Problem with testing sfepy with numpy 1.9.2 ...
After normal inplace build process (ubuntu 12.04 64bit, Anaconda+python 2.7.9) I run testing and got one failure in module test_mesh_smoothing.py Here is the output of the command: % test_mesh_smoothing.py <<< directory: tests, test files: 1 <<< tests/test_mesh_smoothing.py sfepy: left over: ['verbose', '__builtins__', '_filename', '__file__', 'get_volume', '__package__', '__doc__', '__name__', 'TestCommon', 'op']
test instance prepared (1 test(s)) sfepy: reading mesh [line2, tri3, quad4, tetra4, hexa8] (/home/rpezer/Software/sfepy/meshes/3d/cylinder.vtk)... sfepy: ...done in 0.02 s
Traceback (most recent call last): File "run_tests.py", line 206, in <module> main() File "run_tests.py", line 197, in main run_tests(stats, dirname, [filename]) File "run_tests.py", line 131, in run_tests n_fail, n_total, test_time = run_test(conf_name, options) File "run_tests.py", line 99, in run_test ok, n_fail, n_total = test.run(options.debug) File "/home/rpezer/Software/sfepy/sfepy/base/testing.py", line 58, in run ret = test_method() File "/home/rpezer/Software/sfepy/tests/test_mesh_smoothing.py", line 45, in test_mesh_smoothing vol0 = get_volume(conn, mesh.coors) File "/home/rpezer/Software/sfepy/tests/test_mesh_smoothing.py", line 26, in get_volume vols = mul * dets_fast(mtx.copy()) File "/home/rpezer/Software/sfepy/sfepy/linalg/utils.py", line 80, in dets_fast lapack_routine = lapack_lite.dgetrf AttributeError: 'module' object has no attribute 'dgetrf' I checked the file sfepy/linalg/utils.py and found out that numpy 1.9.2 [MKL] lapack_lite really has no dgetrf (older version do have) attribute. It seems to me easy to fix but maybe I am too naive. Any suggestions?
Hi Robert,
thanks for the bug report. I guess the fix is just replacing dets_fast() with numpy.linalg.det(), as it is vectorized in recent numpy versions. We will check it and fix it soon.
r.
On 06/24/2015 12:55 PM, Robert Pezer wrote:
After normal inplace build process (ubuntu 12.04 64bit, Anaconda+python 2.7.9) I run testing and got one failure in module test_mesh_smoothing.py Here is the output of the command: % test_mesh_smoothing.py <<< directory: tests, test files: 1 <<< tests/test_mesh_smoothing.py sfepy: left over: ['verbose', '__builtins__', '_filename', '__file__', 'get_volume', '__package__', '__doc__', '__name__', 'TestCommon', 'op']
test instance prepared (1 test(s)) sfepy: reading mesh [line2, tri3, quad4, tetra4, hexa8] (/home/rpezer/Software/sfepy/meshes/3d/cylinder.vtk)... sfepy: ...done in 0.02 s
Traceback (most recent call last): File "run_tests.py", line 206, in <module> main() File "run_tests.py", line 197, in main run_tests(stats, dirname, [filename]) File "run_tests.py", line 131, in run_tests n_fail, n_total, test_time = run_test(conf_name, options) File "run_tests.py", line 99, in run_test ok, n_fail, n_total = test.run(options.debug) File "/home/rpezer/Software/sfepy/sfepy/base/testing.py", line 58, in run ret = test_method() File "/home/rpezer/Software/sfepy/tests/test_mesh_smoothing.py", line 45, in test_mesh_smoothing vol0 = get_volume(conn, mesh.coors) File "/home/rpezer/Software/sfepy/tests/test_mesh_smoothing.py", line 26, in get_volume vols = mul * dets_fast(mtx.copy()) File "/home/rpezer/Software/sfepy/sfepy/linalg/utils.py", line 80, in dets_fast lapack_routine = lapack_lite.dgetrf AttributeError: 'module' object has no attribute 'dgetrf' I checked the file sfepy/linalg/utils.py and found out that numpy 1.9.2 [MKL] lapack_lite really has no dgetrf (older version do have) attribute. It seems to me easy to fix but maybe I am too naive. Any suggestions?
This should be fixed now by Vladimir.
r.
On 06/24/2015 03:19 PM, Robert Cimrman wrote:
Hi Robert,
thanks for the bug report. I guess the fix is just replacing dets_fast() with numpy.linalg.det(), as it is vectorized in recent numpy versions. We will check it and fix it soon.
r.
On 06/24/2015 12:55 PM, Robert Pezer wrote:
After normal inplace build process (ubuntu 12.04 64bit, Anaconda+python 2.7.9) I run testing and got one failure in module test_mesh_smoothing.py Here is the output of the command: % test_mesh_smoothing.py <<< directory: tests, test files: 1 <<< tests/test_mesh_smoothing.py sfepy: left over: ['verbose', '__builtins__', '_filename', '__file__', 'get_volume', '__package__', '__doc__', '__name__', 'TestCommon', 'op']
test instance prepared (1 test(s)) sfepy: reading mesh [line2, tri3, quad4, tetra4, hexa8] (/home/rpezer/Software/sfepy/meshes/3d/cylinder.vtk)... sfepy: ...done in 0.02 s
Traceback (most recent call last): File "run_tests.py", line 206, in <module> main() File "run_tests.py", line 197, in main run_tests(stats, dirname, [filename]) File "run_tests.py", line 131, in run_tests n_fail, n_total, test_time = run_test(conf_name, options) File "run_tests.py", line 99, in run_test ok, n_fail, n_total = test.run(options.debug) File "/home/rpezer/Software/sfepy/sfepy/base/testing.py", line 58, in run ret = test_method() File "/home/rpezer/Software/sfepy/tests/test_mesh_smoothing.py", line 45, in test_mesh_smoothing vol0 = get_volume(conn, mesh.coors) File "/home/rpezer/Software/sfepy/tests/test_mesh_smoothing.py", line 26, in get_volume vols = mul * dets_fast(mtx.copy()) File "/home/rpezer/Software/sfepy/sfepy/linalg/utils.py", line 80, in dets_fast lapack_routine = lapack_lite.dgetrf AttributeError: 'module' object has no attribute 'dgetrf' I checked the file sfepy/linalg/utils.py and found out that numpy 1.9.2 [MKL] lapack_lite really has no dgetrf (older version do have) attribute. It seems to me easy to fix but maybe I am too naive. Any suggestions?
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Robert Cimrman -
Robert Pezer