URL:
<http://gna.org/bugs/?24962>
Summary: six System / functional tests faiiures against numpy
1.11.1 and scipy 0.18.0
Project: relax
Submitted by: jwhowarth
Submitted on: Thu 11 Aug 2016 02:26:07 PM UTC
Category: Test suite
Specific analysis category: None
Priority: 5 - Normal
Severity: 3 - Normal
Status: None
Assigned to: None
Originator Name:
Originator Email:
Open/Closed: Open
Release: 4.0.2
Discussion Lock: Any
Operating System: Mac OS X
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Details:
On both Mac OS X 10.10 and 10.11, the relax 4.0.2 release suffers 6
regressions in the System / functional tests when built against python 2.7.12,
numpy 1.11.1 and scipy 0.18.0
ERROR: test_cam_quad_int_double_rotor
(test_suite.system_tests.frame_order.Frame_order)
Test the double rotor frame order model of CaM.
ERROR: test_cam_quad_int_double_rotor_large_angle
(test_suite.system_tests.frame_order.Frame_order)
Test the double rotor frame order model of CaM.
ERROR: test_cam_quad_int_double_rotor_large_angle_pcs
(test_suite.system_tests.frame_order.Frame_order)
Test the double rotor frame order model of CaM (with only PCS data).
ERROR: test_cam_quad_int_double_rotor_pcs
(test_suite.system_tests.frame_order.Frame_order)
Test the double rotor frame order model of CaM (with only PCS data).
ERROR: test_cam_quad_int_iso_cone_torsionless
(test_suite.system_tests.frame_order.Frame_order)
Test the second isotropic cone, free rotor frame order model of CaM.
ERROR: test_cam_quad_int_pseudo_ellipse_torsionless
(test_suite.system_tests.frame_order.Frame_order)
Test the second isotropic cone, free rotor frame order model of CaM.
These all have the form...
Traceback (most recent call last):
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/test_suite/system_tests/frame_order.py",
line 1504, in test_cam_quad_int_pseudo_ellipse_torsionless
self.interpreter.run(script_file=self.cam_path+'pseudo_ellipse_torsionless.py')
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/prompt/interpreter.py",
line 279, in run
return run_script(intro=self.__intro_string, local=locals(),
script_file=script_file, show_script=self.__show_script,
raise_relax_error=self.__raise_relax_error)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/prompt/interpreter.py",
line 585, in run_script
return console.interact(intro, local, script_file,
show_script=show_script, raise_relax_error=raise_relax_error)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/prompt/interpreter.py",
line 484, in interact_script
exec_script(script_file, local)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/prompt/interpreter.py",
line 363, in exec_script
runpy.run_module(module, globals)
File "/sw/lib/python2.7/runpy.py", line 192, in run_module
fname, loader, pkg_name)
File "/sw/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/test_suite/system_tests/scripts/frame_order/cam/pseudo_ellipse_torsionless.py",
line 43, in <module>
Analysis(self._execute_uf)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/test_suite/system_tests/scripts/frame_order/cam/base_script.py",
line 106, in __init__
self.optimisation()
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/test_suite/system_tests/scripts/frame_order/cam/base_script.py",
line 196, in optimisation
self._execute_uf(uf_name='minimise.calculate')
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/prompt/interpreter.py",
line 131, in _execute_uf
uf(*args, **kargs)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/prompt/uf_objects.py", line
225, in __call__
self._backend(*new_args, **uf_kargs)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/pipe_control/minimise.py",
line 139, in calc
api.calculate(verbosity=verbosity, scaling_matrix=scaling_matrix)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/specific_analyses/frame_order/api.py",
line 147, in calculate
chi2 = target_fn.func(param_vector)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/target_functions/frame_order.py",
line 1701, in func_pseudo_ellipse_torsionless_quad_int
self.pcs_theta[align_index, j] =
pcs_numeric_quad_int_pseudo_ellipse_torsionless(theta_x=cone_theta_x,
theta_y=cone_theta_y, c=self.pcs_const[align_index, j],
r_pivot_atom=r_pivot_atom, r_ln_pivot=self.r_ln_pivot[0],
A=self.A_3D[align_index], R_eigen=self.R_eigen, RT_eigen=RT_eigen,
Ri_prime=self.Ri_prime)
File
"/sw/src/fink.build/relax-py27-4.0.2-1/relax-4.0.2/lib/frame_order/pseudo_ellipse_torsionless.py",
line 492, in pcs_numeric_quad_int_pseudo_ellipse_torsionless
result = dblquad(pcs_pivot_motion_torsionless_quad_int, -pi, pi, lambda
phi: 0.0, pseudo_ellipse, args=(r_pivot_atom, r_ln_pivot, A, R_eigen,
RT_eigen, Ri_prime))
File "/sw/lib/python2.7/site-packages/scipy/integrate/quadpack.py", line
495, in dblquad
return nquad(func, [lambda x: [gfun(x), hfun(x)], [a, b]], args=args)
File "/sw/lib/python2.7/site-packages/scipy/integrate/quadpack.py", line
705, in nquad
return _NQuad(func, ranges, opts, full_output).integrate(*args)
File "/sw/lib/python2.7/site-packages/scipy/integrate/quadpack.py", line
760, in integrate
**opt)
File "/sw/lib/python2.7/site-packages/scipy/integrate/quadpack.py", line
315, in quad
points)
File "/sw/lib/python2.7/site-packages/scipy/integrate/quadpack.py", line
380, in _quad
return _quadpack._qagse(func,a,b,args,full_output,epsabs,epsrel,limit)
File "/sw/lib/python2.7/site-packages/scipy/integrate/quadpack.py", line
749, in integrate
low, high = fn_range(*args)
TypeError: <lambda>() takes exactly 1 argument (7 given)
_______________________________________________________
File Attachments:
-------------------------------------------------------
Date: Thu 11 Aug 2016 02:26:07 PM UTC Name: system_tests.log.bz2 Size: 26kB
By: jwhowarth
<http://gna.org/bugs/download.php?file_id=28265>
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<http://gna.org/bugs/?24962>
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[bug #24962] six System / functional tests faiiures against numpy 1.11.1 and scipy 0.18.0