from my own poudriere repository. In = each case the same error occurs. This is my first FreeBSD bug report: please accept my apology if it is incomplete in some way. Thanks, Roger --=20 You are receiving this mail because: You are the assignee for the bug.=
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